Jobs

Jobs in Bioinformatics, Genomics and Life Science

Job Alerts in this week (April , 2019)


Update on April 17, 2019


Bioinformatics Postdoctoral Fellow

We are looking for a highly motivated bioinformatics postdoctoral fellow or bioinformatics analyst interested in investigating inter- and intra-tumor genetic heterogeneity in cancers. The projects are based on high-depth bulk tumor sequencing and single-cell sequencing analysis, coupled with high-throughput functional genomics approaches to identify drivers of rare types of breast and endometrial cancer. For the postdoctoral position, applicants should hold a PhD degree in bioinformatics and have previous experience and track record in massively parallel sequencing data analysis. For the bioinformatics analyst position, experience and track record in massively parallel sequencing data analysis is essential.

In addition to lab bench researchers and pathology research fellows, our group currently has four bioinformaticians and our own high performance computing set up. We are seeking to expand our bioinformatics group to interrogate the data currently being generated in our in-house projects. We offer competitive salaries and benefit packages. The positions are available, initially, for up to three years.

Informal inquiries may be made to Britta Weigelt at weigeltb@mskcc.org or Jorge Reis-Filho at reisfilj@mskcc.org


Scientist - Bioinformatics, Cancer Immunology

As an active team member of the Exploratory Bioinformatics group within Cancer Immunology and Immune Modulation (CI & IM) at Boehringer-Ingelheim’s US research facility in Ridgefield, CT, the successful candidate will contribute to large-scale analysis and data mining of single-cell genomic data, and to the application of pathology informatics/driven machine learning methods to digitally assess the human tumor microenvironment. As an employee of Boehringer Ingelheim, you will actively contribute to the discovery, development and delivery of our products to our patients and customers. Our global presence provides opportunity for all employees to collaborate internationally, offering visibility and opportunity to directly contribute to the companies' success. We realize that our strength and competitive advantage lie with our people. We support our employees in a number of ways to foster a healthy working environment, meaningful work, diversity and inclusion, mobility, networking and work-life balance. Our competitive compensation and benefit programs reflect Boehringer Ingelheim's high regard for our employees.

Scientist III Requirements:

  • Master’s degree from an accredited institution with three-plus (3+) years of experience in a related scientific discipline (Computer Science, Genomics, Biostatistics or Bioinformatics preferred) OR Bachelor’s degree from an accredited institution with seven-plus (7+) years of experience in a STEM discipline.
  • The successful candidate will have experience with more than one of the following: analyzing next-generation sequencing (NGS) data (e.g., single-cell genomics), functional genomics, facility with statistics for big data analysis, or multi-omics data integration
  • Good knowledge of existing bioinformatics databases and file formats
  • In depth understanding of computational methods for NGS analysis and the usage of public data resources required; good understanding of NGS protocols is a plus
  • Strong hands-on skills in relevant programming languages (e.g., R, Python, UNIX/Linux, UNIX bash shell scripting), statistical software, visualization tools, and relevant R/Bioconductor packages

Scientist IV Requirements:

  • Master’s degree from an accredited institution with six-plus (6+) years of experience in a related scientific discipline (Computer Science, Genomics, Biostatistics or Bioinformatics preferred) OR Bachelor’s degree from an accredited institution with ten-plus (10+) years of experience in a STEM discipline.
  • The successful candidate will have experience with more than one of the following; analyzing next-generation sequencing (NGS) data (e.g., single-cell genomics), functional genomics, facility with statistics for big data analysis, or multi-omics data integration
  • Good knowledge of existing bioinformatics databases and file formats
  • In depth understanding of computational methods for NGS analysis and the usage of public data resources required; good understanding of NGS protocols is a plus
  • Strong hands-on skills in relevant programming languages (e.g., R, Python, UNIX/Linux, UNIX bash shell scripting), statistical software, visualization tools, and relevant R/Bioconductor packages.

For detail click here


Posted on April 15, 2019

Two Postdoc positions in Single Cell Genomics

The Novo Nordisk Foundation Center for Basic Metabolic Research (CBMR) was established in 2010 to conduct fundamental research on metabolism. It is part of the Faculty of Health and Medical Sciences, University of Copenhagen. The Center has around 200 employees from all over the world and represents a highly international research environment characterised by teamwork and collaborations across a range of biomedical disciplines. We moved into new laboratories, offices and meeting rooms in the Maersk Tower in summer 2017.

The postdoctoral fellows will analyze large-scale single cell transcriptomics and single cell epigenetics data of the mammalian brain in the context of metabolic health and disease (on a project that is generously funded). The work will be focused on identifying central nervous system mechanisms underlying weight- and blood glucose regulation. Towards that aim, the successful applicant will leverage lab data from in vivo mouse studies and single nuclei RNA sequencing to study metabolic disease in the context of mouse and human brain development.

Profile
We are looking for two highly motivated and enthusiastic scientists, who ideally have the following competencies and qualifications:
  • A PhD degree in biomedical or natural sciences
  • Solid expertise in programming (Python, R, machine learning)
  • Experience in generation and analysis of RNA sequencing data
  • Basic understanding of biology human genetics
  • Ideally a basic understanding of developmental biology and neuroscience
  • An ambitious, independent and critical mind-set

Application deadline: 28 April 2019 at 23.59pm CET.

For detail click here


Bioinformatician at the Postdoc and Instructor/ Senior Staff level

The Peters and Sette labs at the La Jolla Institute for Immunology (LJI) have recently received multiple long term NIH grants to fund biomedical research with a significant component in bioinformatics starting in 2019. This has resulted in multiple opportunities to join our interdisciplinary team of scientists working towards understanding, preventing and curing immune related diseases including infections, allergies and cancer.

Applicants are encouraged to indicate one or more potential matches to the specific advertised positions in their application, but there is also the possibility to create custom positions for applicants that do not match the specific advertised positions but have outstanding skills in at least two of the following areas:

  • Software development (programming in Python preferred, or proficiency in other programming languages; Unix Shell; version control
  • Immunology (especially adaptive immunity and epitope recognition)
  • Data analysis techniques (statistics, data visualization, machine learning)
  • Knowledge representation (database systems, RDF/OWL, OBO ontologies)
  • Experimental data analysis (RNA-Seq, flow/mass cytometry, single cell analysis)

For detail click here


Posted on April 12, 2019

Two postdoctoral positions in machine learning and biological networks

Two postdoctoral positions are immediately available for up to 3 years in NY City to work on deep learning and biological networks. This is a collaboration between the lab of Hernan Makse and Lucas Parra at City College of New York with Memorial Sloan Kettering Cancer Center in a newly formed MSK-CCNY Partnership for AI. The goal is to build an integrative model of biological networks to detect and cure cancers of the breast and brain. Email hmakse@ccny.cuny.edu and parra@ccny.cuny.edu with a resume, a list of recommenders and research interest.

For detail click here


Postdocs in single-cell and regulatory genomic/ machine learning

We are a creative and energetic team at UT Southwestern's Green Center for Reproductive Biology, and we are intensely focused on unraveling the functions of the non-coding genome. While this “dark matter” comprises the vast majority of mammalian genomes, our understanding of its function is only in its infancy. We know that it holds a wealth of regulatory information to precisely coordinate gene expression across all of an organism’s cell types. Underscoring their functional significance, most disease-associated loci are non-coding.

We are actively seeking highly motivated students and postdocs with a keen interest in gene regulation, and particularly in developing massively parallel single-cell and genome editing approaches to understand and engineer cellular circuits.

Prospective postdocs: We are seeking new colleagues with diverse training experiences, and we are especially excited about individuals with experience in:

  1. single-cell and regulatory genomics
  2. statistical and machine learning
  3. mammalian gene regulation

Please contact: Gary.Hon@utsouthwestern.edu .

For detail click here


Posted on April 10, 2019

Research Associate (postdoc) in the field of clinical and translational medicine informatics

The Luxembourg Centre for Systems Biomedicine (LCSB) of the University of Luxembourg is a highly dynamic working environment. The LCSB is leading the Luxembourgish representation in the European bioinformatics infrastructure ELIXIR. This Luxembourgish ELXIR Node hosted in the LCSB is dedicated to translational medicine data management. To support a newly funded Innovative Medicine Initiative (IMI) FAIRplus project focusing on developing the guidelines and tools needed to make IMI and EFPIA clinical and translational data FAIR, we are looking for a Research Associate (postdoc) in the field of clinical and translational medicine informatics (f/m).

Your Role

  • Involve in the development of transparent criteria for the selection of data sources within completed and ongoing IMI projects for FAIRification – the process to improve the level of Findability, Accessibility, Interoperability and Reusability of data.
  • Identify, recommend and implement existing metadata standards for different data types (e.g. pre-clinical/clinical: phenotype, imaging, genomic, and other molecular data).
  • Implementation and reporting of FAIR Metrics for IMI FAIRfication.
  • FAIR transformation of datasets.
  • Maintenance, further development of ELIXIR-Luxembourg IMI data catalogue (https://datacatalog.elixir-luxembourg.org) and collection of study metadata into it.

Your Profile

  • A PhD in computer science, computational biology or bioinformatics, with an interest in biomedical informatics and translational medicin
  • Good knowledge of FAIR – ‘Findable, Accessible, Interoperable and Reusable’ data principles
  • Proven work experience with clinical and translational medicine data curation, harmonisation and standardisation
  • Knowledge of standards, controlled terminologies and ontologies
  • Computer programming (Java or Perl or Python), web development (HTML, DHTML, CSS, JavaScript) skills and knowledge of RDBMS (MySQL or PostgreSQL) are a requirement.
  • Knowledge of clinical and translational landscape, especially I2B2 (https://www.i2b2.org), tranSMART (http://transmartfoundation.org), Electronic Data Capturing (EDC) systems like REDCap (https://www.project-redcap.org) and/or OpenClinica (https://www.openclinica.com) is advantageous, but not compulsory.

Please apply online until 31st May 2019

For detail click here


Computational Post-Doctoral Fellow applied to single-cell epigenomics and 3D genomes in cancer

Fully affiliated with the University of Toronto and home to members of the Faculties of Medicine, The Princess Margaret Cancer Centre is part of one of Canada's largest hospital-based research centers. As one of the top five cancer research institutes in North America The Princess Margaret Cancer Centre fosters a rich academic and collegial environment. Combining research excellence with state-of-the-art infrastructure, The Princess Margaret Cancer Centre is investing heavily in strategic research platforms and has developed research capacity in areas such as Epigenomics, Genomics, Proteomics, Clinical Technologies, and Clinical Studies to drive investigations into human biology and health care now and into the future. As part of The Princess Margaret Cancer Centre Epigenomics program and affiliated with the Ontario Institute for Cancer Research (OICR), Dr. Mathieu Lupien is currently seeking applications for a computational post-doctoral fellow applied to functional epigenomics.

The work will focus on defining the interplay between epigenomics, metabolomics and transcriptional regulation in cancer. The successful candidate will be involved in the development of novel algorithms and software for the integrative analyzes of various genome-wide datasets from epigenetic/chromatin assays (ChIP-seq, ATAC-seq, RNA-seq, etc), three dimensional organization of genomes (HiC) and single cell assays (scRNA-seq and scATAC-seq).

Please forward current curriculum vitae including a publication list and names of three references to: mlupien@uhnres.utoronto.ca

For detail click here


Posted on April 08, 2019

Postdoc in Big Data and Machine Learning in Food Science

Modern food science and food processing generates enormous amounts of continuously incoming data that needs to be analyzed quickly and reliably and current methods for data analysis are challenged to the limit. For this reason, DIKU (Department of Computer Science), FOOD (Department of Food Science) at the University of Copenhagen and FOSS Analytical have decided to join forces and invest in new groundbreaking research based on machine learning methods with the purpose to extract and explore relevant information from continuously developing big data sets.

We seek an entrepreneurial postdoc for a 3 year position who has obtained a Ph.D. degree in data analysis from a computer science department (or similar), and who has a genuine interest in developing new methods for deep data processing, including exploration and regression of complex food related systems. The candidate must have an academic experience including topics such as:
  • Image analysis methodologies
  • Artificial intelligence
  • Machine/deep learning
  • Data streaming and storage
  • Chemometrics
The candidate must be ready for the challenges of creating information from gigantic data sets. The position is sponsored as a collaboration between DIKU, FOOD, and FOSS Analytical A/S. FOSS Analytical A/S is developing advanced analytical instruments for laboratory and process analytics in the food and agricultural industry.
The position is open from 1st May 2019 or as soon as possible thereafter.

Computational Biologist/Bioinformatics Postdoctoral Position

A position is available at the La Jolla Institute for Immunology in the research group of Dr. Klaus Ley to perform bioinformatics research in immunology in the field atherosclerosis. The project will include analysis of RNA sequencing, single cell RNA-Seq, TCR and BCR assembly in immune cells, as well as high-dimensional analysis and clustering of Ab-Seq data.

Qualifications: The successful candidate should have a PhD or MD. Knowledge of Matlab and R is required. Knowledge of bioinformatics, immunology, atherosclerosis, or biology is a plus.

About LJI: For three consecutive years, LJI has been ranked as one of the best places to work in San Diego by the San Diego Business Journal. The Institute hosts 24 world-renowned faculty and over 100 postdoctoral researchers hailing from 21+ different countries. LJI is located in the Science Research Park on the campus of UC San Diego, with easy access to the San Diego life sciences community and all that the area has to offer.

For detail click here


Posted on April 05, 2019

Postdoctoral Position - Functional Cancer Genomics

The Bell laboratory is seeking a highly-motivated Postdoctoral candidate committed to research into the molecular underpinnings of human cancer. The overarching goal of the laboratory is to identify pathogenic driver genes that underlie the development of the most clinically aggressive forms of human endometrial cancer. Our research entails the functional annotation of somatic mutations in candidate driver genes identified by next generation sequencing of endometrial tumor tissues. The successful applicant will apply detailed molecular, biochemical, and cellular approaches to functionally discriminate driver mutations from passenger mutations in selected genes-of-interest. Access to extensive core facilities including cores in bioinformatics, microarrays, copy number analysis, flow cytometry, cytogenetics, and a transgenic mouse core, offers the trainee wide latitude in the design and pursuit of their research questions.

Qualifications: Successful candidates should have or be very close to obtaining a PhD, and have less than two years of Postdoctoral experience. Applicants should have a strong background in cancer research, as well as proven expertise in molecular/cellular biology and biochemistry. A demonstrated record of scientific accomplishment evidenced by at least one first-author paper, a strong work ethic, and strong intellectual commitments to cancer research and to the individual research project, are essential. The successful candidate should possess excellent interpersonal and organizational skills, and stellar communication skills with fluency in both spoken and written English.

For detail click here


Research Associate (postdoc) in the field of clinical and translational medicine informatics

The Luxembourg Centre for Systems Biomedicine (LCSB) of the University of Luxembourg is a highly dynamic working environment. The LCSB is leading the Luxembourgish representation in the European bioinformatics infrastructure ELIXIR. This Luxembourgish ELXIR Node hosted in the LCSB is dedicated to translational medicine data management.

Your Role

  • Involve in the development of transparent criteria for the selection of data sources within completed and ongoing IMI projects for FAIRification – the process to improve the level of Findability, Accessibility, Interoperability and Reusability of data.
  • Identify, recommend and implement existing metadata standards for different data types (e.g. pre-clinical/clinical: phenotype, imaging, genomic, and other molecular data).
  • Implementation and reporting of FAIR Metrics for IMI FAIRfication.
  • FAIR transformation of datasets.

Your Profile

  • A PhD in computer science, computational biology or bioinformatics, with an interest in biomedical informatics and translational medicin
  • Good knowledge of FAIR – ‘Findable, Accessible, Interoperable and Reusable’ data principles
  • Proven work experience with clinical and translational medicine data curation, harmonisation and standardisation
  • Knowledge of standards, controlled terminologies and ontologies
  • Computer programming (Java or Perl or Python), web development (HTML, DHTML, CSS, JavaScript) skills and knowledge of RDBMS (MySQL or PostgreSQL) are a requirement.
  • Knowledge of clinical and translational landscape, especially I2B2 (https://www.i2b2.org), tranSMART (http://transmartfoundation.org), Electronic Data Capturing (EDC) systems like REDCap (https://www.project-redcap.org) and/or OpenClinica (https://www.openclinica.com) is advantageous, but not compulsory.

Please apply online until 31st May 2019

For detail click here


Posted on April 03, 2019

Postdoctoral Position in Bioinformatics: Brain Microcircuits in Psychiatric Diseases

The main aim of the team, headed by Dr. Michal Slezak, is to understand biological correlates of phenotypes related to human psychiatric diseases. Using advanced behavioural, genetic and physiological approaches combined with computational methods we identify genes underlying glial dysfunction and we use this knowledge to rescue disease-related phenotypes.

The position

We are offering a senior postdoctoral position for an enthusiastic researcher to broaden our think-tank. The ideal candidate has a PhD in bioinformatics, a proven track record evidenced by prior publications and is capable of independent thinking. The main responsibilities include:

  • Statistical analysis of data obtained from cell type- and brain-region-specific gene expression data from rodent models and human brain samples, as well as cell cultures differentiated from patient-specific induced pluripotent stem cells (iPSC);
  • Integration of data from these distinct models with public databases, to validate original findings in the context of the cell type, brain region and disease (e.g. GSEA);
  • Pathway analysis to conclude genetic networks and signaling pathways affected by a disease state or targeted genetic manipulation (e.g. IPA);
  • Contribution to the design of experimental strategies to translate the results of transcriptional surveys to phenotypic studies;
  • Collaboration with bioinformatics experts of the industry partner, Boehringer Ingelheim.
  • Monitoring the field of psychiatric research for novel methods and pathways of interest;

Required skills

  • PhD in the area of bioinformatics, computational biology, systems biology or similar
  • Knowledge in statistical methods in the context of biological systems
  • Prior experience with RNAseq analysis
  • Advanced programming skills in R and/or Python
  • Independent and creative thinking
  • Very good work organization skills
  • Experience to work in interdisciplinary teams
  • Excellent communication skills in English

Please submit your application to the attention of Dr. Michal Slezak before 15th April 2019 via the online application system on this website.

For detail click here


Postdoctoral Research Fellow Bioinformatics

The Newman Lab, in the Institute for Stem Cell Biology and Regenerative Medicine and the Department of Biomedical Data Science at Stanford University, is seeking highly creative and driven postdoctoral fellows interested in working at the intersection of biomedical data science and cancer/stem cell biology. A major goal of the lab is the development of innovative computational methods that advance our understanding of normal and neoplastic tissue composition at a molecular and cellular level. As part of this effort, we employ a variety of genomics approaches, including high throughput sequencing and emerging single cell profiling technologies.

Successful applicants will be expected to leverage computational tools to address basic or clinical research questions in diverse areas of cancer/stem cell biology, including tumor differentiation and development, the cellular composition of the tumor microenvironment, and cell lineage relationships in malignant and normal tissues. Opportunities for wet lab biologists interested in data science will also be available. In addition, there will be ample opportunities to work closely with basic and clinical science collaborators, both at Stanford and elsewhere.

  • Completed or close to completed a PhD or MD/PhD an applied quantitative discipline, such as computational biology, bioinformatics, or biostatistics, with a strong interest in either basic or translational research
  • Strong background in machine learning and predictive modeling desired
  • Previous experience in common programming languages (e.g., R, Python) and genomic data analysis.
  • Less than two years of postdoctoral training are preferred.
  • Prior evidence of ambition, productivity, and creativity
  • A track record of conference presentations and first author peer-reviewed publications

For detail click here


Posted on April 01, 2019

The Novartis Innovation Postdoctoral Fellowship

At Novartis, we are committed to training the next generation of scientific leaders. The Novartis Innovation Postdoctoral Fellowship offers aspiring drug hunters a unique opportunity to join our teams at the Novartis Institutes for BioMedical Research (NIBR), the innovation engine of Novartis. Mentored by NIBR scientific leaders, Innovation Fellows will gain first-hand experience in the design and development of breakthrough therapies and innovative technologies. We are looking for Innovation Fellows who will bring their scientific creativity and natural curiosity to tackle important therapeutic challenges. Join us as we reimagine medicine together.

Program highlights

  • Program duration:  2-3 years
  • Boot camp: Innovation Fellows will attend a fully immersive boot camp covering the fundamentals of drug discovery and development
  • Mentorship & access to technology: Innovation Fellows will have access to NIBR state-of-the-art technology platforms and be mentored by selected NIBR scientific leaders
  • Rotations: Innovation Fellows will benefit from a tailored rotation schedule in both scientific and business-related disciplines
  • Fireside chats with local leaders in academia and industry
  • Community: Innovation Fellows will join Discovery Fellows in our vibrant postdoctoral community with dedicated events, including our annual Research Day Symposium

Who are the Innovation Fellows?

  • Early-career scientists, within 3 years of receiving their MD and/or PhD (students in their last 4 months of graduation are eligible to apply)
  • All scientific and technical disciplines welcome (e.g. biology, biophysics, chemical biology, chemistry, computational and data sciences, engineering, and more)
  • Strong publication track record or other scientific achievements
  • Entrepreneurial mindset and boundless curiosity
  • Dedicated to translating scientific discoveries into medicines that improve human health

Please submit your CV and cover letter by May 1, 2019 for consideration. Include a potential area of unmet medical need where you believe you could make an impact.

For detail click here


Postdoc in Bioinformatics

The lab uses the latest gene editing technology (including CRISPR/Cas9 and CRISPR/Cas9 screening) and new computational algorithms to better understand how coding and non-coding elements function especially in human cancer, and to further identify novel molecular targets to inform precision medicine. We are particularly interested in applying new computer science, artificial intelligence and machine learning methods to address challenges in biomedical and biological big data problems.

We are part of the Center for Genetic Medicine Research at Children’s National Medical Center. We are also affiliated with Department of Genomics and Precision Medicine, The George Washington School of Medicine and Health Sciences.

Computational biology postdoc positions are available in the laboratory of Wei Li, Center for Genetic Medicine Research, Children’s National Medical Center, and Department of Genomics and Precision Medicine, The George Washington School of Medicine and Health Sciences at Washington, DC.

For detail click here


Posted on March 29, 2019

Postdoctoral researcher in data science and genomics

The Department of Medical Epidemiology and Biostatistics (MEB) is among the largest departments of epidemiology in Europe with special focus on increasing our knowledge of the aetiology of different diseases. Our department consists of researchers, doctoral students, biostatisticians, data collectors and database administrators as well as administrative personnel, in total some 250 staff. The department is situated at campus Solna.

Duties We seek an outstanding and innovative postdoc to join our team. We are data-rich, and need a professional-level data scientist to maximize our understanding of the data we have collected and to identify new data that we need to make. This individual should be passionately committed to furthering knowledge of severe psychiatric disorders in order to improve the lives of people. The successful applicant will join the KI-PGI team and conduct research on the genomics and functional genomics of severe psychiatric disorders leveraging “multi-omic” approaches and/or ML-approaches to high-dimensional and complex register data.

Entry requirements

  • KI Postdoctoral Researchers must have obtained a PhD within the past 3 years (extension might be granted for sickness, parental leave, clinical work, union work or similar circumstances).
  • Applicants should have a PhD in computer science, physics, mathematics, engineering, biostatistics, or genetics. We will consider those with PhDs in other areas but who have advanced/relevant data science skills (e.g., machine learning).
  • Applicants should have substantial prior experience in professional analysis of multiple types of modern genomic and functional genomic datasets. These might include: GWAS, exome sequencing, whole genome sequencing, RNA-sequencing.
  • Modern genomics requires advanced skills in programming (e.g., R, python, SAS), use of standard software packages (e.g., PLINK, GATK), flexibly manipulating large datasets, bioinformatic integration, and pathway analysis.

Last application date 05.Apr.2019

For detail click here


Computational Biologist

One staff scientist position is available in October of 2019 in the Laboratory of Genome Integrity (Center for Cancer Research, National Cancer Institute, National Institutes of Health) to use computational methods in the study of mechanisms involved in DNA double-strand break repair and the roles of repair and replication proteins in a variety of cancers that include leukemias and breast cancers, using mouse models. The ideal candidate will play a leading role in providing computational and biological insight by analyzing large data sets derived from genomics, epigenetics and proteomics experiments. The position will emphasize efforts to understand gene regulation, chromatin, regulatory and coding variation and its relation to cancer. The position will support all laboratory investigators who use applications involving high-throughput DNA sequencing methods for a variety of assays, including RNA-seq, exon sequencing, ATAC-seq, DNase-seq, ChIP-seq and newer, cutting-edge methodologies such as END-seq that have recently been developed.

Qualified candidates should have:

  • A Ph.D. in computational biology, bioinformatics, mathematics, or related field with no more than 5 years of postdoc experience
  • Research fellows in the NCI are encouraged to apply
  • Ability to program in Python/Perl and R/Matlab in Unix environment are required
  • Knowledge of SQL will be considered a plus
  • Demonstrated applied bioinformatics/computational proficiency as evidenced by relevant publications in peer-reviewed journals.

For detail click here


Posted on March 27, 2019

Bioinformatics Specialist

The Byrne lab is recruiting a Bioinformatics Specialist to work on high throughput sequencing data. The individual will analyze datasets, create a pipeline for further data analysis, and collaborate with other team members to interpret results.

A background in computational biology, familiarity with Illumina sequencing, as well as R and Python will be important skills for the successful candidate. Other aspects of the position will include some wetlab work, RNA-Seq, ELISA, PCR, cell culture and protein structure analysis. Bachelor’s degree in bioinformatics Proficiency in R Familiarity with Python Experience with analysis of Illumina sequencing Experience in setting up data analysis pipelines.

For detail click here


Postdoctoral Positions in (Epi)Genomics of Aging

The Vijg Laboratory at the Albert Einstein College of Medicine is actively seeking 1-2 highly motivated postdoctoral fellows interested in studying (epi)genome instability in relation to aging.

The Vijg lab is interested in understanding genetic and molecular mechanisms that underlie intrinsic aging and its relationship with age-related disease in humans, such as cancer. The lab has developed single-cell whole genome sequencing approaches to study various types of genome and epigenome instability in primary tissues. Current work is focused on studying age-related changes in the genome and epigenome of rodent species with a broad range of life spans, as well as age-related changes in the (epi)genome of humans with exceptionally long life-span (centenarians).

To apply, please email your CV and a short cover letter summarizing your experience, along with the contact information of three references to jan.vijg@einstein.yu.edu addressed to Jan Vijg, Ph.D., Professor of Genetics, Albert Einstein College of Medicine, New York, NY

For detail click here


Posted on March 25, 2019

Research bioinformatician with focus on translational medicine

As a bioinformatician/computational biologist you want to matter. You really want to make a difference in the lives of people with a cardiovascular condition. Now and in the future. That is why you consciously choose to work as a bioinformatician in the Department of Cardiology of the UMCG, a dynamic department where research and clinical practice are intertwined. We translate problems that we experience in clinical practice into scientific research.

We are looking for a highly motivated and enthusiastic bioinformatician/computational biologist with interest in the interaction between human functional genomics genetics, epigenetics, transcriptomics, proteomics, and metabolomics. He/she would further strengthen and expand the research of the translational unit in the Department of Cardiology. The post-holder will be working closely with scientific staff to evaluate, develop, test and validate new algorithms and bioinformatics tools to assist in the interpretation of coding and noncoding RNA (e.g. microRNA, circular RNAs), DNA variants (SNPs, insertions, deletions, inversions), protein-protein interaction networks, machinelearning and the provision of bioinformatics training for staff within the department.

What do we need

  • The candidate has a Masters or PhD in bioinformatics/computational biology, genomics, medical biology (with substantial components in mathematics, physics, computer science or information technology), or biology (with substantial components in bioinformatics, computer science, mathematics and statistics)
  • A working understanding of basic biological concepts in biochemistry, molecular biology, statistical genomics, human genetics and a willingness for clinical translation of your work is required
  • Experience in Omics data-analyses, integrative biology or systems biology/pathway medicine is a pre
  • You will have experience with a variety of demonstrated skills with at least one of the following; C++, Perl, Python, JAVA, R or shell scripting and relational databases
  • Experience with working in UNIX/LINUX is required

Apply no later than 05 May 2019

For detail click here


Postdoctoral Position in Bioinformatics and Proteomics

The Max Planck Institute of Immunobiology and Epigenetics in Freiburg (Germany) has an opening for a postdoc in the Proteomics Research Facility for an initial period of three years. Our Institute investigates the molecular basis of the immune response and other topics of the developmental biology, such as the origin and differentiation of the immune cells as well as the development of vertebrate embryo. Another main focus of the Institute is Epigenetics. This area deals with inheritable traits, which are not caused by changes in the DNA sequence.

Your tasks: We are seeking an innovative and highly motivated postdoc to join the proteomics research facility at our institute. The successful candidate will optimize and apply state-of-the-art proteomics approaches including identification, quantification and characterization of proteins and their modifications in samples submitted by in-house collaborators. In combination with bioinformatics tools, the ideal candidate will introduce novel sample preparation and protein analytical workflows to support and further develop ongoing projects in the area of immunobiology, epigenetics and chromatin research as well as in RNA biology.

Your qualifications: The ideal candidate is holding a PhD degree in bioanalytical sciences (e.g. biochemistry, biotechnology or proteomics) with at least three years of training and hands-on expertise in biomolecular mass spectrometry and proteomics technologies. Experience in maintenance and troubleshooting of LC-MS systems as well as in bioinformatics MS data analysis (e.g. by MaxQuant, Perseus, PEAKS Studio, Mascot, Skyline) is absolutely essential for this position. Basic know-how in Linux/Unix and knowledge in programming (R scripts, Python) is highly desirable and considered as a plus. Advanced English communication skills, a high degree of independent work ethic and the ability to function in a team are completing your profile.

Please submit your completed application, including your CV, a short statement of research background/interests and two reference letters via our online application portal by April 23rd, 2019.

For detail click here


Posted on March 22, 2019

Research Associate (Bioinformatics)

The Research Associate/Senior Bioinformatics Scientist position will provide bioinformatics support to clinical genomics and precision medicine research projects with scientific oversight and guidance from Dr. Bradford Powell, MD, PhD, and Dr. Jonathan Berg, MD, PhD, who are collaborating on several related projects. These projects require processing and high-level analysis of genomic sequence data to support research questions driven by ongoing translational genomic medicine projects. The successful candidate will lead efforts to develop new and existing computational pipelines and analysis software, and contribute to the analysis and interpretation of the data that are generated. The position will emphasize collaborative work with colleagues at UNC, including extensive interactions with the Renaissance Computing Institute bioinformatics group.

Major responsibilities of this position include managing and overseeing implementation of a broad range of bioinformatics tools needed to support genomic medicine research. The ideal candidate will also be well-versed in genetics and genomic medicine. Candidates must have previous experience in management of small development groups or possess the interpersonal skills to supervise other junior members of the team. Programming experience should include: scripting languages used to manipulate large datasets and develop reproducible analysis pipelines (e.g., Python or R); UNIX/Linux and high-throughput research cluster computing; SQL/relational databases (other non-SQL database experience would be useful. Experience with standard genomics packages used for variant calling (BWA, Broad best practices, FreeBayes) is preferred. Other non-SQL database experience would be useful.

Position Number: NF0003633

Closing Date: 04/15/2019

For detail click here


Postdoc in bioinformatics: multi-omics analyses in inflammatory bowel diseases

The University Medical Centre Groningen (UMCG), located in the center of Groningen, is one of the Netherlands’ eight university medical centers. It has an ambitious, dynamic, and international environment with state-of-the-art facilities. The research section is located in the new European Research Institute for the Biology of Aging (ERIBA) along with other departments that share an interest in applying systems biological approaches to the study of the genetic and microbiome factors involved in human disease and aging, in human cells and in model organisms. The Department of Gastroenterology and Hepatology and the department of Genetics have a strong collaboration and work widely with other groups at a national and international level.

There is extensive experience in analysing multi-omics data integrating genome, microbiome, bulk and single cell RNAsequencing and other layers of data in relation to clinical outcomes. The postdoc position is funded through an university-private collaboration between the UMCG and Takeda Pharmaceuticals. You must have a proven track record in statistical analyzing large omics datasets and excellent skills in statistics, mathematics, and programming (Python, R ) and experience with working in a high performance computing / Linux environment.

You can apply until 7 April 2019.

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Posted on March 20, 2019

Postdoctoral fellow position in Bioinformatics and Computational Biology

A postdoctoral fellow position is open in Chen’s group in the department of Bioinformatics and Computational Biology at MD Anderson Cancer Center.

Duties & Responsibilities: Develop computational methods and perform statistical analyses to interpret large-scale sequencing data towards understanding the etiology and the evolution of cancer.

Qualifications: An ideal applicant is expected to have a strong career interest and a record of success in scientific research; a Ph.D. in a quantitative field such as bioinformatics, genetics and genomics, computer science, engineering, math and physics; broad experience in interdisciplinary research and demonstrated strength in at least one of the following areas: algorithm design, statistical analysis, and cancer biology.

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Postdoctoral Positions (Bioinformatics and Systems Biology)

Our lab has two open Postdoctoral positions. Both positions concern RNA biology research, centering on RNA processing and metabolism. One position (bioinformatics) is based on computational approaches. The other (systems biology) is focused on wet lab techniques with bioinformatic components. Our lab uses molecular biology, genomics, and computational approaches to study RNA biology, focusing on the mechanisms and consequences of alternative cleavage and polyadenylation (APA), and its interplays with other gene regulatory mechanisms, such as transcriptional dynamics, epigenetics, and mRNA metabolism.

The successful candidate for the bioinformatics position will primarily study RNA processing variations in normal and diseased populations, especially neurological disorders and cancers. Development of novel algorithms for specific genomic analyses is expected. There will also be collaborations with experimental scientists for validation.

Interested individuals should contact Dr. Bin Tian by email (btian@rutgers.edu) with a CV including a summary of previous research and contact information of 2-3 referees. We offer competitive salary and employee benefits. The salary will be commensurate with experience.

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Posted on March 18, 2019

POSTDOCTORAL POSITIONS--GENOMICS & BIOINFORMATICS RESEARCH

The Institute for Genome Sciences at the University of Maryland School of Medicine encompasses an inter-disciplinary, multi‐departmental team of collaborative investigators with a broad research program related to the genomics and bioinformatics of disease. Postdoctoral fellows at IGS benefit from a community of interactive research labs, bioinformatics experts and a variety of state-of-the-art sequencing, and computational resources in a world-class institute dedicated to basic and translational genomic-based research.

The Institute for Genome Sciences (IGS) currently has multiple postdoctoral fellow positions available to work on the Genome Center for Infectious Disease (GCID) project. GCID is part of an NIAID U19 to study host-pathogen-microbiome interactions and disease outcomes. Subprojects within the grant are specific to bacterial, fungal, or parasitic pathogens.

Qualified applicants will have demonstrated experience in applying laboratory and computational experimental approaches to generate and analyze large datasets. The selected candidates will have a doctoral degree in Microbiology, Genetics, Evolution, Biology, Computer Science, or a related field. Experience with statistical analyses and/or programming in Perl, Python, C/C++ and R is required. The ideal applicants will have experience in genomics and/or bioinformatics with a background in microbiology and/or molecular evolution. Qualified candidates need to be independent, highly-motivated, able to work collaboratively, and demonstrate skill in scientific writing. The interview panel will consist of PIs leading individual subprojects. Based on experience and areas of interest, selected candidates will work within designated lab groups.

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Post Doctoral Fellow (EMULSION Programme – Computational Biologist)

We are looking to recruit a highly motivated and experience individual to take on the key role of managing and analyzing the clinical and Omics dataset generated in the program. EMULSION programme is a multi-institutional collaboration between Hospitals and research institutions that focuses on developing diagnostic and therapeutic solutions for fatty liver disease. Successful Candidate will be working full time in the Genome Institute of Singapore (GIS), A*STAR.

The successful applicant will become the anchor computational biologist who manages and analyze the diverse data set generated in the EMULSION programme. This includes large scale transcriptomic datasets, lipid profiles and metabolites profiles of tissue samples derived from a unique Asian patient cohort. This includes dataset generated from in vitro organoid models and in vivo mouse models. The candidate will work closely with fellow wet lab scientist to discover potential disease biomarkers and NAFLD therapeutics target from this unique and large clinical and omics dataset. The candidate will also have an opportunity to lead a small team of Bio-informatics specialist and to interact with over 50 fellow Bio-informatics specialist working in different departments of the institute. This position would be an excellent opportunity for individuals to train and prove themselves as independent investigators.

Requirements :

  • PhD degree in Computational biology or Bioinformatics.
  • Experience in scripting and implementation of algorithms in programming languages including C/C++, Python, Java, R etc.
  • Good foundation in statistic and mathematics.
  • Experience in the use of NGS analysis tools.
  • Background in liver biology or experience in biology projects involving metabolic disease is a plus.
  • Co-authorships on peer-reviewed publications are preferred.

Position Code: SC10326

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Posted on March 15, 2019

Bioinformatician

The University of California, San Francisco (UCSF) is a leading university dedicated to promoting health worldwide through advanced biomedical research, graduate-level education in the life sciences and health professions, and excellence in patient care. It is the only campus in the 10-campus UC system dedicated exclusively to the health sciences. The Department of Neurology is currently the largest recipient of National Institutes of Health (NIH) awards among departments of neurology in US medical schools, and has many notable senior faculty including nine members of the Institute of Medicine, six members of the American Academy of Arts and Sciences, three members of the National Academy of Sciences, and a Nobel laureate.

Required Qualifications

• Bachelor's degree in biological science, computational / programming, or related area and / or equivalent experience / training
• Working knowledge of bioinformatics methods and data structures
• Working knowledge of databases
• Working knowledge of modern biology and applicable field of research
• Working knowledge of application and data security concepts
• Working project management skills
• Interpersonal skills in order to work with both technical and non-technical personnel at various levels in the organization
• Ability to communicate technical information in a clear and concise manner
• Self motivated, able to learn quickly, meet deadlines and demonstrate problem solving skills

Preferred Qualifications

• Master’s degree in bioinformatics or computer science
• Working knowledge of applications programming and web development

post code: 51762BR

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Post Doc Fellow in Bioinformatics

To use their training in human genetics, statistical genetics, and/or bioinformatics to analyze genetic data and/or in molecular biology to perform in vitro functional studies, write and submit manuscripts, plan, design and execute experiments related to an NIH-sponsored research project. The postdoctoral researcher is expected to master human genetics, statistical genetics, and/or bioinformatics as well as have excellent skills to prepare manuscripts and is expected to learn new programs and techniques as needed to accomplish the research project. Optional: the post doc is also an MD with excellent interpersonal skills and able to interact effectively with patients. The postdoc should be resourceful, highly-performing and highly-committed to his/her work and able of taking initiatives, as well as flexible in learning new things. Possible options: part-time and/or remote work.

ESSENTIAL FUNCTIONS:

  • Collects and assembles data for any type of oral or written presentation.
  • Independently develops scientific hypotheses related to ongoing PI’s work.
  • Independently designs analyses and experiments to test hypotheses.
  • Independently carries out or delegates statistical analyses and procedures for experiments.
  • Analyzes results of statistical analyses and experiments independently.
  • Independently prepares oral and written research reports for the PI including, but not limited to: coherently and effectively communicating the research by writing and submitting abstracts and manuscripts, writing grant proposals, specific data summary and reports for grant writing, preparation and submission and oral presentations with corresponding slides’ presentation for PI, local and national meetings.
  • Performs routine and more difficult procedures, analyzes data and coherently presents results in the form of slides, abstracts, manuscripts, and for grant preparation, and is able to present data orally when requested.

Qualifications

Ph.D. in Human Genetics or Statistical Genetics, or MD/PhD, or PhD. Previous experience in an academic lab setting preferred. At least 3 reference contacts are needed.

Par Reference Code 148436

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Posted on March 13, 2019

Bioinformatician in Cancer Genomics

The Integrative Tumor Epidemiology Branch of the NCI Division of Cancer Epidemiology and Genetics (DCEG) is recruiting a bioinformatician to support a research program in molecular epidemiology of cancer, under the direction of Maria Teresa Landi, M.D., Ph.D., senior investigator.

The successful candidate will conduct bioinformatics analyses of large genomics data, such as whole genome sequencing, whole exome sequencing, genome-wide methylation data, ultra-deep target sequencing and others. He/she will be involved in collaborative research with intramural and extramural researchers and several international consortia, with opportunities for a lead role in publications.

Qualifications include a Ph.D. in bioinformatics, cancer genomics, tumor evolution, or related fields. An M.S. degree with several years of experience would be considered. Methodological and analytical skills and excellent written and oral (English) communication are required. Prior postdoctoral training experience in somatic genomics analyses with a history of publications that reflect superb writing skills is highly desirable. Job also requires organizational ability, attention to detail, initiative, flexibility, and an aptitude for multi-tasking, interpersonal relationships, and teamwork. U.S. citizenship is not a requirement.

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Associate Computational Biologist Position, Kadoch Laboratory

The Kadoch Laboratory at the Dana-Farber Cancer Institute, Harvard Medical School, and Broad Institute is seeking a highly qualified post-graduate student (student graduating with BA/BS this Spring/Summer 2019 or in the previous year) to join our team as a Computational Biologist focused at the intersection of cancer biology, epigenetics, and chromatin regulation. Our lab uses multidisciplinary approaches including genomics and epigenomics, systems biology, functional genetic screening, biochemistry, structural biology, and chemical biology, to explore the mechanisms of chromatin remodeling complexes, which are frequently mutated in human cancers and other diseases. Our exciting and diverse set of projects involve collaborations across the Harvard and MIT centers in Boston and Cambridge.

This is a unique opportunity with significant potential for the student to work closely with the PI and carry forward independent projects resulting in presentations and publications. Computational Biologists in our laboratory participate in lab meetings and journal clubs, participate in subgroup meetings, work closely with graduate students and postdocs, and have typically authored several publications prior to entering PhD or MD/PhD programs following their time in our lab.

The successful applicant will have advanced experience in R and/or Python and familiarity with genomics-centered approaches such as ChIP-seq, RNA-seq, ATAC-seq, Hi-C, and others through prior lab research experience as well as undergraduate coursework. The ideal candidate will also have some familiarity with chromatin biology and in reading and dissecting literature in this area.

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Posted on March 11, 2019

Postdoctoral researcher in data science and genomics

The Department of Medical Epidemiology and Biostatistics (MEB) is among the largest departments of epidemiology in Europe with special focus on increasing our knowledge of the aetiology of different diseases. Our department consists of researchers, doctoral students, biostatisticians, data collectors and database administrators as well as administrative personnel, in total some 250 staff. The department is situated at campus Solna.

We seek a new postdoc who will work in the KI-PGI, led by Prof Patrick Sullivan. The KI-PGI is a research program within MEB with 10 year funding from the Swedish Research Council. The KI-PGI begins with fundamental genomic findings and then elucidates the implications for patients, clinicians, and neuroscientists. We are deeply collaborative, and we actively work with at least 10 major genetic, psychiatric, neuroscience, and functional genomic groups.

Duties
We seek an outstanding and innovative postdoc to join our team. We are data-rich, and need a professional-level data scientist to maximize our understanding of the data we have collected and to identify new data that we need to make. This individual should be passionately committed to furthering knowledge of severe psychiatric disorders in order to improve the lives of people. The successful applicant will join the KI-PGI team and conduct research on the genomics and functional genomics of severe psychiatric disorders leveraging “multi-omic” approaches and/or ML-approaches to high-dimensional and complex register data.

Entry requirements

  • KI Postdoctoral Researchers must have obtained a PhD within the past 3 years (extension might be granted for sickness, parental leave, clinical work, union work or similar circumstances).
  • Applicants should have a PhD in computer science, physics, mathematics, engineering, biostatistics, or genetics. We will consider those with PhDs in other areas but who have advanced/relevant data science skills (e.g., machine learning).
  • Applicants should have substantial prior experience in professional analysis of multiple types of modern genomic and functional genomic datasets. These might include: GWAS, exome sequencing, whole genome sequencing, RNA-sequencing.
  • Modern genomics requires advanced skills in programming (e.g., R, python, SAS), use of standard software packages (e.g., PLINK, GATK), flexibly manipulating large datasets, bioinformatic integration, and pathway analysis.

Last application date 29.Mar.2019 11:59 PM CET

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Postdoc positions in Disease Systems Biology

A number of postdoc positions are available in the Translational Disease Systems Biology group at the Novo Nordisk Foundation Center for Protein Research (CPR – www.cpr.ku.dk). The Center has been established at the Faculty of Health and Medical Sciences, University of Copenhagen, to promote basic and applied discovery research on human proteins of medical relevance.

The Translational Disease Systems Biology group led by Søren Brunak focuses on establishing early competitive advantage in disease-relevant computational analysis across the general areas of bioinformatics, chemo informatics, systems biology and medical informatics. The postdoc will work on data-driven models of temporal disease development using a combination of molecular data and data from the healthcare sector, where the latter has the form of registry data or complete electronic patient records.

Qualifications
Candidates for the postdoctoral positions must hold a PhD degree (or equivalent).
The successful candidates will have strong qualifications or experience within several of the following areas:
  • Bioinformatics and computational biology with experience in high-throughput data and pathway analysis, as well as health informatics.
  • Strong expertise in programming (Python, R, Perl or other).
  • Solid experience with Linux/UNIX operating system, command lines and shell scripting.
  • Experience in analysis of large-scale datasets, preferably electronic health record data.
  • Knowledge of data modelling, predictive modelling and machine learning.
  • Basic understanding of human biology and disease development.
  • Chemo informatics and systems toxicology and/or knowledge of pharmaceutical sciences with knowledge in risk assessment and pharmacovigilance.

Deadline for application: Sunday 24 March 2019

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Posted on March 08, 2019

Post-doctoral fellow positions in Computational Biology

Cold Spring Harbor Laboratory invites applications for post-doctoral positions in the laboratory of Dr. Jesse Gillis and colleagues. The successful candidates will join a team at CSHL working to understand the molecular and functional basis of cellular properties, focusing on mammalian brains. This is a largescale project involving a number of complementary positions, ranging from bioinformatics, to neuroscience, to molecular genetics. While the focus of the position is computational, all projects involve substantial collaboration with wet-lab researchers generating unique data. This interdisciplinary work offers opportunities to address important questions in computational biology and neuroscience with first access to large novel data sets from single-cell RNA-seq. The expected duration of the position is approximately 3-5 years with renewal at the end of each year.

A major conceptual focus of the project will be developing new ways of assessing large-scale data for replicable signals. This position offers substantial scope for training for candidates interested in making a leap from computer science, neuroscience or genetics to data-focused research, particularly if it has arisen informally in their previous work.

This research sits at the intersection of three research areas: Computational analysis, genetics, and neuroscience. A strong candidate would have expertise in two out of the three areas and an interest in learning about the third. While a broad range of backgrounds are suitable for this position, a PhD in bioinformatics or computational biology is desirable. A particular focus of our methodological research is replicability and meta-analysis and an interest in these areas is helpful. Experience with either Matlab or R is a plus. Exceptional applicants without a formal computational background will also be considered, particularly if they are familiar with standard bioinformatics tools.

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Lead Scientist - Microbiome, Metabolism, Genetics, Bioinformatics

As a Lead Scientist you will bring your own scientific expertise and apply it to this project to impact our understanding of how what we eat effects our long term health; with direct access to some of the most respected scientists within their field, develop further relationships with the wider academic community, contribute to leading research papers, whilst also applying this research to meaningful products which will help the broader population enjoy the health benefits of this work. This will be an opportunity to engage in cutting-edge science within a well-funded commercial / academic collaboration (Microbiome, Metabolic, Bioinformatics)

You will have worked as a senior post-doc at a top-tier university. Your background will be in life sciences or medical sciences with a strong quantitative approach to research. A background in subjects like bioinformatics, microbiology, metabolic diseases, epidemiology or genetics would be attractive. Experience of working with clinical studies would be a significant plus, as is microbiome experience.

Requirements

Your skills:

  • You are good with people and outgoing. You will need to spend a lot of time working with many people, teasing out their insights and combining different perspectives from different experts to come up with the right solution.
  • You are extremely smart. We are solving new, difficult problems with a world-class team.
  • You are a very quick learner. You will be covering very broad scientific areas where you will need to learn very fast and obtain a high level of expertise - and none of our current scientists individually are expert in all of these areas.
  • You will know what a good scientific study looks like, and be capable of design and driving new studies
  • You will be confident in reading and translating scientific academic papers
  • You move fast. This is a start-up not an academic setting. We do things fast, but accurately
  • Organised. You will be coordinating many different areas.
  • Very confident with numbers.

For detail click here


Posted on March 06, 2019

Variant Curator / Bioinformatics Scientist

At Boston Children’s Hospital, success is measured in patients treated, parents comforted and teams taught. It’s in discoveries made, processes perfected, and technology advanced. In major medical breakthroughs and small acts of kindness. And in colleagues who have your back and patients who have your heart. As a teaching hospital of Harvard Medical School, our reach is global and our impact is profound. Join our acclaimed team and discover how your talents can change lives. Yours included.

The Genomics and Bioinformatics Group in Research Computing at the Boston Children’s Hospital (BCH) seeks to hire a Variant Curator / Bioinformatics Scientist. We are seeking creative people with solid analytical capabilities and programming experience. The group is supporting a strategic initiative at BCH to develop streamlined mechanisms to sequence and identify causal genes in patients participating in research, to discover new genes underlying Mendelian diseases; to develop collaborative networks of investigators to facilitate gene discovery, validation and follow-­up; and to generate new methods for gene discovery applicable across a wide spectrum of pediatric disorders. We are supporting scientists performing exome sequencing on thousands of unsolved Mendelian cases and family members.

This Variant Curator/ Bioinformatics Scientist will be responsible for:

  • Analysis and interpretation of complex genomic data in a pediatric research setting.
  • Actively participating in identifying variants eligible for clinical reporting with leading genomics research laboratories and contribute to providing a path for families and individuals to end their medical odyssey.
  • This will include variant classification according to established criteria based on the published American College of Medical Genetics and Genomics (ACMG) guidelines, and will also involve clinical correlation of gene/variant with patient phenotype, scientific literature review, and/or report writing for both targeted and high-complexity genomic tests.
  • Participating in education and mentorship of other analysis staff and collaborators through direct interaction and presentations. All activities occur with a moderate degree of supervision with some latitude for independent judgment, development of genetic testing workflows and processes, and presentation of results.

To qualify, you must have:

  • A PhD in human genetics, molecular biology, or related field OR Genetic Counselor with clinical laboratory experience OR ABMG board-eligible molecular genetics, biochemical genetics, or cytogenetics OR Master’s degree in genetics, molecular biology or related field with 3 years of experience.
  • Familiarity with NGS clinical testing, databases, tools, and resources commonly used in the interpretation of genomic data.
  • Experience with bioinformatics, next-generation sequencing, and exome or whole genome sequence analysis is preferred.
  • Experience with genetic variant curation and/or sequence variant classification based on the ACMG guidelines is highly desired.
  • Computer programming (e.g. R/Python) and/or bioinformatics experience would be a plus.

For detail click here


Research Associate - Bioinformatics Trainer and Analyst

We are looking for a bioinformatician or computational biologist interested in working with our bioinformatics training team to provide education and training to the Harvard community. The ideal candidate will be interested in training biologists to analyze data, and in working with data from a wide variety of experimental platforms, particularly next-gen sequencing technologies. This role provides a unique and rewarding opportunity to train the next generation of world-class researchers making a profound impact on human health. About us The Harvard Chan Bioinformatics Core (HBC) is a center for bioinformatics research, services and training at the Harvard T.H. Chan School of Public Health. We work closely with biomedical scientists across Harvard to develop and execute innovative approaches to analyze, interpret, visualize and distribute scientific discoveries using omic information.

You have a background in biomedical or quantitative science and a strong interest in helping medical and/or biological researchers. You thrive on scientific challenges, love sharing knowledge and enjoy working within a tightly integrated, interdisciplinary team. You can synthesize your knowledge of biology, genetics and cell biology with your computational knowledge to excel at communicating with programmers and wet-lab scientists alike. You are able to simplify complex concepts and explain them in written and spoken form. You are motivated to continually expand your skills and are keen to learn and apply new methods. You have good code and data management skills to enable reproducible research and are capable of simultaneously working on different projects and deadlines. You are experienced with next-generation sequencing analysis and have an interest in training.

Doctoral degree in biological sciences, statistics or related computational field (eg. computational biology or bioinformatics) required.
Two years of postdoc experience (or equivalent).
Proven training experience (at or above undergraduate level).
Scripting abilities (Python, R proficiency, shell scripting) required.
Working knowledge of biology, genetics and cell biology required.
Experience in at least one of the following next-generation sequencing domains required:
- Whole genome sequencing
- Exome-seq
- Bulk RNA-seq (preferred)
- Small RNA-seq
- Single cell RNA-seq (preferred)
- ChIP-seq
- Bisulfite-seq

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POSTDOCTORAL POSITION IN PRECISION ONCOLOGY DATA SCIENCE

The Kuhn-Hicks laboratory at USC is a leader in mathematical oncology for predictive mapping of cancer progression and treatment response. The laboratory uses clinical, demographic, and single cell morpho-proteo-genomic data to build predictive models to aid in improving patient care and outcomes. Our rapidly growing team is looking for a postdoctoral fellow with expertise in data science to apply machine learning concepts to analyze clinical, liquid biopsy, and real-world evidence data sets. A successful candidate will have the determination to improve outcomes for cancer patients and discover novels ways of applying data simulation, machine learning, computational and analytical skills to complex data sets.

Job Responsibilities

• Research, design, implement and evaluate machine learning algorithms and statistical models for clinical datasets
• Identify technical challenges, define requirements and prioritize efforts to meet deadlines of internal team and external collaborators
• Assist with defining requirements and architectures for next-generation machine learning / statistical analysis products
• Develop model and algorithms, perform exploratory research, and collaborate with engineers as well as fellow data scientists to implement your solutions as products.
• Apply machine learning to build prediction model for cancer treatment and side effects

Education

Ph.D. in Computer Science, Engineering, Mathematics, or equivalent.

Skills and Expertise

• Minimum 5 years of programming experience
• Experience in the field of data science/data analytics, mathematics, or bioinformatics
• Strong written and verbal communication skills
• Experience in building models and developing algorithms for machine learning, statistics, optimization, and/or simulation
• Experience in SQL, Python, and R

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Posted on March 04, 2019

Postdoctoral Associate (Bioinformatics)

SBP is a preeminent, independent biomedical research institute dedicated to understanding human biology and disease, and advancing scientific discoveries to profoundly impact human health. For over 40 years, our research has produced breakthroughs in cancer, neuroscience, immunology and children’s diseases, and is anchored by our NCI-designated cancer center and advanced drug discovery capabilities.

The Terskikh laboratory has a Postdoctoral Associate opening. This position focuses on the novel approach to study epigenetics at a single cell level. The Postdoc Associate will explore the capability of Microscopic Imaging of Epigenetic Landscape (MIEL) and fluorescence-based reporters enabling live imaging of epigenetic modifications at a single cell level. MIEL combines fluorescence detection of epigenetic marks with automated cell imaging and machine learning to profile and quantify the “epigenetic signatures” of individual cells.

Duties and Responsibilities

  • Independently design and perform experiments and procedures with high degree of complexity, demonstrating increasing expertise with a wide range of techniques
  • Demonstrate flexibility in adapting methods and skills according to evolving project priorities
  • Provide independent experimental design and planning
  • Be able to analyze and interpret data from different sources and draw relevant conclusions
  • Demonstrate knowledge in relevant specialized disciplines
  • Be able to present results at internal and external meetings
  • Accurately document experiments
  • Contribute to writing of reports and manuscripts with increasing responsibility over time
  • Work collaboratively across lab functions and train other junior lab staff as needed

Required Experience

  • Ph.D. degree in any discipline of Biological Sciences is required
  • The qualified candidate must have proven experience in one or more of the following areas:  Tissue culture, cell and molecular biology, fluorescent microscopy, and computational biology
  • Experience with transgenic mice model is highly desirable

For detail click here


 

Computational Biologist

One staff scientist position is available in October of 2019 in the Laboratory of Genome Integrity (Center for Cancer Research, National Cancer Institute, National Institutes of Health) to use computational methods in the study of mechanisms involved in DNA double-strand break repair and the roles of repair and replication proteins in a variety of cancers that include leukemias and breast cancers, using mouse models. The ideal candidate will play a leading role in providing computational and biological insight by analyzing large data sets derived from genomics, epigenetics and proteomics experiments. The position will emphasize efforts to understand gene regulation, chromatin, regulatory and coding variation and its relation to cancer. The position will support all laboratory investigators who use applications involving high-throughput DNA sequencing methods for a variety of assays, including RNA-seq, exon sequencing, ATAC-seq, DNase-seq, ChIP-seq and newer, cutting-edge methodologies such as END-seq that have recently been developed.

The candidate will have a strong computational as well as a strong biological background, an interdisciplinary background in bioinformatics & computational biology, advanced expertise in the analysis and interpretation of sequencing data generated in-house and its integration with other “omics” data sources such as ENCODE and TCGA. Laboratory bench experience, while not essential, will be considered an advantage.

Qualified candidates should have:

  • A Ph.D. in computational biology, bioinformatics, mathematics, or related field with no more than 5 years of postdoc experience
  • Research fellows in the NCI are encouraged to apply
  • Ability to program in Python/Perl and R/Matlab in Unix environment are required
  • Knowledge of SQL will be considered a plus
  • Demonstrated applied bioinformatics/computational proficiency as evidenced by relevant publications in peer-reviewed journals.

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Posted on March 01, 2019

Staff Scientist - DNA damage and repair (Bioinformatics)

One (1) staff scientist position is available in October 2019 in the Laboratory of Genome Integrity (Center for Cancer Research, National Cancer Institute, National Institutes of Health) to use computational methods in the study of mechanisms involved in DNA double-strand break repair and the roles of repair and replication proteins in a variety of cancers that include leukemias and breast cancers, using mouse models.

The ideal candidate will play a leading role in providing computational and biological insight by analyzing large data sets derived from genomics, epigenetics and proteomics experiments. The position will emphasize efforts to understand gene regulation, chromatin, regulatory and coding variation and its relation to cancer. The position will support all laboratory investigators who use applications involving high-throughput DNA sequencing methods for a variety of assays, including RNA-seq, exon sequencing, ATAC-seq, DNase-seq, ChIP-seq and newer and cutting-edge methodologies such as END-seq that have recently been developed. Salary is commensurate with experience.

Qualified candidates should have:

  • A Ph.D. in computational biology, bioinformatics, mathematics, or related field with no more than five (5) years of postdoc experience;
  • Research fellows in the NCI are encouraged to apply;
  • Ability to program in Python/Perl and R/Matlab in Unix environment is required;
  • Knowledge of SQL will be considered a plus;
  • Demonstrated applied bioinformatics/computational proficiency as evidenced by relevant publications in peer-reviewed journals;
  • Strong computational as well as a strong biological background;
  • An interdisciplinary background in bioinformatics & computational biology;
  • Advanced expertise in the analysis and interpretation of sequencing data generated in-house and its integration with other “omics” data sources such as ENCODE and TCGA;
  • Laboratory bench experience, while not essential, will be considered an advantage.

For detail click here


Postdoc position on biomedical text mining at the Novo Nordisk Foundation Center for Protein Research

The center has been established at the Faculty of Health and Medical Sciences, University of Copenhagen, to promote basic and applied discovery research on human proteins of medical relevance. The center comprises a wide range of expertise and resources including proteomics, protein production, bioinformatics and general characterization of disease mechanisms. The Programme for Disease Systems Biology consists of two research groups covering many systems level aspects of biology and medicine, including the integration of molecular-level data and healthcare data, including biomedical texts.

The Cellular Network Biology group led by Lars Juhl Jensen focuses on network-based analysis of proteins in the context of cellular signaling and disease. The postdoc will work on development of advanced methods for protein-centric text mining of large corpora, including how to best combine the efficiency of existing dictionary-based named entity recognition methods with machine learning techniques, in particular word embedding and distant supervision.

Qualifications 
Candidates for the postdoctoral positions must hold a PhD degree (or equivalent) within a relevant discipline and have strong programming experience. The successful candidates will have strong qualifications or experience within several of the following areas:
  • Text mining.
  • Bioinformatics / computational biology.
  • Machine learning.
  • Statistical data mining.
  • Biomedical ontologies.
  • Programming in Python and/or C++.

Application deadline: 18th March 2019, 23.59pm CET

For detail click here


Posted on February 27, 2019

COMPUTATIONAL BIOLOGIST/ BIOINFORMATICIST

The National Institute of Environmental Health Sciences (NIEHS), part of the National Institutes of Health (NIH), is seeking an experienced bioinformaticist/computational biologist to collaborate in the statistical design, analysis and interpretation of genetic and environmental health studies. The appointment will be at the rank of Staff Scientist in the Biostatistics and Computational Biology Branch (BCBB) of the Division of Intramural Research (DIR). The scientific environment at NIEHS provides exciting opportunities for collaborating statisticians and computational scientists. Increasingly, research at NIEHS generates high-dimensional data from sources such as epidemiological, genomic, genetic, high-throughput screening and microbiome studies. This position will involve both the development and extensive applications of new computational methods in bioinformatics and statistical genetics.

The successful candidate will have strong skills in computation and in oral and written communication and must/should demonstrate proven experience working productively with multidisciplinary teams of biologists, toxicologists, epidemiologists, and/or clinical scientists. Experience with the analysis of high-dimensional data is required. Applicants should either have a Ph.D. in statistics, biostatistics, or genetics, or have a doctoral degree in a related field with demonstrated applied biostatistical and computational experience.

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Postdoctoral researcher in Computational Metabolomics

The Institute for Biomedicine is seeking a highly motivated researcher to join the Computational Metabolomics team. The Institute for Biomedicine is home to an international and interdisciplinary team of scientists, students and support staff, integrated in an excellent network of international and national partners. Living and working in Bozen/Bolzano allows you to experience a unique combination of alpine and Mediterranean culture right at the heart of one of the most exciting mountain regions in Europe.

The Institute for Biomedicine is running the Cooperative Health Research in South Tyrol (CHRIS) study, a population-based study on cardiometabolic and neurological health of 13,000 general population subjects [Pattaro et al 2015] that excels with a high participation rate from complete families. From this population study, targeted (Biocrates p180) and LC-MS-based untargeted metabolomics data are available for 7,500 and 5,000 individuals, respectively.

Tasks:
· Analyze large scale targeted and untargeted metabolomics data sets.
· Investigate metabolic profiles in relation to family structure within a population study-based data set.
· Identify metabolic profiles related to health, lifestyle and nutrition.
· Integration of metabolomics and genotype data.
· Annotation and identification of features identified by LC-MS experiments.
· Implement and extend software for the analysis of untargeted metabolomics data.
· Present results and/or software at international conferences.
· Write scientific articles.
 
Requirements:
· PhD or equivalent with experience in computational biology, bioinformatics, metabolomics, analytical chemistry or a related field.
· Experience in the analysis of LC-MS-based metabolomics data.
· Proficient R-software usage. Software development skills are beneficial.
· Good communication skills; fluent in the English language.
· Team-working ability.

Interested candidates should submit their application (CV, cover letter, reference contacts and further relevant documents) by 08.04.2019 via email to jobs.biomedicine@eurac.edu

For detail click here


Posted on February 25, 2019

Statistical Data Analyst (Bioinformatics) 

Washington University is an Equal Opportunity Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, age, sex, sexual orientation, gender identity or expression, national origin, genetic information, disability, or protected veteran status.

This position is in the Department of Internal Medicine, Division of Oncology. The position is located at 4444 Forest Park Blvd. This position is for the Medical School Campus.

POSITION SUMMARY: 

Performs data management and analysis for investigators using bioinformatics tools and statistical packages.  Assists investigators in the design of experiments, creation of pipelines, and investigation of cancer biology.

PRIMARY DUTIES AND RESPONSIBILITIES:

  1. Assists investigators in the design of experiments, clinical trials and epidemiological studies.
  2. Assists in pipeline design, implementation and maintenance for assays that collect data from high-throughput genomic assays.
  3. Interprets and visualizes data and communicates results to team members and key collaborators.

Required Qualifications

Equivalent of Bachelor’s degree in a relevant field (such as Math, Statistics, Computer Science or Epidemiology). Experience and proficiency with data analysis and data management utilizing statistical packages utilized by department/s.

Preferred Qualifications

  • Familiarity with analyzing big data, particularly genomic data.
  • Interest in Machine Learning.
  • Knowledge of virtualization and containers.
  • Working knowledge of genetics and biological systems.
  • Strong communication skills and the ability to work effectively in a team.
  • Proficiency in the *nix shell and at least one programming language (Python, R, C, etc).
  • Experience in biomedical and/or clinical studies desirable.

For detail click here


Postdoctoral Fellow in Regulatory Genomics

The Maurano Lab is looking for a talented Fellow to work on how the noncoding genome specifies cell-type specific transcriptional regulation and its involvement in the genetics of human traits and diseases. Our research aims to establish a foundation for the mechanistic study of regulatory variation, with the long-term goal of understanding how the noncoding genome affects cell-type specific transcriptional regulation and its involvement in the genetics of human traits and diseases. We are part of the newly established NHGRI-funded Center for Synthetic Regulatory Genomics using large-scale DNA synthesis and assembly to investigate the regulatory architecture of genomic gene regulation.

We are looking for a talented Fellow to join our group to work on how noncoding genomic regulatory elements specify cell-type specific transcriptional regulation and their involvement in the genetics of human traits and diseases. Candidates with both experimental and computational experience are welcome.

For detail click here


Posted on February 22, 2019

Bioinformatician

GEOMAR Helmholtz Centre for Ocean Research Kiel is a foundation of public law jointly financed by the Federal Republic of Germany (90 %) and the state of Schleswig-Holstein (10 %) and is one of the internationally leading institutions in the field of marine sciences. Currently GEOMAR disposes over an annual budget of approx. 80 million Euro and has approx. 1000 employees.

Using comparative genomics, we aim to elucidate the coevolution of the immune system with male pregnancy. We recently determined that parts of the adaptive immune system have been lost during the evolution of male pregnancy. Comparative analyses of specific immune gene families and developmental pathways will permit to gain insight into how the immune system has been remodeled and how this relates to male pregnancy evolution. We furthermore aim to identify gene co-option accompanying the evolution of pregnancy and the establishment of new genes with subsequent neo- or sub-functionalization.

Qualification
The successful candidate is required to have a PhD in Natural Sciences (Biology, Bioinformatics or a related discipline). We expect a highly motivated Postdoc with a keen interest and background in comparative genomics, transcriptomics and evolutionary biology, that will allow the candidate to efficiently analyze the available data-sets and prepare manuscripts to be submitted to respected peer-reviewed international scientific journals. Knowledge of programming languages (Perl/Python/R) is thus required. Experience with gene annotation, orthologous gene identification and methods of detecting selection would be a plus. Also, familiarity with genes of the immune system, developmental pathways, and basic knowledge of fish biology would be desirable.

Please send your application not later than 15.02.2019 to the following email address: bewerbung(at)geomar.de

For detail click here


Postdoc in Comparative Genomics and Omics-driven Eukaryotic Genome Minimization

This postdoctoral position offers the unique opportunity to work in a dedicated team of PhD students. The postdoc's main tasks will be: Department of Biotechnology and Biomedicine is a major Danish research and teaching department in the field of systems biology and is involved in a wide range of research activities within its field.

Fungi of the genus Aspergillus are of large economic importance due to their widespread application in industry and their natural capabilities as highly efficient cell factories. In particular, the Aspergilli are natural enzyme producers, and preferred hosts for heterologous enzyme production, but some species also play roles in plant, animal, and human pathogenicity. All known species produce a wide range of bioactive compounds. This project is a part of our long-term efforts to whole-genome sequence the entire fungal genus of Aspergillus, more than 350 species, and to utilize this information for both fundamental and applied research, thereby building superior fungal cell factories and fungal products for the future.

Qualifications
Candidates should have a PhD degree or equivalent.

The successful candidate should have experience with several of the following:

  • Writing publications for leading journals in the field.
  • Fungal molecular biology and genetic engineering based on USER cloning or Gibson assembly.
  • Experience with genetic engineering of Aspergillus using CRISPR
  • Data analysis from one or more of the following omics techniques such as genomics, transcriptomics, proteomics.
  • Management of large datasets.

It would furthermore be advantageous, but not essential, for the candidate to have knowledge of, or experience with the following:

  • Supervision of students.
  • Programming in Python, R, or Perl.
  • Management of multiple projects.
  • Roboticsil  for PCR, vector design, or strain construction.

Please submit your online application no later than 6 March 2019.

For detail click here


Posted on February 20, 2019

Computational Biologist - Genomic Medicine

The mission of The University of Texas M. D. Anderson Cancer Center is to eliminate cancer in Texas, the nation, and the world through outstanding programs that integrate patient care, research and prevention, and through education for undergraduate and graduate students, trainees, professionals, employees and the public.

Ideal candidate for the Computational Biologist position will have working experience in mining genomic and clinical data. Experience in pattern recognition/machine learning, mathematical/statistical modeling, network analysis and experience in data integration, data mining, NGS data analysis (mutations, structural variations, and expression). Proficiency in at least one programming language such as R, C/C++, Perl, Python, or JAVA.

KEY FUNCTIONS

· Extract and integrate internal and public genomic and clinical data to produce standardized data sets that can be distributed within M. D. Andersons' computing environment and used by clinicians and researchers.

· Develop software modules to regularly perform standard data analysis routines in an automated fashion and provide visualization tools for clinicians and researchers to explore the results.

· Systematically explore and mine multi-dimensional data to validate experimental findings or formulate hypothesis to provide directions of further studies.

· Identify issues of practical or theoretical importance and drive to solutions through innovative mathematical/computational approaches.

· Evaluate existing algorithms and develop new algorithms and user friendly tools that can be deployed to MDACC or larger research communities.

· Work closely with clinicians and biologists to provide customized bioinformatics/computational support throughout their studies.

· Work with bioinformaticians, IT personnel, and other researchers to respond to new technologies.

For detail click here


Postdoctoral Research Fellow-Clinical Genomics

A promising approach in human genetic research and drug discovery is the study of human diseases and their treatments by pairing data in Electronic Health Records (EHR) with high-resolution genetic data. Not only we could understand how the manifestations of human diseases and the subtypes are associated with the genetic mutations, we are now in a position to leverage such resources to discover novel drug targets and predictive biomarkers for better patient response. In this position, you will have the opportunity to join our Data Science team at Roche Innovation Center New York and mine our large collections of real-world and in-house integrated clinical and genomics data.

You will investigate molecular mechanisms underlying cancer biology, drug response and resistance by exploring data resources such as Flatiron-FMI data marts where real world phenotypes and the deep genetic characterizations of patients are readily available and linked. You will work with both experimental and computational biologists, and use your own creative mind in the discovery of next generation medicine by applying your biological knowledge and advanced analytical skills, e.g., statistics, machine learning, and biological pathway analysis.

Requirements

  • Ph.D. in biology- or data-related sciences such as Molecular Biology, Biomedicine, Computational Biology, Bioinformatics, Data Science.
  • Knowledge and experience in cancer immunology and genetics are highly desirable. Additional knowledge and experience in epidemiology or analysis of EHR data is a plus.
  • Strong quantitative analytical skills in statistics, machine learning and predictive modeling.
  • Proficient in analysis programming skills (e.g. R or Python) and SQL.
  • A creative self-motivated individual with excellent communication skills.

Job-ID 201809-122701

For detail click here


Posted on February 18, 2019

Res Post Doc Fellow- human genomics

A post-doctoral position in human genomics is immediately available. Research in our group focuses on the development of bioinformatics methods to analyze short-read and long-read sequencing data, and to enable the implementation of genomic medicine in clinical settings.

The successful candidate will work on the methods and applications of novel informatics approaches to handle unmet challenges in genome and exome sequencing data. Example projects include the analysis of large-scale Illumina genome sequencing data, the establishment of automated pipelines for Nanopore sequencing data, the clinical interpretation of genetic mutations in rare diseases, the identification of genetic biomarkers for drug efficacy and adverse events, and the discovery of somatic/expression biomarkers for certain categories of diseases.

The candidate will work in a highly interdisciplinary and collaborative academic environment including the Wang Genomics Lab, the Center for Cellular and Molecular Therapeutics, the Department of Biomedical Informatics at CHOP as well as the Department of Pathology, Department of Genetics and Institute for Biomedical Informatics at the University of Pennsylvania.

A suitable candidate should have a doctoral degree in genomics-related fields, such as genetics, bioinformatics, computational biology, biostatistics or computer science, with strong prior experience in human genomics, such as published work in finding human disease genes through genomic approaches, familiarity with computational tools/pipelines for variant detection and annotation, or established web servers for genomic data analysis.

For detail click here


Postdoctoral Associate position- Cancer Epigenetics

A Postdoctoral Associate position is available in the lab of Dr. Tao Wu in the Department of Molecular & Human Genetics at Baylor College of Medicine (https://www.bcm.edu/research/labs/tao-wu). The Wu lab focuses on the epigenetic mechanisms of cancer therapeutic resistance; in particular, the functional mechanisms of novel DNA methylation (6mA). We seek to decipher the epigenetic driver mechanisms underlying cancer treatment resistance, to define new biomarkers, and to develop new approaches to overcome the therapeutic resistance of cancer. We apply multiple wet lab techniques, as well as dry lab genomic profiling and bioinformatics approaches in cancer models.

We are seeking a Postdoctoral Associate whose research will focus on bioinformatics. This position will require developing analytical approaches to solve computational scripts and analytical code, genomic data analysis of sequencing data sets, and generating statistical figures. Experience in genomic profiling data analysis, cancer epigenetics, and/or bioinformatics analysis preferred.

Ideal candidates should be able to creatively conceive the study, critically design experiments and insightfully analyze genomic data. Applicants should be self-motivated, open-minded, detail-oriented and collaborative. Expertise in one (or more) of the following research areas is required: molecular and cell biology, genetics, genomics, bioinformatics, and systems biology studies.

For detail click here


Posted on February 15, 2019

Postdoctoral Fellow in Mass Spectrometry Based Single Cell Proteomics

Division Division of Physiological Chemistry I stems from the laboratory of Jöns Jacob Berzelius (1779-1848), the great Swedish scientist known for a variety of achievements. These include the discovery, together with his co-workers, of six new elements. Berzelius, the first Chemistry professor at KI, was an avid proponent of mass measurements, having published in 1818 a table of accurate weights of 45 out of the 49 known elements. Continuing Berzelius’ tradition, the Division bases its research on mass spectrometry. It also hosts two core facilities that perform proteomics analyses. One of the focal points of Division’s research is method development for proteomics.

Duties The candidate will participate in research concerning application in developments of single cell proteomics, which is an emerging area using bottom up mass spectrometry based proteomics to characterize protein profiles of single cells. The goal is to develop and establish a robust analytical workflow that can be applied to numerous biological problems, in which cellular heterogeneity plays a center role, such as cancer progression and cell differentiation. The successful candidate will contribute to this ground breaking research with experimental developments, performing and designing data analysis as well as presenting results in forms of scientific publications and presentations.

Entry requirements
A person is eligible for a position as postdoctoral research fellow if he or she has obtained a PhD no more than four years before the last date of employment as postdoc. The ideal candidate will have proven experience in analytical chemistry, proteomics and mass spectrometry. Good knowledge of spoken and written English are absolutely required as well as strong fundamental knowledge of bioinformatics and R programming skills are desired.

Last application date 28.Feb.2019

For detail click here


PostDoc Position in Cancer Genomics

The research group of Visceral Surgery, under the guidance of Dr. Salvatore Piscuoglio, is based at the Department of Biomedicine, Basel, Switzerland. The main focus of the laboratory is the use of multi-omics approaches to identify and characterize biomarkers, and to understand the important genetic alterations and their interaction that contribute to the development of cancer. Our group is seeking a highly motivated post-doctoral scientist to join our team of bioinformaticians, molecular biologists, pathologists and surgery fellows.

The candidate will have the opportunity to develop, apply and optimize cutting-edge bioinformatics methods, in particular those for massively parallel sequencing, to further our understanding of cancer biology. The candidate will have the flexibility to develop and lead their own projects within the scope of the areas of interest within the laboratory. The candidate will also assist in the supervision of PhD students.

Your profile

  • PhD in genetics, biostatistics, bioinformatics, computational biology or related discipline
  • Proven experience with next-generation sequencing analysis and genomics
  • Strong computational and/or statistical skills.
  • Understanding of cancer biology and experience with cancer genomics would be highly desirable.
  • Ability to work independently, being a team player and ability to collaborate with researchers from various backgrounds
  • Good organizational skills; demonstrated ability to handle multiple projects in parallel

For detail click here


Posted on February 13, 2019

Postdoctoral Research Fellow Bioinformatics

Genentech seeks a highly motivated scientist to pursue post-doctoral research interpreting genomic, transcriptomic, and other molecular data as they relate patients’ clinic outcomes, in order to contribute to our understanding of the fundamental factors governing response or resistance to targeted- and immuno-cancer therapies. Ideally, the post-doctoral fellow will generate hypotheses from data analytics and validate the hypotheses with cell or animal models in the laboratory, to provide novel mechanistic insights and/or to formulate a rationale for future clinical studies.

Candidates must have a Ph.D. in bioinformatics, computational biology, statistics, or computer science, with experiences in applied molecular biology research. Alternatively, candidates may have a Ph.D. in cell/molecular biology, immunology, oncology or related field and have picked up computational skills in the course of their research; in this case, candidates should have a publication record that demonstrates the extent of their computational skills. In both cases, candidates must have a record of innovative scientific accomplishments as evidenced by lead-author publications in peer-reviewed journals. Candidates should also have strong communication skills and enjoy working collaboratively with both bench scientists and data scientists.

For detail click here


Postdoc Position in Systems Biology of Metabolism

The research group “Dynamic Control of Metabolic Networks” is looking for a postdoctoral researcher to start in the middle of 2019. We are a research group at the Max Planck Institute for Terrestrial Microbiology and at the LOEWE center for synthetic microbiology (SYNMIKRO) in Marburg, Germany. Our group investigates regulation of metabolic networks, and how this regulation affects overproduction strains in biotechnology. Please see https://www.mpi-marburg.mpg.de/link for more information about our research.

Currently we are looking for a highly motivated and ambitious individual to join the MapMe project, which is funded by an ERC Starting Grant. The project aims at mapping metabolic regulation and developing novel metabolic engineering concepts. Current metabolic engineering approaches modify genes with known roles in the production pathway of interest. In the project we will identify genes that are unrelated to the production pathway but substantially impact productivity. To date there are no methods to predict such distal genes and their effects on a rational basis.

The successful candidate should have a PhD in (bio-)chemical engineering, molecular biology, (bio-)physics, bioinformatics or a related field and have a strong commitment to science. We are particularly interested in applicants that have experience in metabolomics, metabolic engineering and/or modelling of metabolic networks.

For detail click here


Posted on February 11, 2019

Postdoc in the area of bioinformatics /statistical genomics

We are looking for an enthusiastic researcher, with a clear interest in bioinformatics, animal breeding and quantitative genetics. The project addresses fundamental questions related to adaptation to specific traits of the genomes of traditional cattle breeds in three African and three European countries. Within the project we will collect and analyse extensive phenotypic and whole genome sequence data. The data will be used for GWAS and selective sweep and ROH analyses. Experience with handling large phenotypic and genomic datasets and an interest in quantitative genetic concepts is a prerequisite.

We ask:

Candidates should have a PhD in one of the following subjects: Bioinformatics with strong emphasis on the bio site and /or conservation genetics. The candidate should have a strong track record as a PhD student and/or postdoc and show a keen and independent intellect. Establish and maintain good working relationships with key stakeholders and research collaborators to ensure relevance and quality of research outputs.

Further preferred skills:

• Be able to handle large data sets (Bioinformatics skills; scripting, design analysis pipelines,

• Interest in quantitative genetic concepts (such as GWAS) and biodiversity.

• Good organizational and excellent communication skills (both spoken and written in English)

• Ability to work in a team of diverse scientists and multidisciplinary teams.

• Scientific track record with publications.

For detail click here


Postdoc Microbial Bioinformatics

The successful candidate will work in the research area “Systemic Microbiology” of the Institute of Bio- and Geosciences 1 – Biotechnology (IBG-1) of Forschungszentrum Jülich. The research area “Systemic Microbiology” of IBG-1 performs research in the field of molecular and applied microbiology. Major aims are a systemic molecular understanding of selected microbial cell factories and the development of microbes as biocatalysts for production of industrially or pharmaceutically relevant products from renewable carbon sources using metabolic engineering, synthetic biology, and high-throughput screening technologies.

Your Job:

  • integrative analysis of large DNA, RNA, and protein datasets, which are generated using state-of-the-art sequencing techniques (DNA-Seq, RNA-Seq, ChIP-Seq, LC-MS/MS)
  • application of machine learning and artificial intelligence
  • working with experimentalists to validate and address resulting findings
  • support of coworkers in using all kinds of bioinformatics software

Your Profile:

  • PhD or equivalent in bioinformatics, microbiology, data sciences, genomics, engineering, or related fields
  • Strong programming skills in at least one scripting language (Python, Perl, etc.) and R
  • Experience in analyzing large-scale biological data sets, NGS data, etc. is a strong plus
  • Strong willingness and ability to cooperate with bench-work researchers
  • Basic/good understanding of and interest in molecular microbiology
  • High motivation to successfully complete scientific projects
  • Candidates must be kind, efficient and reliable team players
  • Strong English writing and communication skills

For detail click here


Posted on February 08, 2019

NTT Faculty Opportunity - Bioinformatics

The Fels Institute for Cancer Research & Molecular Biology at the Lewis Katz School of Medicine at Temple University invites applications for a non-tenure track faculty appointment at the level of Assistant Professor. The Fels Institute for Cancer Research & Molecular Biology has a vibrant and interdisciplinary research program focused on understanding the molecular mechanisms of various human diseases.

The successful applicant should have a PhD and/or MD and postdoctoral research experience in the field of bioinformatics and computational biology with special focus on genomics and the regulation of gene and protein expression and modification.

The prospective candidate is expected to lead the Fels Institute bioinformatics core, which provides data analysis support for multiple laboratories. To this end, the prospective candidate is expected to have knowledge of next generation sequencing, including RNA-seq, ChIP-seq, exome sequencing, and high-throughput DNA methylation data. Of particular interest are candidates who are using cutting-edge techniques in computational biology.

For detail click here


Postdoc Position in Bioinformatics, Metagenomics and the Human Microbiome

The lab of Jeroen Raes (VIB, KU Leuven) is looking for a postdoctoral researcher in the computational analysis of microbiome data, with a particular emphasis on human-associated microbial communities in health and disease. Projects will focus on:

i) bioinformatics/statistics method development for joint host and microbiota data analysis, multi-omics and clinical data integration and/or

(ii) their application to large scale datasets generated within the Flemish Gut Flora project cohort (n>5000), in a wide range of disease cohorts as well as in international projects (e.g FP7 MetaCardis, H2020 AD-Gut).

We look for an excellent track record in (meta-)omics data analysis and strong scientific drive. We provide a stimulating and fun environment to pursue your scientific dreams.

Profile

  • PhD in bioinformatics, computational biology, datamining, biostatistics, population and/or statistical genetics, human microbiota, numerical/microbial ecology or equivalent
  • Good programming skills (perl/python/ruby/java/C++ etc, SQL, R), proficiency in Unix/Linux and cluster experience
  • A strong track record in omics data analysis (e.g. (meta)genomics, transcriptomics, proteomics, metabolomics, epigenomics, genotyping data) is a plus
  • Experience in clinical datamining/machine learning, biomarker detection is a plus

We offer

VIB-KULeuven is an exciting, interdisciplinary research institute with excellent facilities and leading research groups in e.g. gastroenterology, oncology, immunology, microbiology & virology, clinical genetics/-omics, molecular biology and translational research. The Raes lab is located on the Gasthuisberg campus of the KU Leuven (Fac. of Medicine) and has on-site robotic sample processing, high-throughput computing resources as well as next-gen sequencing facilities (mi/next/hiSeq. PacBio, oxford nanopore).

For detail click here


Posted on February 06, 2019

Research Bioinformatician

Research Bioinformatician I performs general bioinformatics analysis and software support for projects involving in omics, and interact with investigators to identify research problems, find appropriate software tools, and recognize national biological databases and online resources for omic data. The RB will manage omic data including loading and querying data from database system and public repositories and transform and merge multilevel omic data into user-friendly formats, assist in development, test, and maintenance of modular software pipelines, provide bioinformatics data analysis, preliminary interpretation of the data, and reports of the results for possible publications.

Research Bioinformatician will also work with bioinformatics faculties to determine future bioinformatics needs, and helps to develop tools and pipelines as necessary to keep pace with rapid advances in sequencing technology. The Bioinformatician will demonstrate continuous self-improvement, make effective contributions to the section, and adhere to CSHS compliance plan, code of conduct, and hospital and departmental policies and procedures. He/she may serve as a preceptor for students.

EDUCATIONAL AND WORK EXPERIENCE PREFERENCES:

Thorough, demonstrated knowledge of database and biostatistical computer programs, such as SAS, Stata and Excel

Any combination of academic education, professional training or work experience, which demonstrates the ability to perform the duties required for the position.

Education and Experience requirements:
Master of Science Degree in Computer Science, Electric Engineering, Computational biology, or Bioinformatics, or Master of Science/ Engineering in relevant fields (e.g. Biology with strong quantitative training, biostatistics with concentration in bioinformatics)
Certification/License:
Minimum Experience:
0-3 years in research environment. Background and work knowledge in algorithms, scientific computing, and machine learning or statistics, Familiar with C/C++, Java, Perl, python, and the Unix (Linux) environment.
Thorough, demonstrated knowledge of database and biostatistical computer programs, such as SAS, Stata and Excel.

Postdoctoral Researcher: Osaka University Immunology Frontier Research Center Advanced Postdoc 

Immunology Frontier Research Center (IFReC) at Osaka University is recruiting for its original Postdoctoral Researcher program “Advanced Postdoc”. IFReC, the top level research center for immunology in Japan, has a team of world-recognized principal investigators using state-of-the-art facilities. Active interaction with excellent members will facilitate your productivity and achievements in your career. The center also provides information assistance in English for daily activities in IFReC. This research environment is the ideal foundation on which to base your successful career in research.

Number of positions: Postdoctoral Researcher x3

Research field: Immunology, Cell Biology, Bioinformatics and Bioimaging

Qualifications:

  • Doctorate degree
  • Less than 8 years since obtaining doctorate
  • International experience preferred

Email: ifrec-office@ifrec.osaka-u.ac.jp

For detail click here


Posted on February 04, 2019

Postdoctoral Scholar in  Bioinformatics and Computational Biology

Our lab is focused on the development and clinical validation of biomarkers for early detection, diagnosis, prognostication, and prediction of treatment response in precision cancer medicine. To achieve this goal, we employ two approaches: (1), integrate large-scale imaging and genetic data sets with clinical annotations, and (2) develop novel statistical and machine learning methods. Our work focuses on two main areas:

1.    Imaging analysis (radiologic or histopathologic data).

2.    Molecular analysis (genomic, epigenomic, or transcriptomic data).

We are a multidisciplinary team with a diverse background and yet converging theme. Our ultimate goal is to clinically translate novel biomarkers to guide selection of optimal therapy and improve outcomes for cancer patients.

The Li lab has openings for postdoctoral scholars interested in cancer biomarker development or translational research. Depending on the type of applicant, experiences with medical image analysis, bioinformatics/computational biology, machine learning, or cancer genomics/biology are desirable.

For detail click here


Bioinformatics Scientist - Center for Childhood Cancer

The Senior Bioinformatics Scientist in the Center for Childhood Cancer and Blood Diseases (http://www.nationwidechildrens.org/center-for-childhood-cancer) at The Research Institute at Nationwide Children’s Hospital will be responsible for working with laboratory-based scientists and trainees to perform computational and bioinformatic analyses, to provide training, and to develop new computational approaches. The Scientist will work with all members of the Center, including Principal Investigators, Staff Scientists, technicians, and trainees at all levels. Excellent verbal and written communication skills will be essential as the individual will work collaboratively with scientists on projects that lead to publications and presentations at professional meetings. Flexibility is also important as the Scientist will likely support wide-ranging projects of different scientific focus.

Responsibilities

  • Perform RNA-seq, ChIP-seq, and other next generation sequencing-derived downstream analysis and visualization
  • Interface and integrate with other bioinformatic/computational-biology/research informatics teams on campus
  • Evaluate and integrate community-developed and commercial bioinformatics tools
  • Develop new computational analytic tools
  • Manage center resources for storage and analysis of large datasets
  • Obtain, process, and analyze datasets from outside sources, such as NCBI Small Read Archive and individual labs and assist research teams in uploading to those databases
  • Take a lead role in our research collaborations to analyze genome sequencing data in order to identify the genetic causes of cancer
  • Assist with supervision and training of postdocs, fellows, students, and staff, for basic bioinformatic approaches
  • Author journal publications and present at professional meetings

Qualifications

Minimum Qualifications

  • Advanced degree in Bioinformatics, Computational Biology, or Biology, Molecular Biology, etc., with postdoctoral bioinformatic experience
  • Two + years experience in computational biology or bioinformatics
  • Experience with UNIX/LINUX, including proficiency in shell scripting
  • Proficiency in a scripting language, such as Perl or Python
  • Expert knowledge of core bioinformatics tools and databases
  • Exceptionally deep computational understanding and strong programming skills
  • Excellent verbal and written communication skills will be essential

For detail click here


Posted on February 01, 2019

Bioinformatician or Postdoc in Bioinformatics

The Institute for Regenerative Medicine is part of the dynamically evolving new campus of the ETH and University of Zurich in Schlieren-Zurich. For more information, please see: https://www.irem.uzh.ch/

We seek a highly motivated and independent bioinformatician who is experienced in next-generation sequencing (NGS) data analysis, bioscientific programming, and processing and analysis of large-scale omics data. The candidate will work closely with wet-lab scientists and will be responsible for setting up and evaluating pipelines to analyze gene expression data (in particular ribosome profiling datasets), participate in data visualization and help to design large-scale CRISPR/CAS9 screens. Part of the project will be to annotate novel translated regions in the genome and design libraries to target these regions, as part of a collaborative project to understand their function in cancer.

Qualifications

- Ph.D. in bioinformatics, computational biology or similar domain, have demonstrated computational research experience
- Excellent knowledge of R and at least one scripting language
- Knowledge of applied statistics
- Experience with Omics analysis and next-generation sequencing data set
- Willingness to learn and develop novel pipelines and tools to analyze and visualize gene expression data sets
- experience in high performance computing cluster a plus
- Team player and willingness to work closely with wet-lab scientists
- Proficiency in oral and written English
- Independence (the candidate will be part of an interdisciplinary team)

For detail click here


Postdoctoral Appointee- Metabolomics and Data Integration/Analysis

The Indiana University School of Medicine has an opening for a Postdoctoral Appointee in the area of metabolomics data integration. This role will sit at the intersection of metabolomics and statistical analysis. The goal of this research is to develop a software platform integrating novel algorithms and processes for the integration of diverse types of metabolomics data including NMR, mass spectrometry, clinical chemistry, etc. In addition to data integration, the platform will include visual analytics and data mining methods. The project will be jointly supervised by the PI’s who have expertise in metabolism/metabolomics, genomics and biostatistics.

The primary role will be in software development with extensive interaction with analytical chemists, biochemists, biostatisticians and software developers. Excellent record keeping and proper coding practices is required.

Recent Ph.D in an area related to computational biology including chemistry, biophysics, or biostatistics. General knowledge of biochemistry and strong computational skills including programming proficiency in Python and/or R. Organized and detail oriented with excellent documentation as well as verbal and written communication skills. Will be expected to work independently, but with frequent communication and assistance from the mentors in both biochemistry and biostatistics. Good English verbal and written communication is required.

For detail click here


Posted on January 30, 2019

Senior Bioinformatician

The Center for Translational Data Science at the University of Chicago is a research center pioneering the discipline of translational data science to advance biology, medicine, and environmental research. We architect ecosystems of large-scale commons of research data, computing resources, applications, tools, and services for the broader research community to use data at scale to pursue scientific inquiry and accelerate discovery. These growing data commons offer petabytes of rich research data to scientists across the world.

As a Senior Bioinformatician, you will design and implement bioinformatics services for innovative data sharing platforms for biomedical research. Projects focus on multi-institutional collaborations that bring leading experts together to drive data sharing initiatives for flagship scientific programs. The Senior Bioinfomatician will lead data import and analysis, data quality, and data generation aspects of each project and work hands-on to develop pipelines and tools, including support for high-throughput genomic technologies.

Education:

  • Doctoral degree in Bioinformatics, Biological Sciences, Computer Science, or a related field required.

Experience:

  • Minimum of two (2) years of experience in the field of bioinformatics required.
  • Experience in the bioinformatics of Next Generation sequencing technologies required.
  • Experience using languages such as Java, Python, SQL, or XML, required.
  • Familiarity with Linux and/or Unix required.
  • Basic knowledge of molecular biology required.
  • Basic knowledge of statistics required.
  • Experience in employing high performance computing to solve parallelizable compute problems preferred.
  • Experience providing bioinformatics services or other service roles preferred.
  • Experience with human genomics preferred.

For detail click here


Postdoctoral Research Associate in Bioinformatics

A Postdoctoral Scholar position is immediately available to work with the Love and Stein Labs at UNC-Chapel Hill on statistical and causal inference method development for analysis of large genomic datasets. The goal of this project is to develop mechanistic understandings of genetic risk for neuropsychiatric disorders as mediated through multiple layers of biology, through robust statistical modeling followed by experimental validation in human stem cell culture.

The position will involve analysis and modeling of multi-omics datasets (genotype, ATAC-seq, RNA-seq, cellular phenotypes), and integration of additional cohorts and datasets (tissue-level and disease phenotypes). The work will connect closely with multiple international groups via active collaborations, and seek to maximize impact through open source software release, and engaging, interactive presentation of scientific results.

We are looking for an individual who is highly motivated by team science and who will work closely with experimentalists, as two-way communication between wet- and dry-lab biologists will be critical for our project. The position will suit someone with a computational biology background or a statistical or causal inference background. In either case, the candidate should have experience in analyzing large genomic datasets and development of computational and statistical methods.

Vacancy ID PDS002270

For detail click here


Posted on January 28, 2019

Research Fellow – Cancer Genomics / Computational Biology

The research group of Anton Henssen at the ECRC Research Center of the Max Delbrück Center for Molecular Medicine (MDC) in Berlin, Germany is seeking a Post-Doctoral Research Fellow in Cancer Genomics / Computational Biology. The lab studies the causes of genomic instability in pediatric solid tumors with a focus on mobile genetic elements such as transposons and circular DNA (e.g. Henssen A. et. al. Nature Genetics 2017).

Our Pediatric Oncology Research Lab at the Department of Pediatric Hematology, Oncology at the Experimental and Clinical Research Center (ECRC) is closely affiliated to the Helmholtz Institute, Max Delbrück Center (MDC) for Molecular Medicine and the Berlin Institute of Health (BIH). The main focus of all research programs is to improve cure rates for patients suffering from childhood cancer by combining basic, translational and clinical research.

Your profile:

  • Recent graduate (PhD) or Research Scientist (PhD not necessary) in Cancer Biology, Bioinformatics, Statistics, Physics or any other field with relevance to Biology / Computational Biology
  • Proficiency in basic programming fundamentals for data analysis (preferably in R and in one of the scripting languages such as Perl/Python)
  • Ability to collaborate and communicate complex technical concepts (preferably in English, German not necessary).
  • Understanding of basic cancer molecular biology principles is highly preferred

Quote Reference: DM.209.18b

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Multi-scale discrete representations of protein structures for RNA/DNA docking

The aim is the development of innovative computational tools for modeling protein –nucleic acids assemblies. One main focus will be the development of combinatorial representations of protein shape variability, to be implemented in protein-DNA/RNA docking tools developed in the team [NAR_2016, PloS_2016]. These tools will be applied to large DNA – protein complexes involved in the transmission of bacterial resistance, in the context of the CITRAM collaborative project with experimental biologist (DynAMic lab, UL – INRA, Nancy).

Eligibility: Candidates must have a PhD degree in computer science, (bio-)physics, bioinformatics or structural biology. Strong programming skills (preferentially in Python) are required. Skills in discrete mathematics, statistics and/or knowledge of molecular structures are very desirable. Experience with students co-supervision would be appreciated.

Employer:  LORIA lab (Lorraine University – CNRS – INRIA ), Nancy, France

Contact: Dr. Isaure Chauvot de Beauchene (isaure.chauvot-de-beauchene (at) loria.fr), Dr. Dave Ritchie (dave.ritchie (at) loria.fr)

Start: between Feb and Jul 2019

For detail click here


Posted on January 25, 2019

Postdoctoral Fellow: Statistical Genetics and Quantitative Genomics

The Amgen Postdoctoral program is committed to providing future scientists with an enriching environment to inspire innovation that will contribute to the development of human therapeutics. Dr. Yi-Hsiang Hsu in the Computational Biology/Research department at Amgen Inc. is seeking a postdoctoral fellow. Despite the successes of genome-wide association studies (GWAS), important challenges remain that limit their impact on human biology and medicine, especially the fact that in the majority of cases the causal loci are located in non-coding regions and poorly understood. Recent advances in human regulatory and functional genomics (ENCODE, Roadmap Epigenomics Project and GTEX) and gene editing technologies (such as CRISPR/Cas9) allow us to overcome these challenges and gain a systematic understanding of the role of GWAS variants in human disease and complex traits.

The Postdoc will carry out independent research and participate in projects that (1) generate HI-C seq, ATAC-seq, RNA-seq and Chip-seq data in human primary cells and utilize these data to construct 3D genome looping structure across the whole genome; (2) build prediction models to predict enhancer-promoter links (gene regulatory circuits; regulatory landscapes) in human primary cells; (3) apply AI-machine learning deep learning models such as CNN to identify underlying causal variants and targeted genes for GWAS/GWAS loci for complex disorders such as HF, AF, CVD, neurological disorders, immunological disorders and cancers from whole genome sequencing as well as other large biobanks such as UKBiobank; (4) apply biological networks and systems biology approaches to priority and identify potential druggable targets from the targeted genes from human genetics studies; and (5) be involved in wet lab experiments to functionally validate findings in cellular and/or animal models by CRIPSR/Cas9 gene editing approaches.

Basic Qualifications: Doctoral degree (such as PhD, ScD, MD, etc.) at the time of appointment

Preferred Qualifications: Experience dealing high-throughput sequencing data such as next generation sequencing, RNA sequencing, Chip-seq, ATAC-seq and/or Hi-C seq as well as experience using the ENCODE and Roadmap Epigenomics Project data Expertise in the statistical analyses of next generation sequencing data or bioinformatics (especially in network/pathway modeling) Experience in applying AI-machine learning deep-learning methods Able to present findings and write papers in the field of study Expertise with statistical genetics and network modeling algorithms Familiarity and involvement in use of large scale omics data, such as ENCODE, Roadmap Epigenomics Project, GTEX, eQTL datasets, Hi-C and RNA-seq data etc

Job ID: R-69997

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Postdoctoral Research Fellow in Cancer Genomics

We seek a highly motivated postdoctoral fellow in Molecular Genetics and Genomics for a 3-year position on circular DNA in tumors. Besides genomic profiling of circular DNA in tumors, a central part of the work will be dedicated to development of non-invasive tests for early diagnosis of cancers. The successful candidate will apply and develop methods for isolation of circular DNA, collaborate with clinicians and bioinformaticians for identification of driver and marker mutations in cancers, and take part in commercialization and publication of results.

The successful candidate holds a PhD in biochemistry, bioengineering, biomedicine, biology or a related field, has expertise in DNA and chromosome biology, as well as methods in molecular biology. Experience with next generation sequencing (NGS), bioinformatics, oncology, biomarkers and/or commercialization of technology are further advantages. Finally, the candidate must demonstrate effective verbal and written communication skills.

Our laboratory investigates the biology of circular DNA in eukaryotic cells through our unique molecular methods, NGS and novel bioinformatics pipelines using human and yeast as model systems.

The deadline for applications is 30th of January 2019, 23:59 GMT +1.

For detail click here


Posted on January 23, 2019

Postdoc: Marine population genomics

The department for Marine Sciences (http://marine.gu.se/english/) is Sweden's most complete academic environment for marine research and education, and it is one of few such institutions in Europe. The Department for Marine Sciences, founded 2015, brings together expertise in physical oceanography, marine chemistry, marine biology, marine geology, and marine heritage conservation. Thus the department has excellent opportunities to meet future challenges in marine research and education. The department of Marine Sciences are located with permanent staff in Gothenburg and at the research stations Kristineberg and Tjärnö on the Swedish west cost north of Gothenburg.

The candidate will join an international team working on the evolutionary biology of Littorina based in the Department of Marine Science, both at Tjärnö Marine Laboratory and in Gothenburg, and at the University of Sheffield. The candidate is expected to lead and perform the bioinformatic and population genomic analyses of multiple data types using standard software and custom scripts and to present the results of the analyses in manuscript(s) and at conferences, and communicate the findings at various dissemination activities. The candidate is also expected to take part in other research-related activities at the department, and within the research group in particular.

Eligibility
Qualified for appointment as postdoc is a person who has been awarded a PhD degree in a subject area relevant for the position no longer than 3 years ago. Relevant subject areas for this position are population genetics, evolutionary biology, bioinformatics or equivalent academic disciplines. A candidate with a foreign degree that is judged to be comparable is also eligible. The candidate should have earlier experience of bioinformatics and working with large sets of sequencing data and/or deep experience of working with statistical analyses of genetic data in a population or evolutionary context.

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Scientist - Bioinformatics

City of Hope, an innovative biomedical research, treatment and educational institution with over 6,000 employees, is dedicated to the prevention and cure of cancer and other life-threatening diseases and guided by a compassionate, patient-centered philosophy. Founded in 1913 and headquartered in Duarte, California, City of Hope is a remarkable non-profit institution, where compassion and advanced care go hand-in-hand with excellence in clinical and scientific research. City of Hope is a National Cancer Institute designated Comprehensive Cancer Center and a founding member of the National Comprehensive Cancer Network, an alliance of the nation’s leading cancer centers that develops and institutes standards of care for cancer treatment.

Key Responsibilities include:
  • The scientist will analyze high throughput sequencing data for detection of tumor heterogeneity and subclonal populaitons using WGS (for reference, please read: https://www.ncbi.nlm.nih.gov/pubmed/29093439), as well as subclonal phenotype and pathway activity using single cell sequencing data.
  • He/she will assist with managing, analyzing, and interpreting genomics data from patient cohorts in order to understand why cancer progresses with resistant tumor clones that emerge during therapy. 
  • The successful candidate will contribute to the development data workflow processes and pipelines.
  • He/she will also have the opportunity to assist in training investigators and new users to use bioinformatics applications and databases.
Basic education, experience and skills required for consideration:
  • A Ph.D. degree in life or biomedical sciences, or a related discipline is required;
  • Demonstrated ability to solve biologically-relevant problems requiring novel applications of exploratory data analysis and analyze data of high complexity by applying sound statistical and commonly accepted bioinformatics methods to -omics data with a collaborative project team.
  • Excellent English written and oral communication skills.
  • Proficient in scripting languages (python, perl) and proficient with R.
  • Knowledge of hardware including server.

Posted on January 21, 2019

Postdoctoral Research Fellow - Computational and Mathematical Modeling - Cancer Immunology - Genentech Research

Biomedical research has become data intensive, shifting away from classical confirmatory hypotheses testing for a few clinical variables, to searching for underlying fundamental patterns governing biological phenomena and their dynamics in high dimensional variable and sample space. This has led to an increasing use of, and development of new, computational and mathematical modeling techniques within biomedicine.

We are seeking an independent and motivated researcher for a Postdoctoral Fellowship in the Department of Cancer Immunotherapy. You will be working within our Computational and Mathematical Modeling group to study cancer phenotypes and the interaction with genetic and immune system variables. For example, you will participate in trying to deepen our understanding of the dynamics within tumor microenvironments supported by unique and growing collections of Omics data coupled with clinical data.

Candidates for this position should have:

  • PhD in Mathematics, Mathematical Statistics, Computer Science or Bioinformatics with a proven track record in mathematical modeling.
  • Highly proficient in general in computational and programming languages, including a working knowledge of R and e.g Python. Experience with C++ would be an asset.
  • Experience with creating web-based data visualization and data analysis applications (e.g. R Shinys) is desirable.
  • Desirable having a previous experience working with biologists on life-science questions.
  • Excellent communication and teamwork skills to take advantage of our highly collaborative environment.
  • A passion for innovation, and demonstrated initiative and track record in tackling new areas of research.

Job ID: 201809-121656

For detail click here


Postdoctoral Positions in Stem Cell Epigenomics (Computational Biology)

Postdoctoral and Research Assistant Positions are available in the laboratory of Dr. Benjamin Kidder at Wayne State University in the Barbara Ann Karmanos Cancer Institute, an NCI-designated Comprehensive Cancer Center. Our lab focuses on epigenetic mechanisms of stem cell fate, genome stability, and reprogramming/transdifferentiation, using experimental, genomics, and bioinformatics approaches. We integrate functional studies and computational analysis of epigenomic and transcriptomic data.

Experimental biologists with broad expertise in stem cell or cancer biology, mammalian tissue culture, next-generation sequencing, molecular biology, biochemistry, mouse models, bioinformatics or an equivalent field are encouraged to apply. This position offers the opportunity to work closely with computational biologists or bioinformaticians in a collaborative environment. The successful applicant should have a (1) Ph.D. degree in Cellular or Molecular Biology, Biochemistry or an equivalent field and the following qualities: (2) skilled and highly motivated, (3) first or co-first author publications, (4) excellent communication skills (oral and written).

Qualified bioinformaticians or computational biologists should have a (1) Ph.D. or master’s degree in Bioinformatics, Genomics, Computer Science, Statistics, or a related field, (2) computer programming skills in at least one language (python, perl, C/C++, R), (3) experience with analyzing next-generation datasets, (4) first or co-first publications, (5) excellent communication skills (oral and written).

For detail click here


Posted on January 18, 2019

Postdoctoral Fellowship in Computaional Biology

Applications are invited for multiple postdoctoral positions in the laboratory of Prof. Peter Park at Harvard Medical School. The long-term goal of the laboratory is to develop and apply innovative computational methods to contribute to our understanding of cancer genetics, neuroscience, and epigenetics. Current areas of interest include structural variation analysis for whole-genome sequencing data, analysis of single cell sequencing data, and development of a genome analysis platform for clincial samples.

The successful candidate will join a group of supportive and productive computational biologists in the Department of Biomedical Informatics and have an opportunity to collaborate with world-class biologists in the Harvard medical area. Recent fellows from the lab have gone to faculty positions at top institutions in Boston, Cambridge (UK), Chicago and Milan.

An ideal candidtae will have a Ph.D in computational biology/bioinformatics/computer science or another quantitative field, as well as excellent programming and communication skills. Substantial experience in analysis of high-throughput sequencing data is highly desirable. We are particularly interested in hiring at least one fellow with a rigorous statistics background. Those with an outstanding record in a quantitative field without significant exposure to biology may also be considered.

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Postdoctoral Positions in Computational Genomics

Applications are invited for postdoctoral positions in the lab of Ekta Khurana. The lab is located at Weill Cornell Medical College (WCMC) in New York City. The research focus of the lab is to understand the role of genomic sequence variants in human disease, with an emphasis on noncoding variants. As a member of the Meyer Cancer Center, Institute for Precision Medicine and Institute for Computational Biomedicine at WCMC, postdocs will have opportunities to collaborate with a diverse group of experimentalists and computational biologists.

A PhD in computational biology, bioinformatics, genomics or a related field is required. A strong computational background, proficiency in at least one programming language and knowledge of statistics are also required. Research experience in genomics, genetics or a related field is desirable.

For detail click here


Posted on January 16, 2019

Computational Postdoctoral Position to Study Cell Cycle and Gene Expression Regulation Using Single-cell Genomics

Our laboratory is a core part of the Functional Genomics and Metabolism Unit, which hosts five independent research groups that perform a variety of basic and functional genomics research. We are based within the Department of Biochemistry and Molecular Biology at the University of Southern Denmark, Odense which hosts more than 20 research groups. The Unit and department offer an international working environment with state-of-the-art facilities for next generation sequencing, Flow cytometry, single-cell transcriptomics, Mass spectrometry, and National Bioimaging facility among others. We also have close ties to the Odense University Hospital (OUH).

We are seeking a highly motivated and talented PhD-level computational biologist with expertise in analysis, integration and interpretation of complex biological Omics data, to join our research team of molecular biologists and computational scientists studying ‘cell cycle and gene expression regulation using single-cell genomics’.

Qualifications/requirements:
We are looking for highly motivated and enthusiastic scientists with the following competences and experience:
Essential: 
• PhD (or awaiting degree) in Bioinformatics, Systems biology, Computer Science or Computational Biology with documented experience in analysis of large-scale biological datasets (ChIP/ATAC/RNA-seq etc.) and statistical analysis.
• Strong proficiency in Python or R and experience in high-performance computing environment using Linux/UNIX.
• Ideally one first authorship in relevant journal in the field.
• Strong communication and collaboration skills.
• Excellent written and oral communication skills in English.
Desirable: 
• Experience with analysis of single cell genomics/transcriptomics etc. datasets.
• Experience with applying supervised/unsupervised statistical learning and mathematical methods.
• Interest in graphical data visualisation (Shiny, Plot.ly, Dash etc.).
The position has a flexible start date (1 February 2019 or thereafter). Application deadline: 31 January 2019.

Postdoc in Bioinformatics in the Gorodkin lab

The NeuroStem project aims at identifying the underlying neuronal pathology of causative genes and regulatory elements to obtain novel functional insight in Alzheimer’s and Parkinson’s diseases that can enable improved treatment. Transcripts will be extracted from neurons derived from iPSC, previously generated from patient skin fibroblasts. In cases where the patients carry specific disease-causing mutations, the iPSCs are gene corrected using CRISPR/Cas9 (isogenic control) allowing for strict comparisons of diseased and isogenic neuronal cells. In addition neurons from engineered healthy control iPSC, into which the genetic mutation is introduced, will be part of the analyses to circumvent the low numbers of samples due to rare mutations.

A two-year Postdoc position is available in the Gorodkin lab (http://ivh.ku.dk/bioinformatics), Center for non-coding RNA in Technology and Health (RTH), (http://rth.dk) at Department of Veterinary and Animal Sciences (http://ivh.ku.dk/english), Faculty of Health and Medical Sciences at University of Copenhagen. The Postdoc position concerns bioinformatics analyses of transcriptomic data from neurodegenerative diseases. The position is available from 1 March 2019 or as soon as possible thereafter.

Required qualifications and selection criteria 
The applicant should hold the professional as well as personal skills and qualifications as stated below:
  • A completed PhD degree in bioinformatics, computer science or in a similar area
  • General background knowledge of biological areas of genome structure and transcriptomes
  • Strong experience with script languages such as Perl or Python (or similar)
  • Strong experience with the Linux/Unix environment, command lines and shell scripting
  • Solid experience with transcriptome analysis
  • Good interpersonal skills
  • Excellent in English both in writing and speech
Candidates fulfilling one or more of the following qualifications will be prioritised:
  • Strong experiences with transcriptome data analysis
  • Algorithmic insight broad and for RNA (2D) structure
  • Experience with transcriptomic data from neurodegenerative diseases
  • Experience in at least one of the following programming languages: C, C++ or Java

The deadline for applications is 10 February 2019. Any applications received after this time or incomplete will not be considered.

For detail click here


Posted on January 14, 2019

Postdoctoral Researcher in Bioinformatics Computational Systems Biology

The University of Luxembourg is a multilingual, international research University. The University of Luxembourg has the following vacancy in the Luxembourg Centre for Systems Biomedicine (LCSB): Postdoctoral Researcher in Bioinformatics Computational Systems Biology.

We seek a highly motivated bioinformatician who is experienced in next-generation sequencing (NGS) data analysis, bioscientific programming, and processing and analysis large-scale omics data. The candidate will be responsible for the biomedical analysis of NGS, GWAS, and other functional omics data as part of a collaborative research project on the identification of molecular factors associated with the risk of developing Parkinson’s disease. The project will use both new and existing biological high-throughput data from patients, healthy controls, as well as in-vitro and in-vivo disease models, with the goal to conduct integrative pathway-, network- and machine learning analyses to improve the understanding of molecular network perturbations in Parkinson’s disease.

Your Profile

  • The candidate will have a PhD or equivalent degree in bioinformatics or computational biology
  • Prior experience in large-scale data processing and bioscientific programming is required
  • A track record of previous publications in bioinformatics analysis of omics data should be outlined in the CV
  • Demonstrated skills and knowledge in next-generation sequencing data analysis, biostatistics, machine learning, pathway and network analysis are highly advantageous
  • The candidate should have a cross-disciplinary aptitude, strong organizational and interpersonal skills, and a keen interest in collaborative biomedical research
  • Fluency in oral and written English

Please apply online until 15th February, 2019.

For further information, please contact: Enrico Glaab enrico.glaab@uni.lu


Postdoctoral Fellowship in Bioinformatics and Molecular Metabolism

The laboratories of Drs. Jeffrey Pessin, Fajun Yang and Deyou Zheng at Albert Einstein College of Medicine are jointly seeking recently or to be graduated Ph.D. with experience in the bioinformatics analysis of high throughout sequencing data, such as RNA-seq, ChIP-seq, ATAC-seq, PRO-seq, and Hi-C/3C-seq. The Albert Einstein College of Medicine is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, protected veteran or disabled status, or genetic information.

An ideal candidate would have demonstrated expertise and track record in computational programming in python and R, statistical genetics, bioinformatics, or systems genomics. The successful candidate should also be interested in applying the bioinformatic analysis of these and other sequencing datasets in the understanding of the epigenomic control of dysregulated metabolism in diabetes and obesity.

Please send this information in care of Ms. Fran Taibi, Albert Einstein College of Medicine, Diabetes Research Center, 1300 Morris Park Avenue, Bronx, NY 10461 Email: fran.taibi@einstein.yu.edu

For detail click here


Posted on January 11, 2019

Postdoc in Bioinformatics

A two-year Postdoc position is available in the Gorodkin lab (http://ivh.ku.dk/bioinformatics), Center for non-coding RNA in Technology and Health (RTH), (http://rth.dk) at Department of Veterinary and Animal Sciences (http://ivh.ku.dk/english), Faculty of Health and Medical Sciences at University of Copenhagen. The Postdoc position concerns bioinformatics analyses of transcriptomic data from neurodegenerative diseases. The position is available from 1 March 2019 or as soon as possible thereafter.

The project takes outset in differential expression analysis of transcripts between disease and gene edited and healthy control neurons. This involves detection and analysis of coding and noncoding transcripts as well as structured RNA and other regulatory elements. From the differential expression analysis, relevant pathways will further be included to obtain candidates for downstream functional analysis in terms of knock-out and knock-in experiments.

Required qualifications and selection criteria 
The applicant should hold the professional as well as personal skills and qualifications as stated below:
  • A completed PhD degree in bioinformatics, computer science or in a similar area
  • General background knowledge of biological areas of genome structure and transcriptomes
  • Strong experience with script languages such as Perl or Python (or similar)
  • Strong experience with the Linux/Unix environment, command lines and shell scripting
  • Solid experience with transcriptome analysis
  • Good interpersonal skills
  • Excellent in English both in writing and speech
Candidates fulfilling one or more of the following qualifications will be prioritised:
  • Strong experiences with transcriptome data analysis
  • Algorithmic insight broad and for RNA (2D) structure
  • Experience with transcriptomic data from neurodegenerative diseases
  • Experience in at least one of the following programming languages: C, C++ or Java

The deadline for applications is 10 February 2019. Any applications received after this time or incomplete will not be considered.

For detail click here


Biostatistics and Bioinformatics Analyst

The University of Colorado Denver l Anschutz Medical Campus seeks individuals with demonstrated commitment to creating an inclusive learning and working environment. We value the ability to engage effectively with students, faculty and staff of diverse backgrounds. We are looking for a highly energetic, self-motivated individual to join our laboratory. We are seeking a full-time Biostatistics and Bioinformatics Analyst to work in the Schwartz/Yang Laboratory in the Department of Medicine on the Anschutz Medical Campus in Aurora, CO.

The research in the Schwartz/Yang Lab focuses on understanding how environmental stimuli affect health through genetic and epigenetic mechanisms. State-of-the-art techniques, including whole genome sequencing (WGS), genomewide association studies (GWAS), epigenomewide association studies (EWAS), transcriptome and noncoding RNA profiling in human cohorts are used regularly to accomplish these goals. Candidates identified by analysis of individual datasets as well as integrative analysis (systems biology) are followed up in cell and animal models. The Bioinformatics Analyst will be the lead analyst for all projects that focus on pulmonary fibrosis.

Responsibilities
  1. Implements existing solutions for analysis of next generation sequencing and microarray data for analysis of genetic variants, DNA methylation, histone modifications, transcriptome and non-coding RNA datasets. This includes but is not limited to Bioconductor and other R packages.
  2. Implements existing solutions for predictive modeling to facilitate biomarker discovery for preclinical forms of pulmonary fibrosis. This includes but is not limited to Bioconductor and other R packages.
  3. Implements existing solutions for integrative multi-omic/systems biology analysis. This includes but is not limited to Bioconductor and other R packages.
  4. Write advanced custom scripts to manipulate complex genomic and clinical datasets, access databases and perform data analysis.
Minimum Requirements
  • PhD in Bioinformatics, Biostatistics or related field is required. 
  • Excellent skills using biostatistics and bioinformatics to solve biologically important questions. 
  • Advanced skills in high-throughput data analysis and familiarity with widely used genomic databases and software including R and Bioconductor.
  • Advanced skills in utility programming (Python or similar language) and working in a Linux environment (bash, awk etc) on a cluster. 
  • Must be able to work independently and have advanced problem solving skills.  
  • Must have excellent interpersonal, verbal, and written skills.
  • Basic SQL knowledge and work with large clinical and genetic/genomic databases is also desirable.

For detail click here


Posted on January 09, 2019

Post-Doctoral Fellowship in Computational biology/ Bioinformatics

The postdoctoral scientist will lead the data analysis, and the statistical methodology and software development for a project related to identifying the biological basis of subtypes of high-grade serous ovarian cancers (HGSOC) using bulk and single-cell RNA-sequencing data. This is highly relevant to public health because HGSOC is a particularly deadly cancer that is often only identified at late stage and treatment options are limited. The long-term impact of this project will be a key step towards developing targeted treatments for HGSOCs.

In addition, the postdoc will create and contribute robust, open-source software using the R/Bioconductor framework, have the opportunity to present her/his work at local and national conferences, and write open-access, peer-reviewed publications. Strong mentorship and personalized training to gain essential professional skills to achieve his/her long-term career goals (e.g. academic, industry, government) will be emphasized. The postdoc will work in the lab of Dr. Stephanie Hicks in the Department of Biostatistics at Johns Hopkins Bloomberg School of Public Health and will join the large community of genomics research happening at Johns Hopkins.

Minimum Requirements: Candidates must have received a PhD in data science, statistics, biostatistics, computational biology, bioinformatics, or a closely related discipline from an accredited college or university.
Qualifications: We are interested in self-motivated, collaborative individuals excited to work at the interface of single-cell genomics and cancer research with a focus on generating open-source software and open-access, peer-reviewed publications. Successful candidates will have previous technical experience analyzing high-throughput sequencing data. The focus of this project will be the analysis of bulk and single-cell RNA-sequencing data. Successful candidates will also have excellent communication (oral and written) skills, strong organizational skills, and a proven track record of collaborative, peer-reviewed publications. Individuals hired will have appointments within the Department of Biostatistics at Johns Hopkins Bloomberg School of Public Health.

For detail click here


Biostatistician: Centre for Statistical Data Analysis

EMBL is an international research organization covering many fields of modern biology. Five Computational Centres provide expertise, advice, and training for scientists across EMBL. We are looking for a statistician or data scientist to Head the EMBL Centre for Statistical Data Analysis.

As statistician/data scientist, you will be interested in statistical applications in modern biology, in computational method development for new technologies (single cell ‘omics, imaging, proteomics, microfluidics), in data visualization and data integration, and in method benchmarking and teaching. You will be co-affiliated with the research group of Wolfgang Huber (see https://www.huber.embl.de/).

A PhD or equivalent qualification in a quantitative science (statistics, mathematics, computer science, physics) with solid theoretical foundations in probability and applied statistics and some experience in data analysis of modern biological data. As our ideal candidate you should enjoy teamwork and be excited by providing consulting and teaching services at an advanced level in a world-class research environment. Excellent communication skills in written and spoken English are required.
Candidates should have a solid understanding of programming concepts and multiple languages, including advanced R. Proficiency with scientific authoring frameworks such as LaTeX, Rmarkdown and HTML5 is a plus.
Closing Date: 10 March 2019
Reference Number: HD01456

Posted on January 07, 2019

Bioinformatics Scientist

The Harvard FAS Informatics Group seeks a bioinformatician or computational biologist for genomic analysis. This individual will develop and apply cutting-edge approaches to a range of biological questions, including but not limited to methods for analyzing RNA-seq, Chip-seq, ATAC-seq, and other short and long read sequencing data. Key responsibilities include:

  • Teach bioinformatics workshops to the Harvard community on topics of interest, including both basic and advanced topics;
  • Work closely with Harvard faculty, postdocs, and students to advise on analysis of sequencing data and other biological ‘big data’;
  • Collaborate with scientists generating sequencing data at Harvard, including participating in the writing and execution of grant proposals with faculty members.

Basic Qualifications

  • Master’s degree in bioinformatics/computational biology or a related field with 5+ years of experience.
  • Proficient in Unix, R, and at least one commonly-used programming language - Python preferred.

Additional Qualifications

  • Ph.D. strongly preferred
  • Fluency with Linux shell scripting and high-performance computing
  • Prior experience developing and running computational live-coding workshops for users from a variety of backgrounds is strongly preferred
  • Excellent written and verbal communication skills, including the ability to document methods and results clearly and concisely for tutorials and manuscripts
  • Must have the ability to explain complex scientific and computational ideas to a wide range of scientists and researchers (such as graduate students, postdocs, and faculty), including those with little or no computational experience.
Job Code RS0458 Bioinformaticist III

Post-Doctoral Training Fellow - Bioinformatician

The Institute of Cancer Research, London, is one of the world’s most influential cancer research institutes, with an outstanding record of achievement dating back more than 100 years. We provided the first convincing evidence that DNA damage is the basic cause of cancer, laying the foundation for the now universally accepted idea that cancer is a genetic disease. Today, The Institute of Cancer Research (ICR) leads the world at isolating cancer-related genes and discovering new targeted drugs for personalised cancer treatment.

We seek a motivated postdoc to join the Computational Pathology and Integrative Genomics team led by Dr. Yinyin Yuan in a highly interdisciplinary project with Prof. Carlo Maley at Arizona State University, Dr Andrea Sottoriva at ICR and Prof Trevor Graham at Barts Cancer Institute. ICR were ranked first in the Times Higher Education league table of UK university research quality from the most recent Research Excellence Framework (REF 2014) for our high impact publications. We are world leaders in identifying cancer genes, discovering cancer drugs and developing precision radiotherapy. Together with our hospital partner The Royal Marsden, we are rated in the top four centres for cancer research and treatment worldwide.

The successful post holder will develop exciting new computational pipelines for integrating digital pathology data, generated from histopathology and cutting edge multiplex images from CODEX and/or CyTOF, with omics data in colorectal cancer. He/she will enjoy the highly collaborative environment at ICR and in this research program, and work closely with an international, highly recognised team consisting of biologists, clinicians, ecologists and computer scientists. He/she will have the opportunities to learn about latest cutting-edge biotechnologies/methods including deep learning, single-cell sequencing and high dimensional multiplexing, travel to conferences and partner institutes, excel in coordinating between programming and explore new research areas in medicine through collaborations.

Applicants must hold a PhD in Computer Science, Bioinformatics, Engineering, Ecology, Physics, Mathematics or Statistics. Knowledge/experience in medicine or deep learning is desirable but not essential.

For detail click here


Posted on January 04, 2019

Postdoc position in Computational Biology

A collaboration between Dr. Kai Ge’s Adipocyte Biology and Gene Regulation Section at NIH (http://www2.niddk.nih.gov/NIDDKLabs/IntramuralFaculty/GeKai.htm) and Professor Weiqun Peng's Computational Biology Group at George Washington University (http://home.gwu.edu/~wpeng/) seeks applications for a bioinformatics postdoc position.

The successful candidate will 1) study epigenomic regulation of transcriptional enhancers from computational biology and systems biology perspectives; 2) analyze epigenomic data generated by a variety of techniques including ChIP-Seq, RNA-Seq, ATAC-Seq, Hi-ChIP; and 3) develop bioinformatics tools for integrative analysis of epigenomic data. The candidate will work closely with a group of bench scientists interested in epigenomic regulation of enhancers in gene expression and cell differentiation. The salary will be commensurate with the individual's experience.

Qualifications:

  • PhD degree in computational biology, bioinformatics, biophysics or other quantitative fields.
  • Strong programming skills in Python/Perl, C/C++; Expertise with Linux/Unix environments
  • Self-motivated with excellent communication skills and strong capability to interact with bench scientists
  • Knowledge of molecular biology is a plus

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Research Assistant (Bioinformatics)

We are seeking a highly motivated candidate with intention to pursue a PhD as a Research Assistant (Bioinformatics) in the Fullwood Lab. Our research interest is to better understand the role of 3D genome organization in the control of RNA Biology in Cancer. Specifically, we are looking for a candidate who will analyse chromatin interaction data (e.g. Hi-C, ChIA-PET, 4C, etc), related data (e.g. ChIP-Seq, RNA-Seq), present data and write manuscripts. The candidate will also assist in routine data management e.g. management of servers, as required. Candidates should be comfortable in working independently and with other team members, learning new things on their own and be willing to work in flexible schedules to manage workload on weekend or before/after normal working hours.

Requirements:

  • Degree in computational biology or bioinformatics or related fields
  • Strong mathematical & statistics analytics background and strong programming skills (e.g. Python, R) and the ability to work in a Linux environment
  • Experience in chromatin interaction data analysis and/or genomic and epigenomic data analysis is not required but is a plus.
  • Excellent communication skills and good team spirit
  • Fluent in spoken and written English

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Posted on January 02, 2019

Research Associate (postdoc) in the field of clinical and translational medicine informatics

The Luxembourg Centre for Systems Biomedicine (LCSB) of the University of Luxembourg is a highly dynamic working environment. The LCSB is leading the Luxembourgish representation in the European bioinformatics infrastructure ELIXIR. This Luxembourgish ELXIR Node hosted in the LCSB is dedicated to translational medicine data management. To support a newly funded Innovative Medicine Initiative (IMI) FAIRplus project focusing on developing the guidelines and tools needed to make IMI and EFPIA clinical and translational data FAIR, we are looking for a Research Associate (postdoc) in the field of clinical and translational medicine informatic.

Your Role

  • Involve in the development of transparent criteria for the selection of data sources within completed and ongoing IMI projects for FAIRification – the process to improve the level of Findability, Accessibility, Interoperability and Reusability of data.
  • Identify, recommend and implement existing metadata standards for different data types (e.g. pre-clinical/clinical: phenotype, imaging, genomic, and other molecular data).
  • Implementation and reporting of FAIR Metrics for IMI FAIRfication.
  • FAIR transformation of datasets.
  • Maintenance, further development of ELIXIR-Luxembourg IMI data catalogue (https://datacatalog.elixir-luxembourg.org) and collection of study metadata into it.

Your Profile

  • A PhD in computer science, computational biology or bioinformatics, with an interest in biomedical informatics and translational medicin
  • Good knowledge of FAIR – ‘Findable, Accessible, Interoperable and Reusable’ data principles
  • Proven work experience with clinical and translational medicine data curation, harmonisation and standardisation
  • Knowledge of standards, controlled terminologies and ontologies
  • Computer programming (Java or Perl or Python), web development (HTML, DHTML, CSS, JavaScript) skills and knowledge of RDBMS (MySQL or PostgreSQL) are a requirement.

Please apply online until 31st Jan 2019 via this link


Postdoctoral position in Computational Biology

Hatice Ulku Osmanbeyoglu is an Assistant Professor of the Biomedical Informatics Department and UPMC Hillman Cancer Center at University of Pittsburgh Medical School. The Osmanbeyoglu lab develops data-driven computational approaches to understand disease mechanisms in order to assist in the development of personalizing anticancer treatments. Previously, Dr. Osmanbeyoglu was a postdoctoral research associate at Memorial Sloan Kettering Cancer Center (MSKCC). She received her Ph.D. in Biomedical Informatics from University of Pittsburgh and completed M.S. degrees in Electrical and Computer Engineering from Carnegie Mellon University and in Bioengineering from University of Pittsburgh as well as B.S. degree in Computer Engineering from Northeastern University. Dr. Osmanbeyoglu has received a number of distinctions including the NIH Pathway to Independence Award and the Memorial Sloan Kettering Postdoctoral Research Award.

Postdoc applicants are expected to have a strong background in machine learning/statistics AND/OR substantial experience analyzing large genomic datasets. If interested please send an email to Hatice Osmanbeyoglu (osmanbeyogluhu @ pitt dot edu) including your CV (with references) and a brief Research Statement with your background and interests.

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Posted on December 31, 2018

Postdoctoral Researcher in Computational Systems Biology

The successful candidate will develop, analyze, and guide experimental tests of computational models for cancer-relevant cellular regulatoy systems. These models will incorporate empirically determined parameter values, reproduce key experimental observations, and account for and integrate long-standing and newly obtained mechanistic knowledge. One goal is to advance system-level understanding of the cellular regulatory networks surrounding RAS, particularly the KRAS4B isoform.

The new models will consider feedback and feedforward loops, oligomerization, clustering and trafficking of signaling proteins, and include a comprehensive treatment of RAS interactions with effectors, in particular heterodimers of the serine/threonine protein kinases BRAF and CRAF. Most importantly, the models will be designed to capture effects of distinct disease-associated mutations (e.g., the effects of the oncogenic RAS mutations G12V, G12D, Q61L, and G13D) and molecularly targeted drugs (e.g., RAF kinase inhibitors). An improved system-level understanding of RAS regulation has the potential to aid in the design of molecularly targeted therapies for cancers involving KRAS driver mutations, which encompass approximately 1/3 of all cancer cases and nearly all cases of pancreas cancer.

Minimum Job Requirements:

The ideal candidate would have experience in the following areas:

  • Cell signaling and RAS biology
  • Biological rule-based modeling, especially experience using BioNetGen
  • Parameter estimation
  • Uncertainty quantification
  • Scientific programming
  • Coordination of modeling and experimental efforts

EducationPhD in related field within the past five years or soon to be completed. Must be complete by commencement of appointment.

Vacancy Name: IRC69822

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Postdoc in Genomics

We are a creative and energetic team at UT Southwestern's Green Center for Reproductive Biology, and we are intensely focused on unraveling the functions of the non-coding genome. While this “dark matter” comprises the vast majority of mammalian genomes, our understanding of its function is only in its infancy. We know that it holds a wealth of regulatory information to precisely coordinate gene expression across all of an organism’s cell types. Underscoring their functional significance, most disease-associated loci are non-coding.

We are actively seeking highly motivated students and postdocs with a keen interest in gene regulation, and particularly in developing massively parallel single-cell and genome editing approaches to understand and engineer cellular circuits. We especially value creative, energetic, and fearless individuals. Crazy ideas are a plus. We firmly believe that the modern biologist must be adept at experimentation as well as computation, and we are committed to training these scientists to succeed as future independent investigators.

Prospective postdocs: We are seeking new colleagues with diverse training experiences, and we are especially excited about individuals with experience in:

  1. single-cell and regulatory genomics
  2. statistical and machine learning
  3. mammalian gene regulation

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Posted on December 28, 2018

Postdoc in Epigenomics and Systems Biology

The group of quantitative genomics, bioinformatics and computational biology (QBC) (Section of Statistics and Data Analysis) is looking for a highly talented postdoc for 24 months to mainly work in the externally funded research project, EliteOva (https://eliteova.ku.dk/), headed locally by Professor Haja Kadarmideen at DTU Compute and by the overall project leader, Professor Poul Hyttel, based at the Department of Veterinary and Animal Sciences (IVH) (https://ivh.ku.dk/english/) at the University of Copenhagen (KU).

The postdoc will be expected to: 

  • Develop and conduct cutting-edge research in systems genomics, systems biology and bioinformatics in cattle with a focus on Cattle Artificial Reproduction Technology (ART) such as OPU-IVF and Embryo Transfer
  • Analyse datasets based on multi-omics profiles (genomics, epigenomic and transcriptomics datasets that are array- and NGS-based) and integrate or associate with phenotypes generated by ART and at the farm from the EliteOVa project and possibly other related datasets in cattle.
  • Collaborate with associated groups in EliteOva based in Canada/USA on epigenomics

Qualifications
Candidates should have a PhD degree combining genome-informatics, bioinformatics, computational biology or systems biology with animal biosciences with special emphasis on reproduction and embryotechnology. The ideal candidate profile is a combined expertise of bioinformatics and molecular biology working on animal epigenetics / animal reproduction. Epigenomic, transcriptomic and genomic data analyses (e.g. RRBS, RNAseq, SNP array/genome sequence data) as well as integrative systems biology analyses will specifically be in focus.

Please submit your online application no later than 8 February 2019 (local time).

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Bioinformatics Cloud Architect

We are seeking an enthusiastic Cloud Architect to join the Proteomics Team at the European Bioinformatics Institute (EMBL-EBI). The team is responsible of the maintenance and further development of the PRIDE (PRoteomics IDEntifications) database and related tools and resources. PRIDE is a world-leading international proteomics database, a founding member of the ProteomeXchange (PX) Consortium that is capturing large-scale mass spectrometry (MS)-based proteomics data from the scientific community and currently managing hundreds of TBs of data.

The post holder will be responsible of the maintenance and further development of the cloud infrastructure used to deploy the bioinformatics open data analysis pipelines developed by the team (using various tools and frameworks, e.g. Galaxy, OpenMS, etc), within the EMBL-EBI “Embassy Cloud”. These activities are part of running BBSRC and Wellcome Trust grants. In addition, the post holder could also contribute to other tasks related to the maintenance and development of the services and tools offered by the team.

You must be able to demonstrate at least 3 years’ working experience in a suitable programming language such as Java, C++ or Python. In addition, you should ideally have experience with cloud technologies, such as OpenStack, Docker, and Kubernetes. You will work in a highly international, team-oriented environment and collaborate closely with external partners. Excellent communication skills are essential. The ability to work independently, under time pressure, and the dedication to communicate openly are necessary skills.

Closing Date: 8 January 2019

Reference Number: EBI01293

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Posted on December 26, 2018

Res Post Doc Fellow - human genomics

A post-doctoral position in human genomics is immediately available. Research in our group focuses on the development of bioinformatics methods to analyze short-read and long-read sequencing data, and to enable the implementation of genomic medicine in clinical settings.

The successful candidate will work on the methods and applications of novel informatics approaches to handle unmet challenges in genome and exome sequencing data. Example projects include the analysis of large-scale Illumina genome sequencing data, the establishment of automated pipelines for Nanopore sequencing data, the clinical interpretation of genetic mutations in rare diseases, the identification of genetic biomarkers for drug efficacy and adverse events, and the discovery of somatic/expression biomarkers for certain categories of diseases.

A suitable candidate should have a doctoral degree in genomics-related fields, such as genetics, bioinformatics, computational biology, biostatistics or computer science, with strong prior experience in human genomics, such as published work in finding human disease genes through genomic approaches, familiarity with computational tools/pipelines for variant detection and annotation, or established web servers for genomic data analysis.

Required Education and Experience

  • A terminal degree PhD, MD, DVM, etc.
  • According to the CMS (Centers for Medicaid and Medicare Services) a copy of diploma or transcript is required as proof of academic achievement for all non-laboratory personnel performing non-waived POC testing

Job Description Req ID: 22266

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Postdoctoral Fellow - Cancer Genomics

EMBL is seeking a postdoctoral scientist to join Dr. Jan Korbel's group in the Genome Biology Unit to work on cancer genomics and genome variation. Thousands of cancer genomes have been generated in past years together with other ‘omics’ data types - from transcriptomes to methylomes, pathology images and clinical data – driving biological discovery and creating exciting data science and engineering challenges. We are seeking young scientists interested in developing new computational approaches, such as those inspired by genetic association testing and/or deep learning as well as cloud computing of massive-scale multi-omics data, to tackle the integration of these data in order to understand the causal molecular events in mutagenesis, genomic DNA rearrangements and cancer. The Korbel group is a ‘hybrid’ laboratory in which computational biologists and experimentalist collaborate tightly to obtain new insights into human disease and molecular mechanisms.

The post holder will join our interdisciplinary team to contribute either to methods development, computational analysis of large-scale genomic datasets, or biological interpretation of the results. Postdoctoral scientists are further encouraged to drive the planning of experiments for hypothesis testing. Hands-on experience in programming and integrating omics data will be a requirement for the position, and prior expertise with large-scale data integration will be a plus. Frequent interactions with lab members and external collaborators will be a crucial part of the job.
Applicants should have a PhD in the biological sciences or in bioinformatics, physics, computer science, or a related field. The ideal candidate is motivated to work in an international team on interdisciplinary projects and enjoys to work in a highly collaborative atmosphere. The candidate has strong analytical skills and the curiosity to tackle questions and mine new datasets for making fundamental discoveries. Fluency in English is essential.
Closing Date: 13 January 2019
Reference Number: HD01425

Posted on December 24, 2018

Postdoctoral fellow in Computational method development for drug high-throughput screens

The Institute of Computational Biology is globally recognised for innovations in data analysis and modelling of biological systems and diseases, anchored at the Helmholtz Centre Munich and the Technical University Munich. For our new junior research group "Systems Biomedicine & Pharmacogenomics" headed by Dr. Michael Menden we are currently looking for a Postdoctoral fellow (f/m/diverse) in "Computational method development for drug high-throughput screens".

The Postdoctoral fellow will focus on studying drug mechanisms for type 2 diabetes with drug high-throughput screens. Those screens are either complimented with deep molecular characterisation, or gene expression is measured pre- and post-treatment. For this, the fellow will develop innovative methods to explore high-throughput drug screens to derive biomarkers of glucose uptake and study the impact on metabolism of a large drug portfolio, which ultimately will pave the way for personalised medicine in type 2 diabetes.

Your Qualifications:

  • Ph.D. in Bioinformatics, Biostatistics, Physics or equivalent with interest in diabetes, cancer biology and early drug development. Alternatively a Ph.D. in Biotechnology, Biology or equivalent with significant experience and interest in Bioinformatics / Biostatistics
  • Excellent programming skills in R, Python and C/C++
  • Excellent academic record
  • Excellent understanding of at least one: diabetes or cancer biology
  • Scientific curiosity, commitment to scientific excellence and ability to work independently

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Post Doctoral Research Scholar (Genomics)

The post-doctoral research fellow will conduct high quality research in pediatric data science. Our research group works with large scale, de-identified aggregate electronic health record data, clinical and research applications of mixed reality visualization, integration of patient context ("envirome") information into clinical systems and genomics-based clinical decision support. The postdoc will apply subject matter expertise and data science methods to an emerging project integrating disparate information sources available to the Children's Research Institute including clinical phenotype, genome sequence (exome and WGS), specimen and environmental data. The fellow will join a dynamic organization focused on team science and translational research. The Children's Research Institute offers access to a high performance computing (HPC) resource, bioinformatics expertise, a biostats and epi core, software engineers and a diverse community of translational researchers committed to improving the health of children.

Job Requirements:

  • PhD or MD or related doctoral level degree in a relevant discipline
  • 1-2 years' experience
  • Conduct original research in the the application of data science methods to improve child health.
  • Expert with one or more modern programming environments – including R and Python.
  • Organizational and project management skills; Written and oral communication; Skill in leading, coordinating, and/or supervising the work of others; The ability to work effectively with people from a variety of culturally diverse backgrounds.
  • Demonstrated ability to communicate about biomedical topics and engage with clinical experts.

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