Jobs in Bioinformatics, Genomics and Life Science
Job Alerts in this week (October , 2018)
Update on October 17, 2018
RESEARCH FELLOW - Genomics and Molecular Mechanisms in Autoimmune Disorders
Cincinnati Children's Hospital Medical Center is a premier pediatric research institution with over 900 diverse and productive faculty members. Here, researchers work collaboratively across specialties and divisions to address some of the biggest challenges we face today in improving child health. A strong network of research support services and facilities, along with institutional commitment to research, push our team of faculty, postdocs and support staff to explore the boundaries of what is possible, leading to significant breakthroughs. We are driven by our mission to improve child health and transform the delivery of care through fully integrated, globally recognized research, education and innovation. Post-doctoral research fellows at Cincinnati Children's are valued for their unique interests and strengths, and are supported by our institution's strong programming for post-docs through the Office of Postdoctoral Affairs and the Office of Academic Affairs and Career Development.
Genomic technologies (ChIP-seq, EMSA, DAPA, ATAC-seq, DNA methylation, and others) are being applied in Dr. Harley's laboratory to reconcile genetic associations with the environmental causes of idiopathic autoimmune disorders with the goal to elucidate mechanisms initiating these pathological processes. The candidate would join a team that has uncovered unexpected and powerful associations of transcription factors with genetic loci, with the goal to establish the genetic mechanisms. The team in place has the strategic, informatic, clinical, and technical expertise to provide strong support for the candidate in addition to the other resources and personnel of the Center for Autoimmune Genomics and Etiology (CAGE).
MAJOR DUTIES AND RESPONSIBILITIES:
1. Design, execute, and record laboratory experiments; apply standard scientific protocols to experiments, research, and improve current methods and evaluate innovative techniques.
2. Draft, write, and edit scientific reports, papers, journal articles, and abstracts.
3. Design and perform experiments and record data according to research protocol. Independently reproduce, evaluate, research, and improve techniques currently used. Adapt new methods to existing procedures and modify current experiments through scientific knowledge and intuition. Maintain accurate and detailed records of all laboratory work and experiments.
4. Develop, set-up, and verify new procedures in the laboratory. Standardize and establish new published procedures; evaluate innovative techniques. Develop new assays and new protocols; design formats.
5. Discuss relevant insights about experimental results with Faculty and provide useful recommendations and analysis.
EDUCATION/ WORK EXPERIENCE:
Ph.D. in related discipline, MD, or equivalent required. The ideal candidate will have a PhD with a familiarity of genomic molecular laboratory methods (e.g., ChIP-seq, CRISPR-Cas9, EMSA, DAPA, etc.) and be computationally sophisticated. Deep familiarity with genome wide association studies for any complex genetic disease phenotype would be helpful. Preference will be given to applicants with experience with informatic expertise, including genome wide association studies, the analysis of next generation sequence data, large genotyping datasets, and data mining, in general, along with demonstrated scholarly productivity by discovery and publication.
Requisition #: 100723
Postdoctoral position in Bioinformatics (RNA biology)
A position in bioinformatics/quantitative biology is available in the laboratories of Drs. Helge Grosshans and Marc Bühler at the Friedrich Miescher Institute for Biomedical Research (FMI) in Basel, Switzerland.
The successful candidate will provide bioinformatics support for projects in RNA biology in diverse experimental systems ranging from yeast and nematodes to mammalian cells (see for instance Aeschimann et al, Mol Cell; Hendriks et al, Mol. Cell; Tuck et al, Life Science Alliance). These projects are run as part of the recently established National Center for Competence in Research (NCCR) “RNA & Disease”. He/she will be embedded in the FMI Bioinformatics Platform-Swiss Institute of Bioinformatics and work on the computational analysis of large datasets, for example from genome resequencing, (single cell) RNA sequencing, ribosome profiling, Hi-C, or ChIP-sequencing. The position is funded for four years and available immediately.
The candidate should have a PhD in computational biology or in a relevant biological field with quantitative/computational experience, and a strong interest in RNA biology and epigenetics. We expect strong curiosity and motivation to work with and for others.
Update on October 15, 2018
Postdoctoral Fellows and Bioinformatics Specialist
We are currently looking for talented researchers at different levels to join the Non-Coding Research Lab and the Non-Coding RNA core. Currently there are positions available for 2 Postdoctoral Fellows and a Bioinformatics Specialist
The Fellows and the Specialist will have the chance to be incorporated in cutting-edge research conducted in the Vlachos Lab, as well as in the Cancer Research Institute in Beth Israel Deaconess Medical Center (Director: Pier Paolo Pandolfi) and the non-coding RNA Core (Directors: Frank Slack and Winston Hide) of the Harvard Initiative for RNA Medicine. Our unique location within the CRI, a vibrant Department of Pathology in a leading Harvard Teaching Hospital and the first Institute for RNA Medicine in Boston creates a unique environment for avant-garde research and scientific growth.
All positions aim for candidates with a strong quantitative background stemming from extensive studies in disciplines such as Computer Science, Applied Math, Data Analysis or Biostatistics. Experience in non-coding RNA research is not a prerequisite.
1. Statistical Genetics Postdoctoral Fellow: the Statistical Genetics Fellow will lead projects aiming to model the effects of non-coding variation to complex diseases and especially neoplastic conditions. The ideal candidate should have a strong background in Statistical/Computational Genetics and Biostatistics and extensive programming experience. Experience in Machine Learning, Bayesian/Graphical Models and a good understanding of Next Generation Sequencing methods and their analysis will be considered as significant advantages.
2. Genomics & Computational Biology Postdoctoral Fellow: The CompBio Fellow will lead our projects focusing on integrating single cell and bulk sequencing datasets that can help us answer fundamental questions in the non-coding RNA field and to translate our findings to precision medicine applications. He will lead projects that require critical thinking and the ability to integrate diverse data and sources of information as well as our immunoinformatics studies. The ideal candidate should have a very strong computational background and extensive experience in analyzing different NGS methods. A solid math/stats background will be considered a plus.
3. Bioinformatics Specialist: The Bioinformatician will implement state-of-the-art analysis methodologies for bulk and single-cell experiments. The majority of the methods will revolve around the non-coding RNA cosmos as well as the prioritization of clinically-relevant non-coding variation. The ideal candidate should have extensive experience in performing Bioinformatics analyses and a BSc or MSc in quantitative sciences. Good programming expertise will be considered as a significant advantage
For further information email at: email@example.com
Postdoctoral in Bioinformatics
The Department of Biosciences and Nutrition performs research and education in several areas of medical science including bioorganic chemistry, molecular endocrinology, cancer biology, functional genomics, systems biology, epigenetics, structural biochemistry, cellular virology, and nutrition. It offers an excellent international research and working environment, including around 300 scientists, students, administrative and technical personnel. The Department resides in the new biomedical research building Neo, aimed at being a creative and open environment that enables meetings, synergies, and exploration of areas of mutual interest across disciplines.
Description of project and work This postdoc project is a collaborative project between Andreas Lennartsson’s research group at the department of Biosciences and Nutrition, Karolinska Institutet and Sören Lehmann’s group at the department of Medical Sciences at Uppsala University.
Duties Bioinformatics is central in our research and you will work close together with other postdocs and PhD students in both groups. You will be involved in planning experiments, final analysis and visualization of the results. You will have the possibility to participate national and international collaborations. You will analyze data from multiple technology platforms that are obtained using techniques such as Chromatin Immune Precipitation (ChIP)-sequencing, RNA-seq/CAGE, RRBS and Whole Genome Bisulphite sequencing.
Qualifications The applicant should hold a PhD from a related area, with experience in bioinformatic analysis of genome-wide data and have good understanding of statistics. Prior experience in hematology and cell biology is advantageous. Candidates should be able to interact and work efficiently in a team. Good knowledge of both spoken and written English is required.
Reference number 2-5418/2018
Last application date 01.Nov.2018 11:59 PM CET
Update on October 12, 2018
Postdoctoral Research Associate - Integrative Omics
The Center for Omics Discovery and Epidemiology (CODE) in the Behavioral Health Research Division of RTI International has an immediate opening for a Postdoctoral Research Associate focused on integrating multiple types of omics data (such as, genomics, epigenomics, and transcriptomics) to identify biological determinants of complex human diseases, including substance use disorders and related health consequences (such as, HIV), and their interactions with environmental factors. Our research team carries out NIH-funded projects, led by Drs. Dana Hancock (CODE director) and Eric O. Johnson (Senior RTI Fellow), using in-house and external datasets with standardized bioinformatics pipelines and high-performance computing (HPC).
Responsibilities to include, but not be limited to;
- Lead and support analyses of multiple omics data, using advanced statistical and bioinformatic methods in an HPC and cloud-based environment.
- Apply existing methods from the field and/or develop new methods for analyzing various omic data types.
- Assist with designing and managing new and ongoing data collection activities.
- Collaborate with international teams of leaders in substance use disorders and HIV.
- Publish findings in peer-reviewed journals in lead and support authorship roles.
- Present findings at professional society and other scientific conferences.
- Assist with submission of grant proposals.
- Completed Ph.D. (or by December 2018) in Genetics/Genomics, Biostatistics/Statistical Genetics, Bioinformatics/Computational Biology, Applied Mathematics, Computer Science, or related discipline
- Demonstrated background in substance use disorders, HIV, or related health consequences is preferred. An interest in these topic areas is necessary.
- Strong quantitative skills with omics data and concrete knowledge of statistical methods is required.
- Experience with an HPC environment and computer programming skills in R or Python is required. Cloud computing experience and familiarity with Linux is preferred.
- Strong oral and written communication skills are required.
- Ability to manage multiple project tasks simultaneously is required.
- To qualify, applicants must be legally authorized to work in the United States.
The holder of this position will perform computational biology specializing in high-throughput next-generation sequencing and micro-array analysis. This position will interact with a multidisciplinary team consisting of geneticists, genomic & molecular biologists, and biomolecular specialists to render final analysis of data coming from various platforms and identify mutations and other genomic features in a background of normal (wild-type) genes.
Duties: This position performs computational biology specializing in high-throughput next-generation sequencing and micro-array analysis. This position will interact with a multidisciplinary team consisting of geneticists, genomic & molecular biologists, and biomolecular specialists to render final analysis of data coming from various platforms. Identify mutations and other genomic features in a background of normal (wild-type) genes.
Qualifications: Bachelor’s degree in a biological sciences or related field required. Master’s degree in biological sciences or informatics preferred, or equivalent 2 years specific experience in DNA sequence/microarray informatics. BS or M. Sc. or equivalent in a computer science or mathematical discipline such as statistics preferred Demonstrated understanding of sequence analysis methods required Familiarity with the Linux &/or Unix computing environments required and previous experience implementing processes in a grid environment strongly desired. Experience with short-read DNA sequencing, gene expression, copy number variation, and other genetic anomalies desired. Experience in genome assemblies and consensus sequences desired Proficiency in Perl or other programming or scripting language required Experience with SQL query language required. Experience developing with tools such as MATLAB and R or other scriptable statistical packages required Experience with bioinformatics software such as BLAST, CLUSTALW, GMOD, ENSMBL, UCSC Genome Browser, EMBOSS, Galaxy, GenePattern
Update on October 10, 2018
The Bioinformatics Core in the Advanced Technology Cores at Baylor College of Medicine has a position available for a motivated bioinformatics analyst, with a focus on integrative analysis of epigenomic, transcriptomic, metabolomics, metagenomics, and proteomic large scale datasets. This position offers the opportunities to get experience in computational biology, interacting with the scientific community at large at Baylor College of Medicine, and lead to methodological advances such as novel software or analytical methods. Tools developed will be made available via web services such as the Galaxy server.
The successful candidate will be expected to participate in multiple projects involving integration of high-volume data sets, design and implementation of data processing pipelines, and analyses of proteomic and epigenomic data. The ideal candidate will have a graduate degree, PhD or MS in Biology, Biochemistry, or other life sciences. Experience with statistical analysis tools such as R or Matlab, and scripting languages such as Ruby, Perl, or Python is strongly recommended. Experience with the UNIX/Linux cluster computing using PBS is preferred. Due to the nature of the position, the candidate must have excellent written and verbal English skills, strong communication and interpersonal skills, and be capable of working with large collaborative teams.
- Bachelor's degree in Genetics, Biology, Bioinformatics, Biostatistics, Computational Biology, Computer Science, or related fields.
- Two years of experience in scientific programming with applications to biological research.
Posting Number: 302902JC
The Van Andel Research Institute (VARI) is an independent and world-class biomedical research institute dedicated to determining the fundamental molecular origins of disease and translating those findings into effective therapies. VARI is home to more than 300 scientists and staff that work in on-site laboratories and collaborative partnerships that span the globe.
The Pospisilik lab, a founding member of this metabolism focus, tries to understand the epigenetic and evolutionary basis of disease heterogeneity, non-Mendelian phenotypic variation, and intergenerational control, and is seeking a full-time Computational Biologist to join the team. The successful candidate’s will build upon our recent epigenomic analyses from both targeted and consortium (International Human Epigenome Consortium [IHEC/DEEP]) efforts which have identified chromatin-based mechanisms for buffering diabetes and beta-cell dedifferentiation (Lu / Heyne, Cell Metab 2018), establishing bi-stability and disease canalization (Dalgaard, Cell 2016), and producing intergenerational disease responses to diet (Oest / Lempradl, Cell 2014).
You possess a Master’s degree in computational biology, bioinformatics, mathematics, statistics, computer science, or relevant discipline (a BSc with experience will be considered).
As the ideal candidate, you will have:
- working knowledge of 1+ scripting language (e.g. R, python) and systems language (e.g. C)
- substantial experience analyzing NGS data (e.g. RNAseq, ChIPseq, ATAC, WGBS, Hi-C)
- an understanding of molecular biology and epigenetics (not absolutely required).
- a commitment to open, collegial, reproducible science, and the betterment of society.
We are particularly interested in candidates with additional orthogonal experience such as facial recognition and human genetic association analyses.
Tracking Code 460-085
Update on October 08, 2018
Postdoctoral position in Computational Biology
The Newman Lab, in the Institute for Stem Cell Biology and Regenerative Medicine and the new 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 (e.g., Nature Methods 2015, PMID 25822800).
- The successful applicant will have completed (or be close to completing) a Ph.D. or M.D./Ph.D. in an applied quantitative discipline, such as computational biology, bioinformatics, or biostatistics, with a strong interest in either basic or translational research.
- A strong background in machine learning and predictive modeling is desired, as is previous experience in common programming languages (e.g., R, Python) and genomic data analysis.
- Candidates with training in related fields, or in a life sciences discipline without formal computational training, will be considered depending on fit.
- Prior evidence of ambition, productivity, and creativity are a must, and a track record of conference presentations and first author peer-reviewed publications will be expected.
- Applicants should enjoy thinking deeply and working independently but also enjoy collaborating in a dynamic, fast-paced team environment.
- Recent CV
- Copies of relevant papers
- Names and contact information for 3 references
- Cover letter briefly describing the applicant’s previous research, scientific interests, and fit for this position
Postdoctoral scholar in Computational Biology
Berkeley Lab’s Biological Systems and Engineering Division has an opening for a Computational Biologist Postdoc Scholar . The candidate will leverage machine learning, synthetic biology and automation to make bioengineering a predictable endeavor, for the production of commercially viable bioproducts and other purposes. This position will be part of the Quantitative Modeling Group. Under general supervision of the principal investigator, the candidate will work as part of a collaborative team to integrate phenotypic data (e.g. fluxomics, transcriptomics, proteomics, metabolomics) into quantitative computational models able to predict the outcome of bioengineering approaches, as well as develop and apply automation solutions to gather these data.
What is Required:
• PhD in systems biology, bioengineering, computational biology, bioinformatics, applied mathematics, theoretical physics, computer science, electrical engineering or closely related discipline.
• Significant experience in python or other major programming language.
• Strong mathematical background and analytical skills.
• Strong interest in microbiology and bacterial metabolism.
• Strong written communication skills.
• A commitment to and demonstrated an ability to perform collaborative research in an interdisciplinary team environment.
Additional Desired Qualifications:
• Experience in modeling of biological systems.
• Experience in Machine Learning.
• Experience in Deep Learning techniques.
• Experience in 13C Metabolic Flux Analysis.
• Knowledge of microbiology and bacterial metabolism.
• Experience in metabolic flux analysis.
• Experience in experimental bench work.
Requisition #: 85710
Update on October 05, 2018
The Associate Bioinformatician position in Population/Biomedical Genomics is available at the Charles Bronfman Institute of Personalized Medicine at the Icahn School of Medicine at Mount Sinai, New York. The Associate Bioinformatician will report directly to one of our Associate Professors in Genetics and Genomic Sciences at the Icahn School of Medicine at Mount Sinai. The goal of the principal investigator’s research is to address fundamental questions in biology, medicine and human history. Specifically, the principal investigator is interested in detecting patterns of human genetic variation that can be used to inform our inference of human demography and evolution, help uncover the landscape of functional variation, and result in improved outcomes for medical genomics. In particular, she is focused on developing new models for rapid detection, translation and EHR-embedded healthcare management of genomic variants with significant clinical implications.
The successful candidate for this position will have experience in:
- Population genetics, bioinformatics techniques and establishment of analysis pipelines relevant to a human genomics research
- Computational techniques coupled with a strong understanding of statistics and genomics
- MSc or equivalent in biology, genetics, computer science, statistics, bioinformatics, computational biology, or a related field and the ability to work well in collaborative environments
- 5+ year of experience as a bioinformatics programmer in a population genomics laboratory is preferred
- Familiarity with biobank structures, data quality control and Electronic Health Record data is desired
- 5+ years of experience with statistical genetics, biomedical genomics, Mendelian and complex trait mapping and/or next-gen sequencing is a plus
Scientist, Computational Biology
Since 2006, 23andMe’s mission has been to help people access, understand, and benefit from the human genome. We are a group of passionate individuals pushing the boundaries of what’s possible to help turn genetic insight into better health and personal understanding.
23andMe is seeking an outstanding Computational Biologist to add to our collaborative, cross-functional research team focused on discovery of novel therapeutic targets and their development in our laboratories. Successful candidates will have demonstrated experience conducting creative and independent research analyzing a broad range of genomic data sets with an emphasis on understanding the underlying biology.
What you'll bring
- PhD in computational biology, biostatistics, statistics, or related quantitative field
- Expertise in several of the following:
- Analysis of RNA-Seq and microarray data
- Analysis of other large omics data sets
- Fine mapping of genetic association signals
- Linear and nonlinear modeling of statistical data
- Machine learning
- Experience developing robust data analysis software in R and/or Python
- Strong communication skills, and a particular ability to communicate data analysis results to non-specialists
- Demonstrated experience working on interdisciplinary teams\
- Industry experience in pharmaceuticals or biotechnology
- Knowledge of biology in at least one disease-relevant area (e.g., immunology, oncology, cardiovascular disease, etc.)
- Strong publication record
Update on October 03, 2018
Postdoctoral Associate, Computational Functional Genomics
The Xavier Lab at the Broad Institute of MIT/Harvard is looking to hire a Postdoctoral Associate with a strong computational background. This laboratory, led by Dr. Ramnik Xavier (Chief of Gastroenterology and Director of the Center for Computational and Integrative Biology at MGH, Co-Director of the Center for Microbiome Informatics and Therapeutics at MIT, and a Core Member of the Broad Institute), is uniquely positioned to leverage both clinical data from one of the world’s leading hospitals and large- scale chemical biology and genetics experiments performed at the Broad. Efforts in the lab are geared toward understanding the mechanisms of host-microbiome interactions in health and disease particularly with regards to inflammatory bowel disease, food allergy, and tuberculosis.
The ideal candidate has an interest in making significant contributions to discovery and therapeutics in biomedicine through navigating and interrogating big data and biological networks. The candidate will develop novel approaches to analyze data from high-throughput sequencing experiments and genetic screens to identify genes and pathways involved in the pathogenesis of gut diseases and the regulation of immunity. This position affords the opportunity to employ machine learning and statistics to cutting- edge technology like genome-wide CRISPR screens and single-cell transcriptomics.
• PhD in Computational Biology or a quantitative discipline like Statistics, Computer Science, Mathematics, Physics or Engineering.
• Strong publication record as an objective evidence of scientific and research involvement/potential/achievement.
• Experience with some scientific computing software (R/Matlab) and scripting languages (bash/perl/python).
• Solid foundation in the fundamentals of statistics, algorithms and data analysis, and the ability to approach problems with scientific rigor.
• Excellent communication skills and the ability to explain technical/mathematical reasoning to people from non-quantitative backgrounds.
• A passion for solving important problems facing humanity and advancing our understanding of the human body.
The Department of Medicine, Division of Cardiovascular Medicine is looking for a Computational Biologist to join Dr. Euan Ashley’s team at Stanford University. Dr. Ashley’s research focuses on leveraging emerging technologies such as genomics and wearable sensors to provide insights into precision medicine (https://ashleylab.stanford.edu/).
The role of Computational Biologist will focus on modeling of the large amounts of molecular and clinical data being generated by the consortium. You will work with stakeholders across the network to best understand data structures to model metadata schemas and be the point person for data transactions to the Bioinformatics core. Your understanding of molecular data and experimental design will be a key resource in enabling high quality data to flow into our systems to enable analytical insights.
- Graduate degrees that emphasize engineering, computer science and statistics are preferred
- Domain expertise in at least two omics such as WGS, RNA-Seq, RRBS, proteomics, metabolomics, microbiome
- An understanding of data modeling including ontologies and database design
- Experience with Python and Linux bash scripting
- Experience with experimental design protocols
- Basic knowledge of code management such as git and Jenkins
- Exposure to data analytics toolsets such as R, SciPy/NumPy, Matlab
- Exposure to cloud computing through Amazon, Google
- Exposure to container systems such as setting up virtual machines and Docker instances
EDUCATION & EXPERIENCE (REQUIRED):
Bachelor's degree and three years of relevant experience or combination of education and relevant experience. Experience in a quantitative discipline such as economics, finance, statistics or engineering.
Job Code: 4752
Update on October 01, 2018
Data Scientist (Computational Biology/ Bioinformatics)
pREDi Data Science, Roche Innovation Center New York
We are seeking an exceptional individual to join our Data Science team at Roche Innovation Center New York. In this position, you will apply your expertise in machine learning and big data analytics to generate new insights to help accelerate our drug development and bring new medicines to patients. You will drive innovation and make direct impact in drug development projects in New York and across Roche global sites. You will mine the massive amount of patient data beyond the traditional clinical observations, e.g, in the forms of electronic patient records, DNA/RNA sequences, and wearable sensor signals collected in the labs, clinical trials, and the public domain. If you are a self-motivated individual with strong quantitative skills, a passion to serve customers, and an excellent capacity to communicate and lead in a multi-disciplinary environment, we look forward to receiving your application.
- Partner with clinical and discovery research scientists to identify and address data analysis needs in drug project teams in all major disease areas.
- Identify relevant data sources, apply a variety of tools and methods to prepare data, develop algorithms and predictive models, perform data analysis, interpret results, create visualization and reports to convey and present findings and/or recommendations.
- Identify novel biomarkers (molecular/digital) that predict drug response or patient prognosis using RWD (Real World Data), RNA-seq, exome-seq and other clinical data.
- Mine massive amounts of RWD and genomic data and extract useful insights. Explore and identify analytics opportunities by collecting new data or mining existing data, with a thorough understanding of the scientific and business context of these analytics techniques
- Lead or contribute to informatics/analytics projects requiring deployment of analytics models in a larger technology platform
- Contribute to the overall team effectiveness by creating and disseminating new analytics framework, methodology and practices.
- Actively contribute to the development of new capabilities in advanced analytics methods in global Data Science networks.
• Ph.D. in data-related sciences such as Computational Biology, Bioinformatics, Data Science, Statistics, Applied Mathematics, Computer Science, Engineering and Physics.
• Strong quantitative analytical skills, e.g., in machine learning, statistics, and predictive modeling.
• Experience managing data-driven research from project inception to stakeholder communication.
• Ability to develop scientific software and analysis tools in one or more of programming languages, e.g., Python, R, Matlab, Java, and SQL.
• Experience in analysis of large scale genomic data such as whole genome/exome sequencing, RNA-seq.
• Proven track record in developing new algorithms, predictive models that resulted in scientific recognition or business impact.
• Scientific domain knowledge (e.g., Oncology, Immunology and Neuroscience) and business acumen.
• Big data experience (e.g., Hadoop/Spark, NoSQL).
• Excellent communication and presentation skills.
• Experience in biopharmaceutical industry and understanding of the drug discovery and development process is a plus.
• Experience in analysis of Real World Data (RWD) such as Electronic Health Records (EHRs), social media, and insurance claims is a plus.
How to Apply:
You MUST apply online via our website.
Postdoctoral Research Scientist in Biomedical Data Science
Department of Computer Science at Hunter College and The Center for Translational and Basic Research (CTBR) in CUNY are seeking a Postdoctoral Research Scientist in the fields of biomedical data mining, omics data integration, and systems biology. The candidate is expected to develop new computational methods for the multi-scale modeling of drug actions and genotype-phenotype associations as well as apply state-of-the-art computational tools to drug discovery and precision medicine. Depending on candidate’s interests and backgrounds, specific projects may include but not limited to: predicting genome-wide protein-ligand interactions, integrating and analyzing multiple omics data for drug target identification, identifying individualized drug response biomarkers, text mining of electronic medical records, knowledge representation and ontology development of drug responses, drug repurposing, and any other open questions in systems pharmacology.
Candidates must have a Ph.D. in bioinformatics, computational biology, statistics, computer science, and/or related fields. The candidate also must have a strong background and experience in one or more of the following areas: genomics, gene expression data analysis, systems biology, machine learning, or multi-variable statistics; strong programming skills using Python or R, and familiarity with computing environments such as MATLAB; effective communication skills; self-motivated and independent.
Expertise and strong publication record in one or more areas related to high-dimensional data mining, multi-view multi-target learning, structured learning, or deep learning.
Closing Date Nov 09, 2018 (Or Until Filled)
Update on September 28, 2018
Postdoctoral Position in Brain Cancer Epigenomics
An NIH-funded postdoctoral fellow position in the Knoepfler Lab at UC Davis School of Medicine is open. The focus of research will be on cancer epigenomics and more specifically on the role of histone H3.3 in childhood high-grade glioma, funded by a new 5-year R01 grant. The projects will include cutting-edge technologies including functional genomics such as RNA-Seq, ChIP-Seq, and chromatin configuration assays as well as CRISPR genetics work. The research will be conducted in a highly collaborative, productive environment at the intersection of the three outstanding centers of life sciences at UC Davis: The Comprehensive Cancer Center, Stem Cell Program, and Genome Center.
• Experience in cell and molecular biology, and experience with genomics, bioinformatics, or cancer research would be ideal
Please send an e-mail to firstname.lastname@example.org with a 1-page overview of research experience and career goals, a CV, and contact information for 3 references.
Postdoctoral Scientist (Bioinformatics)
The Pirbright Institute delivers world-leading research to understand, predict, detect and respond to viral disease outbreaks. We study viruses of livestock that are endemic and exotic to the UK, including zoonotic viruses, by using the most advanced tools and technologies to understand host-pathogen interactions in animals and arthropod vectors. Our major strength in understanding the immune systems of livestock provides a platform to control current diseases and respond to emerging threats.
The successful candidate will join the Vector Molecular Biology Group at The Pirbright Institute. Our group focuses on the analysis of the function of genes involved in mosquito development, and routinely uses transgenesis technologies, with the purpose of identifying targets for novel mosquito control approaches. We are looking for a highly motivated, ambitious and experienced postdoctoral researcher with a range of complementary skills in molecular biology, genetics and bioinformatics to assume a major role in a project to understand regulation and function of genes in Aedes aegypti and to implement that information to create gene drive systems in mosquitoes. He/she will be using state-of-the-art methods, including next-generation sequencing analysis and mosquito genome engineering to test selected target sequences in vivo in transgenic Aedes aegypti.
Main duties and responsibility:
- Carry out innovative, impactful research that will lead to novel and important scientific outcomes: be responsible for driving the project, contributing to experimental design and data analysis.
- Conduct, with the help of a member of The Pirbright Institute’s bioinformatics group, next generation sequencing data analysis to identify mosquito target genes (training in the analysis of next-generation sequencing data will be provided if necessary).
- PhD in molecular biology, genetics, or related discipline
- Demonstrated ability to conduct innovative research
- Demonstrated high level of relevant technical skills
- A track record of publications in quality peer-reviewed international journals
- Excellent written and oral communication skills
- Enthusiasm and willingness to learn new skills
- Strong self-motivation, ability to work effectively independently
Closing Date: 31 October 2018
Update on September 26, 2018
Bioinformatics Analyst III - Center for Cancer Genome Discovery
Located in Boston and the surrounding communities, Dana-Farber Cancer Institute brings together world renowned clinicians, innovative researchers and dedicated professionals, allies in the common mission of conquering cancer, HIV/AIDS and related diseases. Combining extremely talented people with the best technologies in a genuinely positive environment, we provide compassionate and comprehensive care to patients of all ages; we conduct research that advances treatment; we educate tomorrow's physician/researchers; we reach out to underserved members of our community; and we work with amazing partners, including other Harvard Medical School-affiliated hospitals.
The primary responsibility of this role will lead the development and validation of multi-omic analytical methodologies for both cutting-edge research and clinical applications (such as development of analyses for liquid biopsies and structural variant detection). Working with scientific and clinical colleagues, the capabilities developed will be applied to precision cancer medicine efforts at our institutions. To make significant contributions to the research and clinical efforts described above, the candidate will have the ability to quickly arrive at innovative and effective solutions both as part of a team and independently.
Bachelor’s degree required, MS or PhD preferred in Bioinformatics, computational biology, or computer science or equivalent experience and 6-9 years relevant experience with 2+ years’ experience.
Familiarity with principles of experimental design and modern data analysis paradigms is required.
Strong interpersonal skills and ability to effectively interact with all levels of staff and external contacts. Excellent analytical, organizational and time management skills.
Postdoc in Bioinformatics
The Yang Lab is seeking self-motivated individuals with strong background of computational biology to study cancer genomics. The main goal of the lab is to explore the functional consequences of somatic alterations in cancer patients, to identify driver alterations, and to understand the evolutionary process of cancer by integrating multi-dimensional data from large scale cancer studies such as The Cancer Genome Atlas (TCGA). The mechanisms of different types of alterations, the functional impact of somatic alterations involving regulatory elements in the human genome, and mechanisms of tumor initiation, progression, metastasis and drug resistance are of particular interest.
Responsibilities: The applicant is expected to lead multiple research projects, develop new computational algorithm(s), perform data analysis, collaborate with biologists and physicians, and present/publish the results in scientific conferences/journals. The applicant will have the opportunity to tackle cutting edge problems in biomedical field, interact with world class scientists, and gain experiences and develop skillsets for his/her next career stage.
- Ph.D. in computational biology/bioinformatics/statistics or related discipline
- Experience in Unix/Linux shell
- Experiences with high-throughput sequencing data (WGS, WES, RNA-Seq, ChIP-Seq) analysis
- Experiences in the following fields preferred, but not required: cancer biology, genetics, evolutionary biology, systems biology
To apply, please email your CV, two representative publications, contact information for three references to the PI Dr. Lixing Yang. email@example.com
Posted on September 24, 2018
Postdoctoral Research Fellow - Computational and Mathematical Modeling
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.
Job ID: 201809-121656
Bioinformatician / Data Manager
The Novartis Group of Companies are Equal Opportunity Employers and take pride in maintaining a diverse environment. We do not discriminate in recruitment, hiring, training, promotion or any other employment practices for reasons of race, color, religion, gender, national origin, age, sexual orientation, marital or veteran status, disability, or any other legally protected status.
Primary focus will be on maintaining, administering, growing, and further developing an integrated data platform for investigational and correlational analyses of all CMC relevant data to support process development and product understanding for cell and gene therapy products as well as starting materials and intermediates thereof. Partnering with other development and commercial functions (including Manufacturing, Clinical Pharmacology, PCS, etc.) to maximize benefit of the platform for the CMC data.
Education: BS/BA required. Computer Science, Bioinformatics, Computational Biology or Science degree preferred.
Languages: Fluent in speaking / writing in English
• Minimum of 3 years database development and management
• Knowledge of and experience with R, Python, Java, SAS, preferred
• Experience with data integration, database maintenance, design, and implementation
• Strong interpersonal effectiveness, leadership, and communication skills (written and oral) to interface across management levels and departments.
• Working knowledge of cGMPs, FDA regulatory guidelines and validation principles
Job ID: 249125BR
Posted on September 21, 2018
Postdoctoral position in Bioinformatics
At the Department of Oncology-Pathology basic, translational and clinical research and educational activities related to cancer is carried out. Approximately 300 people from over 40 nations are currently working at the department. 37 research groups with various cancer research profiles are involved and we have around 120 PhD students. The Department of Oncology-Pathology is responsible for undergraduate courses in Pathology, Oncology and Forensic Medicine for medical students, as well as for Tumor biology courses for biomedicine students and Pathology courses for opticians.
Position We search for a highly motivated postdoctoral researcher in bioinformatics to join a consortium of three research teams dedicated to understand the function of 3D epigenome folding and its deregulation in human diseases from entirely novel perspectives. The candidate is expected to drive a postdoctoral project and participate in collaborative efforts to uncover hitherto unknown therapeutic targets in complex diseases, such as cancer and diabetes.
A person is eligible for a postdoctoral position in bioinformatics, if he or she has obtained a PhD or equivalent in Computational Biology, Computer Engineering, or a relevant quantitative scientific discipline no more than five years before the first date of employment as postdoc. In addition, it is advantageous if the successful candidate has:
- Experience in the analysis of NGS data, in particular: RNA-seq, single cell RNA-seq, ChIP-seq, 3C-based chromatin interactome datasets
- Experience in network analysis
- Excellent knowledge in biostatistics
- Extensive experience in using R/BioConductor, Unix/Linux environment (prior scripting language experience e.g. Python/Perl is a plus)
- Experience in data visualization
- Experience in meta-analysis
- Experience in SNP calling from NGS data is a plus
Last application date 25.Oct.2018 11:59 PM CET
Postdoctoral Fellowship in Environmental Health Biostatistics
The Department of Biostatistics and Computational Biology at the University of Rochester (UR) announces an opening for a postdoctoral traineeship in Environmental Health (EH) Biostatistics, funded by an NIEHS T32 training grant. The appointee will develop and apply novel statistical methodology for projects related to EH, under the mentorship of a Biostatistics faculty trainer (Drs. Sally W. Thurston, Matthew N. McCall, Brent Johnson, Tanzy Love, Michael McDermott, David Oakes, or Robert Strawderman).
In accordance with NIEHS requirements, trainees must be a US citizen or permanent resident, and must have completed a doctoral degree in statistics or a related subject by the appointment start date. We seek a highly motivated candidate with a strong statistical background, excellent programming skills and good communication.
The position is available for 12 months initially with the possibility of renewal for a second year. We anticipate an early autumn 2018 start date, but seek the best candidate even if the start date is delayed.
Posted on September 19, 2018
Post Doctoral Scientist: Bioinformatics/ Computational Genomics
The Institute for Genomic Medicine (IGM) at Nationwide Children’s Hospital is creating a future that integrates genomics into the everyday practice of pediatrics. Led by a team of internationally-renowned genomic medicine scientists, IGM is housed in the campus’ newest research building, spanning ~25,000 square feet of laboratory and office space in a highly interactive setting.
We’re looking for a Postdoctoral Scientist to join our Computational Genomics Group to develop novel computational approaches for the analysis and interpretation of genomic data in pediatric cancer, birth defects and other rare genetic diseases. You will have the opportunity to work on a highly collaborative team, developing novel software tools, utilizing the elasticity of the Cloud and innovative Big Data technologies. Our Postdoctoral Scientists are given a unique training opportunity, with co-mentorship from Drs. White, Wilson and Mardis, with a focus on helping the candidate to establish their career as an independent investigator.
- PhD in Bioinformatics, Computational Biology, Computer Science or related discipline
- Deep computational understanding and strong programming skills (candidates will be asked to complete a programming assessment)
- Scripting and process automation experience (Python, Perl, shell, etc)
- Standard knowledge of algorithms, data structures and scientific programming
- Experience in bioinformatics and core bioinformatics tools and databases
- Software development experience is a plus (Java preferred)
- Must be a team player with good communication skills and an attention to detail
Requisition ID 2018-13363
Postdoctoral Scholar Research/ Genomics Program
The incumbent will work in Dr. Uddin lab which is part of the newly established, rapidly growing Genomics Program located in the College of Public Health at the University of South Florida (USF), with rich opportunities for collaboration with investigators at local, national, and international levels.
The primary duties and obligations of the appointment are to conduct genomic research in accordance with the needs of Dr. Uddin’s research program. This will involve undertaking original investigation of existing and forthcoming genomic datasets relevant to stress-related mental disorders, drafting manuscripts for publication in peer-reviewed journals, attending conferences to present research results, managing datasets used in ongoing research projects, assisting with the preparation of annual reports to granting agencies, and participating in the submission of grant applications.
- PhD or equivalent degree in one of the following areas: computational biology, bioinformatics, statistical genetics, systems biology, or related area.
- Proficiency in one or more commonly used programming language such as R, C++, Python, or Perl.
- Experience working with large, high-throughput genomic data sets such as genome-wide association studies (GWAS), epigenome-wide association studies (EWAS), and Next Generation Sequencing (NGS) data sets.
- Experience integrating multi-omic data and/or genomic and epidemiologic/survey data preferred.
- Experience with human-based datasets and longitudinal analysis is also desirable.
Job Opening Number: 18270
Posted on September 17, 2018
Scientist at the NGS bioinformatics core facility
At the Helmholtz Zentrum München, you can contribute together with leading researchers to the investigation of the development, prevention and treatment of environmental diseases such as diabetes, chronic lung diseases and allergies. In order to further promote your professional development, we offer extensive and targeted research training and career programmes. We support the reconciliation between work and private life with flexible working time models, occupational health management, day care facility for children, a childcare subsidy, Elder Care, as well as other counseling and support services.
The candidate will be responsible for:
- Specification and implementation of the Galaxy workflow environment (jointly with the software developer)
- Handling of research projects in cooperation with HMGU scientists or as service to HMGU scientists
- Development of individual research pipelines as reusable workflows on the Galaxy platform
- Training and consulting of HMGU scientists
- PhD in bioinformatics or related fields
- Excellent scientific track record
- Strong programming skills
- Experience with high performance computing infrastructure
- Know How in multidisciplinary projects
- Good communication skills
We are looking forward to receiving your comprehensive online application until 15th of October 2018.
Computational Biologist: Host-Microbe Immunity
The Computational Biology Department supports Drug Discovery and Development at GSK Pharmaceuticals R&D through the integrative analysis of internal and external biomedical data. Our analysis competencies are quite diverse and include target identification and validation, genetics, pathways and networks, disease indications, text mining, molecular evolution, gene expression, microbiome/host pathogen analysis, drug repositioning and machine learning. We contribute to multiple phases of the drug development pipeline and our work results in developing new medicines for important diseases of unmet medical need.
We are hiring a skilled Computational Biologist to focus on host-microbe immunity research which includes infectious disease, host-pathogen interactions and the microbiome. In the pharmaceutical industry, GSK is world leader in the development of medicines against the most severe infectious diseases including HIV, hepatitis B virus, bacterial infections, TB, malaria and other parasites. GSK is also a microbiome research innovator in various therapy areas including respiratory and inflammatory diseases.
• PhD in computational biology, bioinformatics, and/or biomedical/biological sciences with an emphasize on data analytics.
• Strong written and oral communication skills.
• Ability to work effectively in multidisciplinary teams.
• Publication record in peer reviewed journals.
• Expertise in applying genome-wide genetic, genomic, pathway and network methods to host-microbe immunity questions including pathogen genomics, host-pathogen interactions and the microbiome.
• Expertise in a programming language (such as R, Python or Perl) for complex data analysis.
• Knowledge of and experience with common bioinformatics databases, resources and tools.
• Demonstrated experience in processing multiple large scale genomic and genetic platforms, such as transcriptomic, proteomic or Next Generation Sequencing data.
Requisition ID: WD181298
Posted on September 14, 2018
Senior Research Associate | Integrative Genomics
City of Hope, an innovative biomedical research, treatment and educational institution with over 5,000 employees, is dedicated to the prevention and cure of cancer and other life-threatening diseases and guided by a compassionate, patient-centered philosophy.
A Senior Research Associate position is available in Beckman Research Institute of City of Hope to perform analysis of large scale genomics data, specifically microarray and next-generation sequencing data. Develops analysis pipelines and applications for genomic data analysis and data mining.
- Works on various research projects as assigned under supervision of the director.
- Performs statistical and bioinformatics analyses of large scale genomic data, e.g. Illumina and PacBio
- Prepares summaries, presentations, manuscript sections and figures for the visualization and publication of complex data and results.
- Evaluates existing methods and develops applications for genomic data analysis and data mining
- Establishes schedules and monitors status of projects on an ongoing basis.
Minimum Education and Skills Required for Consideration:
- Bachelor's or Master's degree, reqired.
- Five or more years related research/ laboratory experience with a Bachelor’s degree or, four or more years related research/ laboratory experience with a Master’s degree.
- 2+years of relevant experience in applying statistical and computational methods to theanalysis, modeling and visualization of complex genomics data.
- Extensive knowledge of statistical analysis methods and models, mathematical and computational algorithm, such as machine learning algorithms.
- Experience with genomic data integration and data mining.
- Proficient in R/Bioconductor programming.
- Experience working with NGS data, such as Illumina Hiseq/miSeq and PacBio SMRT sequencing.
- Familiar with at least one programming languages, such as R/Perl/Python/JAVA/C++ with R preferred.
- Familiar with Biological databases, such as GEO and TCGA.
Bioinformatics & Data Analytics Scientist
The Biosecurity and Public Health group at LANL is seeking a specialist in Bioinformatics and Data Analytics that will support and develop programmatic and R&D efforts in the Bioscience (B) Division. The successful candidate will have the opportunity to work on multi-disciplinary projects involving topics such as biosecurity, public health, biosurveillance, bioenergy, and environmental microbiology.
R&D Scientist 2, ($87,800 - $144,800)
- Develop web-based GUIs for a variety of bioinformatics workflows
- Develop open source software options for source code or docker implementation, on individual computers, servers, clusters, or cloud infrastructures, to optimize data processing
- Contribute to new proposals on data analytics that use genomic and other big data types
- Develop web based analytics for infectious disease forecasting and prediction
- Develop, maintain, and operate bioinformatics pipelines for data mining and analysis
- Lead individual tasks on genomic analysis for projects involving clinical and environmental samples and contribute to programmatic milestones
- Collaborate closely with experimental biologists for interdisciplinary genomics projects
- Mentor postdocs and students
R&D Scientist 3, ($96,600 - $161,300) In addition to the duties outlined for Scientist 2 above, the Scientist 3 will be required to:
- Successfully obtain external funding for development of new bioinformatics tools/algorithms and big data analytic platforms that use genomic data and other big data types
- Take on a leadership role for a small team and direct their work
- Work with peers in the division to explore new avenues of funding and develop strategic goals for future research
Scientist 2 Education Requirements: Typical educational requirement is a bachelor’s, master’s, or doctorate degree in science from an accredited college or university, Ph.D in Microbiology/Molecular Biology/Biological Sciences/Bioinformatics/Computational Biology preferred.
Scientist 3 Education Requirements: Ph.D in Microbiology/Molecular Biology/Biological Sciences/Bioinformatics/Computational Biology
Vacancy Name: IRC68665
Posted on September 12, 2018
Postdoc Position in Bioinformatics and Neurogenetics
The Zhang lab at the University of Chicago is looking for a highly motivated postdoc fellow in bioinformatics and neurogenetics. The newly established group in the Department of Human Genetics focuses on the fundamental mechanisms of brain development with the ultimate goal of diagnosing and treating neurological diseases.
The successful applicant will interact with exceptional UChicago faculties in human genetics, neuroscience, RNA biology, single cell biology, biostatistics and computation biology. The Zhang laboratory is also affiliated the Grossman Institute for Neuroscience, Quantitative Biology and Human Behavior, with full access to outstanding genomics, imaging and stem cell core facilities. This position offers excellent career development opportunities in neurogenetics and bioinformatics.
• Fresh PhD or MD/PhD with established track record in biomedical research such as genetics and genomics, bioinformatics, neuroscience, or molecular and cell biology.
• Expertise with next-gen sequencing, genomic data analysis and programming is preferred.
• Able to work independently and as part of a team.
Interested candidates please send a pdf file including the CV, Contact information for three referees to Dr. Xiaochang Zhang firstname.lastname@example.org
Research Bioinformatician II 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 RBII 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.
Essential job Duties and Responsibilities:
Provides general bioinformatics analysis support for omic projects and mainly responsible for data analysis and software compilations including next generation sequence alignment, polymorphism identification, expression analysis, and visualization tools and browsers.
Summarizes data analyses results in the form suitable as the basis for the first draft of written reports, and makes preliminary interpretations of the data.
Develop, test, and maintain modular software pipelines for genome sequencing, assembly, annotation, metagenomic analysis, and genotyping using high-throughput sequencing platforms including 454, Illumina, and Pacific Biosciences
Manages data including loading and querying data from database systems, downloading omic data from public repositories, and transforming data to the necessary formats
Familiar with medical and biological terminologies, bioinformatics resources, and national biological databases, Ready to provide solutions for investigator’s problems through data mining and extraction
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)
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, Experiences in manipulating, analyzing, and annotating very large genomic (e.g. NGS) data sets both in exploratory and pipelined fashions.
Requisition # 18001297
Posted on September 10, 2018
Postdoctoral Research Associate, Bioinformatics / Statistical Genetics
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.
We are seeking applicants for a postdoctoral position to work in Drs. Cruchaga and Harari lab at Washington University School of Medicine. Washington University School of Medicine is ranked among the top ten medical schools in the country and is a thrilling learning environment for postdocs. The goal of our research is to use genomic approaches to understand the biology of Alzheimer’s Disease, Parkinson Disease and other neurodegenerative disease. Our labs have pioneered the use of biomarker levels for Alzheimer and Parkinson disease as endophenotypes for genetic studies. By using this approach, we have identified six novel loci associated with Alzheimer disease risk, progression and onset.
We are looking for a postdoc with expertise in GWAS, exome-chip, WES and WGS and Mendelian Randomization to work on a project focused on the identification of novel biomarkers for Alzheimer’s disease and Parkinson disease using genomic approaches. A very large and well characterized dataset with proteomic, genetics and transcriptomic data is available.
PhD in Statistics, Bioinformatics, Computational Biology, Biostatistics, Statistical Genetics, Medical Statistics, Mathematics or similar.
- Strong background in GWAS (PLINK and SKAT-O) and second-generation sequencing.
- A working knowledge of UNIX, Perl/Python and R.
- Demonstrated ability to implement laboratory procedures, conduct research and records findings.
Applicants should email a curriculum vitae and statement of research interests to (email@example.com). Evaluation of applications will begin immediately.
Scientist, Single Cell Sequencing (Pfizer)
We are seeking a motivated and dynamic individual to join the Molecular Profiling Group in Systems Immunology. This individual would support the development, validation, implementation, and growth of single cell sequencing for Inflammation and Immunology’s portfolio areas. This person will execute technical and laboratory aspects of in-house single-cell assay development projects including the design and execution of laboratory experiments, evaluation of test data, as well the preparation of associated documentation and reports.
- Supports the implementation and growth of single-cell analysis technology, supports ongoing development, validation and troubleshooting of single-cell assays, including single-cell RNA sequencing (droplet and plate based) and antibody based single-cell analysis (CITE-seq/REAP-seq/Abseq)
- Performs operations of different single-cell analysis workflows; from tissue storage, sample preparation, library construction, data generation, data processing to interpretation of results, ensuring high level of quality and reliability of generated results.
- Effective testing and optimization of tissue stabilization, dissociation, and purification protocols.
- Effectively optimizing and troubleshooting of single-cell RNA sequencing library preparation.
- Bachelor’s degree with 5+ years or MS with 3+ years of relevant molecular and cellular biology experience
- Previous experience with tissue dissociation protocols, single cell suspension generation required
- Extensive hands on molecular biology protocol and and NGS technology expertise required
- Must have at least 3 years of documented hands-on (wet lab) experience with NGS assay development, validation, troubleshooting, and reviewing of sample QC data OR tissue dissociation, cell isolation methods (e.g. FACS), cell culture and basic molecular biology (e.g. PCR, cloning, etc).
- Must have in-depth knowledge with different standard NGS platforms, bioinformatics pipelines and NGS data processing and interpretation solutions.
- 1+ year of hands-on single-cell sequencing experience
- Knowledge of single-cell RNA sequencing platforms (10x, inDrop. Drop-Seq, SMARTseq, Rhapsody or other) greatly preferred.
- Bioinformatics skills, including programing in R/python (or any other language), experience with command line, and familiarity with statistical software packages is highly desired.
- Experience with computational and statistical approaches for high-dimensional data analysis is a plus
Last Date to Apply for Job: October 4, 2018
Posted on September 07, 2018
Postdoctoral Associate: Computational Cancer Biology
Dr. Sheng Li’s lab at JAX-GM is seeking a computational biology postdoctoral associate who is interested in studying cancer epigenomics using large-scale multi-omics datasets. The Li Lab focuses on combining computational approaches and high throughput sequencing datasets to uncover novel mechanisms that contribute to cancer evolution.
We are looking for applicants who are self-motivated, independent who are excited to work in the collegial, collaborative, interdisciplinary, and diverse research environment offered by The Jackson Laboratory. The postdoctoral associate will develop research project in one of more areas of focus:
- Develop computational, bioinformatics, and statistical approaches to address the challenges in cancer epigenome and transcriptome data integration.
- Analyze long-read sequencing data for base modification predictions.
- Build multi-scale regulatory network based on 3D chromantin interaction sequencing data.
- Analyze single-cell sequencing data sets to understand the intra-tumor heterogeneity.
- Apply machine learning models to identify molecular patterns and predictive markers for diagnosis and treatment.
- PhD in Computational Biology, Biostatistics, Bioinformatics, or a related field with knowledge of statistics and an interest in working in an interdisciplinary computational biology and cancer research environment.
- Strong programming skills, preferentially with expertise in R and/or Python and UNIX programming.
- Research experience in next generation sequencing data analysis, especially in epigenomics, and utilization of publicly available bioinformatics resources.
- Strong problem-solving skills, excellent communication skills, and enthusiastic about science.
- Knowledge of (and/or work expereince with) machine learning/deep learning methods.
Job ID 2018-25249
Merck & Co., Inc. Kenilworth, N.J., U.S.A. known as Merck in the United States and Canada, is a global health care leader with a diversified portfolio of prescription medicines, vaccines and animal health products. The difference between potential and achievement lies in the spark that fuels innovation and inventiveness; this is the space where Merck has codified its legacy for over a century. Merck’s success is backed by ethical integrity, forward momentum, and an inspiring mission to achieve new milestones in global healthcare.
We are seeking a highly motivated bioinformatics scientist to join our Global Research IT team at Merck. As a scientist in Research IT organization, the successful candidate will partner with biologists and data analysts in Merck Research Labs and apply advanced computational methods and data analytics for genomic technology, target identification, target validation and biomarker discovery. The role will focus on developing computational genomic pipelines, machine learning applications and visual analytics and analyzing multi-dimensional data sets to support Merck’s drug discovery biology and translation medicine research.
Education Minimum Requirement:
- A Master degree or a Ph.D. degree with a focus on computational biology, bioinformatics, or computer science or related fields
Required Experience and Skills:
- At least five years research experience for Master degree or one year for Ph.D. degree in computational biology, bioinformatics, or machine learning
- A demonstrated track record of developing computational methods and pipeline for genomic technology, translational research or biology discovery
- Extensively experience in developing next-generation sequencing data analysis pipelines such as single cell RNA sequencing, exome sequencing and transcriptome sequencing
- Hands-on experience by applying machine learnings
- Proficiency in programming languages (Python, Perl, C++), and mathematical and statistical package, such as R and MatLab, in a Unix/Linux environment
- Experience with high-performance Linux cluster and cloud computing
- Excellent interpersonal and team skills
- Demonstrated ability to collaborate with cross-functional project teams
- A proven track record of scientific publications
- Excellent oral and written communication skills in English
Requisition ID: INF004823
Posted on September 05, 2018
Postdoctoral Fellow, Inflammation and Immunology (Bioinformatics)
At Pfizer, we strive to improve the life of patients through innovative therapy. Our work in the discovery group within the Inflammation & Immunology research unit is to build the foundation of tomorrow’s medicine by deciphering disease pathways in autoimmunity to identify novel therapeutic targets.
We are looking for a highly motivated scientist to join our group as a postdoctoral fellow. Your research will focus on identifying and characterizing the role of synovial fibroblast subsets in rheumatoid arthritis. Deepening our understanding of the protective and pathogenic roles of synovial fibroblasts will be crucial for the establishment of novel therapeutics that would be complementary to current therapies focused on modulating the inflammatory response.
- Computational analysis of complex datasets
- Isolate specific cell population by flow cytometry to characterize them in vitro
- Establish model systems to decipher interactions of synovial fibroblasts with innate immune cell types
- Validate findings in murine models of arthritis
- Present findings at internal and external conferences, and publish results in high impact peer-reviewed journals
- Recent PhD in immunology, bioinformatics or related field (0-4 years)
- Strong track record of scientific publications
- Hands-on experience with basic immunological techniques, including cell culture, cell isolation, multi-color flow cytometry, immunohistochemistry
- Basic programming skills or understanding of systems immunology
- Ability to work efficiently in a team
- Excellent oral and written communication skills
Who we are
Antoine Claessens (PI) is a malariologist who trained at Edinburgh University, the Sanger Institute, LSHTM and the MRC-Gambia. He recently joined Montpellier University as a “Chargé de Recherche INSERM”. He was awarded an ATIP and an ANR-JC, with which this position will be funded.
The goal of our research is to understand the genomic and transcriptomic mechanisms that enable the malaria parasite Plasmodium falciparum to establish a chronic, asymptomatic, infection. In regions such as The Gambia where malaria is highly seasonal, these infections constitute a reservoir during the dry season (with no or little transmission). From 2014 to 2017, we regularly collected blood samples from symptomatic and asymptomatic volunteers in a Gambian village, including a time series of monthly samples from the same volunteers over a 6-month period. This dataset represents a unique opportunity to address novel questions about the parasite biology.
Project 1: Can P. falciparum sense its environment and adapt to it via transcriptional regulation?
With colleagues at LSHTM and at the Sanger Institute, we are sequencing parasite isolate transcriptomes using RNA-seq and single-cell RNA-seq technology. Your task is to identify genes differentially regulated in the dry vs wet season, in symptomatic vs asymptomatic infections, and identify putative candidates involved in cell growth. The transcriptome dataset, which will be linked with growth assay data, will be crucial in understanding how the parasite successfully establishes a chronic infection over the dry season, yet triggers a new epidemic over the following transmission season.
Project 2: P. falciparum population genetics and genomics.
In collaboration with MalariaGEN at the Sanger Institute, a dataset of parasite DNA barcodes and parasite genomes collected over 3 years in the same village is now available. You will describe the first parasite genomes sequenced from asymptomatic infections, and investigate the impact of the dry season selective pressure on the parasite population. Your task is to fully characterise the parasite population genetic diversity, using genotyping, genomic and epidemiologic data.
Your skills (essentials)
- PhD in biostatistics/bioinformatics, or in molecular biology with a strong background in biostatistics and programming
- Demonstrated experience in “Omics” data analysis
- Able to work independently
- Great communication skills in English
- Stay focused on answering a specific biological question, from the initial analysis to publication
- Passionate about scientific discoveries
Your skills (desirable)
- Knowledge about malaria biology and population genetics
- Wet-lab experience would be a plus, particularly FACS and cell-sorting
- Willing to supervise a Master student in bioinformatics / epidemiology
- Participate actively in the lab and institute life
- Appreciate XKCD humour
A more detailed description of this job application can be found here. Interested in applying? Then please send an email to firstname.lastname@example.org with subject “post-doc #0001 - keep me updated”. I will send you a link for a formal application in early September. Starting date: October 2018 (to be discussed).
Bioinformatics Systems Analyst
The Broad Institute's Scientific Consulting Services (SCS) team is looking for engaged technologists to assist the Broad's scientists in their application of Information Technologies to help cure human disease. This role supports Broad scientists by providing on-site and cloud-based IT services in scientific software management, computational resources, data management, and lab/workflow management. The SCS team part of Broad IT operations organization, and is primarily responsible for cultivating and maintaining relationships between IT and the Broad's Scientific Community.
Facilitate data collection, updates and information flow among systems.
Participate in the investigation of new tools as appropriate.
Participate in consulting with scientific organizations and users about their Information Technology requirements.
Learn institute IT requirements for security, scalability and sustainability
Execute the best practices and methods for IT services in the area of High Performance Compute, Data management, Lab and Workflow Management.
Investigate and install software packages as appropriate.
Bachelor's degree or progress toward degree in Computer Engineering, Computer Science or other technical or scientific discipline or equivalent experience
Experience in: Computational Biology, Bioinformatics, Computer Science, Information Systems, or another technical/scientific discipline
Understanding the concept of On-Premise vs. Cloud Computing
Familiarity with some of the following: common bioinformatics software and methods; cloud technology and cloud engineering; data engineering; data management; server installation or maintenance; agile methodology; systems administration
Posted on September 03, 2018
Postdoc - developing and applying methods for analysing GWAS data
Aarhus University is recruiting a 2-year postdoc in statistical genetics based at the Bioinformatics Research Centre (BiRC). The provisional starting date is 1st November 2018.
The postdoc will be jointly supervised by Drs Doug Speed, Manuel Matthiesen and Søren Dinesen Østergaard. There are two broad aims, however the specific projects will be decided according to the interests and experience of the successful applicant.
1 – Application of recently developed methods to genome-wide association study (GWAS) data.
2 – Development of new methods for analysing GWAS data.
A PhD degree and strong expertise in statistical genetics is essential. The position will involve analysis of large-scale genetic datasets, so the ideal candidate would be familiar with popular genetic software (e.g, PLINK) and at least one coding languages (e.g. R).
All applications must be made online and received by 5.10.2018
Postdoctoral Fellow in Bioinformatics
The EBI is part of the European Molecular Biology Laboratory (EMBL) and it is a world-leading bioinformatics centre providing biological data to the scientific community with expertise in data storage, analysis and representation. EMBL-EBI provides freely available data from life science experiments, performs basic research in computational biology and offers an extensive user training programme, supporting researchers in academic and industry.
The Mouse Genomes Project has become an essential resource for the wider mouse genetics community. We are seeking an outstanding postdoctoral researcher to contribute to the generation, comparative analysis, and interpretation of the genome and transcript sequencing data. You will engage in both internal and external (national and international) collaborations and will have the opportunity to gain expertise in genome sequencing technologies and comparative genomics.
Essential skills and experience include:
- PhD in either Computer Science or Bioinformatics
- Demonstrable record in bioinformatics
- Highly developed unix command line skills
- Proficiency in at least one modern computer programming language
- Ability to plan and work independently
- Excellent communication skills (written and verbal)
Closing Date: 9 September 2018
Posted on August 31, 2018
A Genomics Fellowship is available at Boston Children’s Hospital. The Fellowship is a one-year program that allows for the development of professional career skills, on-going technical and workplace learning and an opportunity to apply subject matter expertise to new genomics and health technologies, scholarship, creative writing, etc.
Reporting to the Bioinformatics and Genomics Lead, embedded within a technical department, fellowships are full time paid appointments with health benefits. The fellowship will start in September or October and include paid holidays and vacation days.
In the role, the Fellow will be working closely with researchers and primary investigators in genomics laboratories across Boston Children’s Hospital. The Fellow will participate in the development and implementation of a program to sequence Boston Children’s Hospital patients over the next year. The Fellow will engage with the research community and contribute to patient diagnoses through Boston Children’s Hospital’s centralized genomics repository that enables the real-time analysis, storage and management of genomic data. The Fellow will be involved with project management and implementation, coordination and connecting the genomics repository with other internal and external databases and dashboards (coding). The fellow may also be involved in the organization of workshops.
Knowledge, Skills, and Abilities:
Degree in Computer Science, Computational Biology or a related field or very strong coding ability
Knowledge of or very strong interest in genomics preferred
Ability to think flexibly and engage in creative problem-solving
Ability to work collaboratively with a team of diverse colleagues
Excellent oral and written communication skills
Previous experience working on time-sensitive coding projects
Please contact email@example.com for more information.
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.
Position number: 01999-R
Please include a letter of interest outlining your research accomplishments and include the contact information of three references. Applications can be sent directly to JGillis@cshl.edu.
Posted on August 29, 2018
Research Fellow: Statistical Genetics/ Bioinformatics/ Computational Biology
To learn to conduct independent research and support the independent research of others in a Medical Center dedicated to the care of infants, children, and adolescents. We are looking a candidate with PhD in bioinformatics, computational biology or statistical genetics, who will be involved in the analysis of cutting-edge high-throughput omics (genomics, transcriptomics, epigenomics, microbiome) and clinical data generated from allergic disease patients.
Key Functions include:
• Integration omics results including genome, transcriptome, microbiome, and epigenome results with clinical and environmental exposure datasets.
• Participate in development and testing statistical methods for omics and clinical datasets
·Ph.D. in bioinformatics, computational biology or statistical genetics or a related discipline A strong background in genomics, computational biology, and/or statistics as well as experience in high-throughput integrative analyses of different types of NGS data, extensive scripting and programming knowledge, data visualization is required.
The ideal candidate will have: an interdisciplinary background in bioinformatics and computational biology and genomics; advanced expertise in the analysis and interpretation of microbiome data and its integration with other "omics" data sources, including genetic variants, gene expression and epigenetics; good programming skills; and advanced knowledge of statistical and machine learning methods.
Requisition #: 96081
Sanford Burnham Prebys Medical Discovery Institute (SBP) is an independent nonprofit research organization that blends cutting-edge fundamental research with robust drug discovery to address unmet clinical needs in the areas of cancer, neuroscience, immunity, and metabolic disorders. The Institute invests in talent, technology, and partnerships to accelerate the translation of laboratory discoveries that will have the greatest impact on patients.
The Bioinformatics Specialist will join the Adams Lab as part of the Tumor Initiation and Maintenance Program in the NCI-Designated Cancer Center, to support a team of scientists investigating the impact of chromatin and epigenetics on cellular senescence, aging and cancer. Adams’ lab employs state-of-the-art epigenetics approaches, such as ChIP-seq, RNA-seq, GRO-seq, ATAC-seq, HiC, bisulfite-seq, to understand how age-associated epigenetic changes promote cancer, and also to develop novel epigenetics-based therapies for cancer. Increasingly, the lab is adopting single cell approaches, such as single cell RNA-seq and THS-seq.
Education and/or Experience:
- Bachelor’s Degree and five years’ experience required; Master’s degree and three years’ experience or Ph.D. preferred, or an equivalent combination of education, training and/or experience from which comparable knowledge, skills and abilities have been attained
- Degree in Computer Science, Bioinformatics, Biostatistics, or Life Sciences or equivalent preferred
- Experience with Illumina NGS data analysis
- Experience in molecular biology, biochemistry, or general familiarity with wetlab assays desired
Other Requirements and/or Specifications:
- Excellent bioinformatics and programming skills (e.g. Perl, Python, C/C++, Java, R or Web applications)
- Strong command of Linux/UNIX operating system
- Strong knowledge and skills in bioinformatics, statistics and next-generation sequencing data analysis
- Ability to use current bioinformatics tools and have an in-depth knowledge of advanced sequencing and array-based technologies
Posted on August 27, 2018
Bioinformatics Analyst - Institute for Genomic Medicine
The Bioinformatics Analyst at The Institute for Genomic Medicine at Nationwide Children’s Hospital will contribute to our expanding efforts in cutting-edge genomics research. You will have the opportunity to assist in all aspects of next-generation sequencing analysis including data generation, analysis, and interpretation. We are looking for a candidate with strong data processing abilities who enjoys solving complex problems and has a desire to make an impact in medical care through advancing our understanding of the role of the human genome in disease. Previous experience in bioinformatics or computational biological background is preferred.
- Performing genomic data analysis in support of our Genomic Services group, focusing on sequence analysis of viruses, plasmids and bacteria.
- Performing genomic data analysis as part of our research efforts in the areas of cancer, genetic and infectious disease.
- Participate in the validation and deployment of in-house bioinformatics tools.
- Assist with software development of new bioinformatics tools and process automation pipelines.
- Evaluating and integrating community-developed bioinformatics tools.
- Work with biologists and bioinformatics scientists to extract biological information from next-generation sequencing data.
- Bachelors degree in biology, molecular genetics, bioinformatics or related field. M.S degree in Bioinformatics, Computational Biology, Biostatistics or a related discipline a plus.
- Interest in genomics and bioinformatics, and willingness to learn concepts and terminology from these fields as needed.
- Previous experience with next-generation sequencing analysis data analysis is desirable.
- Experience in a Linux/Unix environment and familiarity with scripting and process automation (Python/Perl, shell) a plus.
- Knowledge of web development technologies is beneficial (HTML, CSS, JS, JQuery, J2EE).
Requisition ID 2018-13013
A research lab in the Division of Biomedical Informatics Research at Stanford School of Medicine is seeking highly motivated individuals for multi-disciplinary research in computational health services research/public health informatics. The projects will utilize electronic health records (EHRs) to assess the quality of healthcare delivered and provide evidence that can be used to improve patient care using state-of-the-art technologies across one or more health care settings.
- Design study.
- Develop and implement protocol for quality control.
- Create analytic files with detailed documentation.
- Select appropriate statistical tools for addressing a given research question.
- Implement data analysis through statistical programming.
- Present results for investigators using graphs and tables.
- Summarize findings orally and in written form.
- Participate in the preparation of papers for publication.
- PhD in biomedical informatics, computer science, biostatistics or health services research.
- Strong background in machine learning, biostatistics and bioinformatics.
- Experience with large datasets and database use.
- Experience with analysis of electronic medical data.
- Manipulation and analyses of complex high-dimensional data.
Posted on August 24, 2018
Research Associate in Bioinformatics
McLean Hospital is a comprehensive psychiatric hospital committed to providing easy access to superior quality, cost-effective mental health services in the Boston area, Massachusetts and beyond. Since 1811, McLean Hospital has been a world leader in the treatment of mental illness and chemical dependency, research into the cause of mental illness and the training of generations of mental health care providers. McLean's multidisciplinary programs treat a broad range of psychiatric illnesses across the full continuum of care.
- Master degree in biostatistics and/or bioinformatics, or other discipline requiring intense data analysis required.
- Must have at least two years of directly related experience, and have demonstrated competence in research techniques and methodologies.
- Requires good oral and written communication skills. Must able to present summary of statistical results and communicate to non-statisticians
- Team player with excellent communication, analytical, and problem-solving skills
- Demonstrated ability to successfully apply appropriate statistical methodology to analyze data and to logically present it
- Experienced in preparation of analytical datasets, generate new variables, make analysis data sets, summarize data numerically and graphically
- Experienced in longitudinal data analysis with missing value, survival analysis, categorical data analysis, neuroimaging data analysis, complex survey and clinical psychometrics data analysis
Primary Location: MA-Belmont-McLean Hospital Main Campus
Job code: 3069679
Organization: McLean Hospital(MCL)
Cedars Sinai’s Biomedical Sciences is looking for a Research Bioinformatician to join the Genomics Core. Under close supervision, the Research Bioinformatician I perform general bioinformatics analysis and software support for genomics projects. The RBI will manage genomic data including loading and querying data from database system and public repositories and transform and merge multi-level genomic data into user friendly formats, assists in development, test, and maintenance of modular software pipelines, provide daily bioinformatics data analysis, preliminary interpretation of the data, and reports of the results for possible publications.
• Master’s degree in Biostatistics, Statistics, Bioinformatics, Genetics or related field of molecular biology. PhD preferred.
• Must have proven expertise in biostatistics, large-scale computing, biological data and bioinformatics.
• 0-3 years’ experience directly related to bioinformatics in genomics (i.e. genomics, transcriptomics, epigenomic, resequencing analysis, etc.). Must have experience in managing the development and deployment of systems that will be used for full integrated genomic analysis.
• Must have expertise in correlating molecular and clinical measures, and in applying algorithms for clustering and classifying samples by molecular measures.
• Must have R, Bioconductor, Perl, Python, Unix/Linux, SGE Programming knowledge.
Posted on August 22, 2018
Three Postdoctoral Fellow in Bioinformatics
At the Faculty of Medicine, Department of Clinical Medicine, a full-time (100%) position as Postdoctoral Fellow is available for a period of three (3) years. The position is part of the project “Brain-Gut Microbiota Interaction in Irritable Bowel Syndrome: A multidimentional Appraoch” (http://braingut.no), financed by the Norwegian Research Council, the FRIPRO program. The position is anchored at The Norwegian National Center for Functional Gastrointestinal Disorders, Medical Department (www.helse-bergen.no/NKFM) and the newly established Mohn Medical Imaging and Visualization Center (https://mmiv.no), Department of Radiology, both situated at Haukeland University Hospital.
To successfully incorporate machine learning in medicine, the candidate will develop, implement, disseminate and evaluate machine learning techniques in the analysis of medical images and image-related data. The project aims to contribute to increased degree of personalized medicine and better decision support for diagnosis, prognosis and therapy in diseases and conditions where images are an important source of information.
Qualifications and qualities
We seek highly motivated individuals with experience applying machine learning to medical images.
- the applicant must hold a PhD or equivalent doctoral degree in medical/biomedical sciences or natural sciences on topics related to statistics, machine learning, computational medicine, bioinformatics or similar
- very good programming skills are a requirement. You are encouraged to include a link to your GitHub profile or similar documentation of programming competence in your application
- researchers who have experience in both machine learning and medical image analysis (with experience using for example scikit-learn, TensorFlow, PyTorch, Keras, scikit-image, R, MATLAB, ITK-SNAP, Nilearn, FreeSurfer) are particularly welcome to apply for this position
Deadline Saturday, September 15, 2018
Bioinformatician (Single Cell Analysis)
Earlham Institute is a vibrant, contemporary research institute and registered charity, working in an area of rapid technological development and innovation. Earlham Institute is strategically funded by the BBSRC to lead the development of a skill base in bioinformatics and a genomics technology platform for UK bioscience. The Institute is located on the Norwich Research Park, together with its partners: the John Innes Centre, the Institute of Food Research, The Sainsbury Laboratory, the University of East Anglia and the Norfolk and Norwich University Hospital.
PhD in bioinformatics, computational biology or related subject with experience of working on genomics and transcriptomics data and bioinformatics, Demonstrated skills in at least one of the following programming languages: Python (preferable), Java, C++, R ,Transcriptomics, genomics or epigenomics analysis skills etc
Closing Date 16 Sep 2018
Posted on August 20, 2018
Postdoctoral Researcher in Computational Biology
The Institute of Structural and Molecular Biology (ISMB) at Birkbeck College/University College London is seeking a highly-motivated and creative Post-Doctoral Researcher to carry out computational research in protein-interaction networks and mass spectrometry-based proteomics. The position is a part of a collaborative project with groups at Birkbeck, UCL, Oxford and Hamburg funded by the Wellcome Trust to analyse and characterize novel complexes associated with Human Cytomegalovirus (HCMV) assembly.
The Post-Doctoral Researcher should have a strong track record in developing computational methods in network analysis, proteomics, bioinformatics or similar fields. Knowledge in protein-protein interactions, database development and raw mass spectrometry data analysis will be an advantage.
Closing Date for applications: Midnight on 16th September 2018
Systems Scientist, Computational Biology
Computational biology is a critically important and growing field that is critical to biomedical research. The Computational Biology Department at Carnegie Mellon is part of the internationally-recognized School of Computer Science, and draws upon the incredible energy and expertise in the entire School. It is an ideal place to be educated in this essential discipline.
We are seeking a dynamic Systems Scientist to play a leading role in an NIH-funded effort to build a 3D molecular and anatomical map of the human body.
In this role, you will:
- Work as the lead software and computational tool developer for the CMU-based team.
- Develop and adapt software tools for the analysis of high-throughput imaging and genomics data and apply them to new data collected as part of the project.
- In concert with the PI for this project, lead several programmers at CMU and at other locations
- Work with collaborating centers to establish data formats, APIs and schemas for the software developed, and help figure out procedures for data analysis and quality control.
Qualifications: A Ph.D. in computational biology, bioinformatics, computer science or a related area 5 years’ experience in the development of software tools for the analysis of high-throughput genomics and / or imaging data (could be as part of a Ph.D. and / or postdoc) Knowledge and experience in using cloud-based infrastructure for analyzing biological data Experience in supervising software development.
Posted on August 17, 2018
Post Doc Fellow: Single Cell Functional Genomics in Diabetes
A postdoctoral fellow (postdoc) position is open in the translational research lab of Dr. Amanda Ackermann (https://www.med.upenn.edu/ackermannlab/). Our group studies beta cell dysfunction in diabetes and congenital hyperinsulinism, with the goal of identifying novel therapeutic targets. We use a variety of approaches, including genetic and epigenetic manipulation, genomic analyses, and physiological testing of primary human tissue, mouse models, and cell lines.
The postdoctoral fellow (postdoc), under the direction/guidance of Dr. Ackermann, will help lead a specific, on-going research project performing functional genomic analyses on primary human beta cells from patients with and without diabetes, utilizing single-cell imaging and RNA-sequencing techniques. The postdoc must have a terminal degree (PhD) in a relevant field and at least one first-author manuscript published or submitted. Prior experience, or a strong interest, in bioinformatics is desired.
Preferred Education, Experience & Cert/Lic
- PhD in relevant field, such as biology, genetics, computational science
- First-author manuscript published or submitted
- Strong research skills
- Effective problem solving/critical thinking skills
- Ability to work independently and with a strong work ethic
- High level of motivation
- Excellent communication/interpersonal skills
Req ID: 20383
Genome Bioinformatics Intern
Monsanto is seeking a highly talented graduate student to join the Global Biotechnology organization in genomics and bioinformatics for a summer internship. This role is in Chesterfield, Missouri, which is one of the largest R&D centers of biotechnology in the world. This is an excellent opportunity to learn and apply genomics and bioinformatics techniques in an industry environment and to develop leads for a Ph.D. or postdoc project.
Analysis of gene annotation and expression in crop genomes
Comparative analysis of crop genomes
Development of tools to make genomic data accessible to other scientists
Computational work within the AWS cloud environment
Pursing a graduate degree in Bioinformatics, Computational Biology, Biostatistics, computer science or related program
Proficiency in one or more scripting languages (R, Python or Perl)
Experience analyzing sequencing data sets
Excellent communication skills
Must be returning to continue or complete program of study following the summer internship
Familiarity with Linux shell scripting in a cloud environment
Pursing a Ph.D. in Bioinformatics, Computational Biology, Biostatistics, computer science or related program
Domain knowledge in multiple sciences (e.g. bioinformatics, genomics, computer science)
Posted on August 15, 2018
Postdoctoral Researcher in Human Genetics and Single Cell Epigenomics
The laboratory of Dr. Kyle Gaulton at the University of California San Diego is looking for qualified postdoctoral researchers interesting in studying genetic and epigenomic factors that affect type 1 and 2 diabetes and other complex disease risk using large-scale human genetic and single cell epigenomic data. Our lab is located on the School of Medicine campus at UCSD in La Jolla CA.
The candidate will play a leading role in NIH-funded research projects involving local collaborators with a diverse range of expertise in diabetes biology, genetics, epigenomics and cellular modeling. These projects include deriving gene regulatory programs in diabetes-relevant tissues in normal and disease conditions from single cell ATAC-seq, integrative analyses of single cell ATAC-seq and RNA-seq with other epigenomic data including chromatin conformation and high-throughput reporter assays, mapping genetic effects on chromatin and gene expression from single cell data, and developing novel tools and methods for relating disease variation to single cell regulatory profiles.
Candidates should have a PhD/DPhil in genetics, biological sciences, computer science, bioinformatics, mathematics, statistics, or a related field, and ideally have prior experience working with human genetic and single cell data.
Interested individuals should email a CV, description of research interests, list of publications, and names of multiple references to firstname.lastname@example.org
Postdoctoral Fellow in Computational Biology
A postdoctoral intramural research training award (IRTA) position is available in the Structural Bioinformatics Core Section (SBIS), part of a multidisciplinary research environment at the Vaccine Research Center, in the areas of computational biology and structural bioinformatics.
The main objective of the SBIS is to assist in designing vaccines and antibody therapeutics against HIV and other viruses such as influenza and respiratory syncytial viruses. The selected candidates will collaborate extensively with experimental sections to develop new methods for computational vaccine and antibody design. The candidate should have knowledge in bioinformatics, computational chemistry, and proficiency in C or C++ and in Python or Perl. In addition, he or she should have prior experience in at least four of the following computation areas:
- Computational protein design
- Molecular dynamics simulation of glycoproteins
- Homology modeling
- Protein docking
- Machine learning/data mining
Successful applicants should be highly self-motivated and have a recent doctoral degree (obtained within last five years) in bioinformatics, computational chemistry, or a closely related field from a U.S. or foreign university. Applicants may be U.S. citizens or permanent residents; for a visiting fellowship, visa requirements apply.
Send curriculum vitae and three letters of reference by October 31, 2018
Posted on August 13, 2018
Postdoctoral Research Fellow - Genomics and Bioinformatics
Cancer is a complex, resilient disease. Cancer is also a genomic disease, and the key to understanding and defeating it is understanding the diverse genomic patterns that drive cancer. The first generation of cancer genomics delivered ‘things’ – mutations, amplifications, fusions, expression profiles etc. We’re looking for an ambitious postdoc to help us understand the next generation of cancer genomics – the patterns of genomic changes that will reveal the molecular strategies used by tumors, and reveal new therapeutic possibilities.
The primary goal of postdocs is scientific discovery and publication (see http://www.gene.com/careers/academic-programs/postdocs), and the program is geared towards developing future independent investigators. The Department of Bioinformatics and Computational Biology at Genentech is one of the largest bioinformatics research groups with a remarkable breadth and depth of expertise, a strong team environment, deep links to our research colleagues, and a uniquely strong opportunity to help develop breakthrough new medicines.
Candidates for this position should have:
- A PhD plus a strong background in bioinformatics and genomics and a broad understanding of cancer and cancer genomics. Knowledge of cell biology, protein structure, biochemistry or signaling a plus.
- Robust mathematical and statistical skills, and a track record of applying them to complex and noisy biological data. Experience in computational modeling and machine learning a strong plus.
- Proficiency in R programming and experience in standard bioinformatics toolkits and programs.
Postdoctoral Fellow: Bioinformatics & Computational Genomics
The Pinto Lab at the Icahn School of Medicine at Mount Sinai is seeking talented and highly motivated computational genomics scientists to undertake a NIH-funded research project in the field of genetics and genomics of Autism and Epilepsy, including SNV/indel/CNV discovery from exome/whole-genome sequencing data in families, profiling of noncoding regulatory RNA, and integration with short and long-read RNA sequencing data. Candidates with a quantitative background and demonstrated experience with genomic data analysis are encouraged to apply.
The successful applicant will have opportunities to collaborate with a diverse group of experimental and computational biologists within the Psychiatric Genomics Division, the Institute for Genomics and Multiscale Biology and the Seaver Autism Center. S/he will also play an active role in using the latest technologies to disentangle the genetic basis of neurodevelomental disorders and their comorbidities.
High degree of independence, fast-learner, highly motivated, enthusiastic and with a strong work ethic.
- Ph.D. or equivalent doctorate in a quantitative field such as statistical genetics, genome informatics, bioinformatics, or computational biology.
- Excellent bioinformatic and programming skills (e.g. Perl, Python or C/C++), and statistical computing (e.g. R).
- Track record of scientific productivity and/or leadership.
- Research background in genomics is required.
Posted on August 10, 2018
Genomics Sequencing : Postdoc Fellow
Reporting to the Genomics Core Facility Director and Director at the Waksman Institute, this position is responsible for analyzing high thorough-put sequencing data on next generation genome sequencers. The analysis entails assessing the quality of the data, processing of the data through appropriate analysis pipelines, determining the quality of the analysis and whether further analysis should be done, and assembling results for researchers.
Minimum Education and Experience:
• Ph.D. in Bioinformatics, Statistics genetics, Computer science and/or population genetics
• Experience in genomics analysis, next generation sequencing, and pipeline/database development
• Proficiency in Unix/Linux environment, and with at least one programming language (Python, R, Perl, Java, C/C++ etc.)
• Excellent knowledge and experience with large scale biological data analyses especially high-throughput sequencing data
• Background in statistics and/or machine learning preferred
Posting Close Date 09/15/2018
Bioinformatics Postdoc in Cancer Immunology
We are looking to expand our team with a Bioinformatics Postdoctoral fellow who is up for the challenge of working at the interface of computational, experimental and clinical science. The Peters lab has a long-standing track record of developing and contributing to computational algorithms for T cell epitope identification that are now in broad use in the cancer community even though they were originally intended to be applied for infectious diseases.
– High-Throughput Sequencing data analysis (exome and transcriptome from bulk and single-cell sequencing)
– TCR sequence analysis
– application and development of state-of-the-art analysis tools
– communicate with clinical collaborators and aid in translational study design
– PhD degree, ideally in Computational Biology or Bioinformatics (candidates with equivalent skills and interests in computer science, statistics, and biomedicine will be considered)
– experience with at least one programming language is required (e.g. Python, R, or Perl)
– experience with High-Throughput Sequencing data
– experience with TCR sequence analysis is a strong plus
– knowledge of or strong interest in cancer biology and immunology is a strong plus
Posted on August 08, 2018
Postdoc Positions in Computational Epigenetics and Non-Coding RNA Analysis
Applications are invited for two Post-Doctoral Research Fellows to study the role of long non-coding RNAs in the regulation of DNA demethylation in embryonic stem cells in the research group of Professor Christof Niehrs.
• Analysis of RNA-seq, ChIP-seq, DNA methylome datasets using own and in-house provided pipelines
• Computational Analysis of non-coding RNA structure
• Integrate quantitative data from multiple omics sources
• Perform personalized post-quantitation analysis (e.g. GSEA, comparison to published datasets)
• Support lab members with your bioinformatics skills
• PhD in Bioinformatics, Computational Biology, Natural Sciences or related areas
• Sound experience in R scripting or Python
• Familiarity with large scale data analysis (RNA-seq, ChIP-seq and related)
• Excellent communication skills and good team spirit with the ability to solve problems independently
• Fluent in English (spoken and written)
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).
- 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
Posted on August 06, 2018
Bioinformatics Postdoctoral Positions in Algorithms, Cancer Genomics and CRISPR
Computational biology postdoc positions are available in the laboratory of Dr. Wei Li, Center for Genetic Medicine Research, Children’s National Medical Center, and Department of Genomics and Precision Medicine, George Washington School of Medicine and Health Sciences at Washington, DC.
We are devoted to developing cutting-edge computational methods for biology and medicine, with a focus on understanding how coding and non-coding elements function in cancer and childhood diseases. In the past we have developed innovative bioinformatics algorithms to 1) design, analyze and visualize genome-wide CRISPR/Cas9 knockout screening data (e.g., MAGeCK/MAGeCK-VISPR), 2) identify genes responsible for cancer drug resistance and synthetic lethal targets and 3) understand how non-coding elements, especially long non-coding RNAs and enhancers, play roles in cancer.
Responsibility and Requirements:
-PhD degree in Bioinformatics/Genetics/Computer Science/Statistics or other quantitative science;
-Solid programming skills, strong publication record and the ability to work independently;
-Experienced in cancer genomics data analysis and computational methodology development;
-Ability to communicate and collaborate with other team members;
-Additional expertise in cancer biology, machine learning, single-cell genomics and childhood diseases would be a plus.
Candidates should submit a CV, a cover letter of research background and future research goals, and the contact information of three references letters by email to Wei Li.
SCIENTIFIC COMPUTING SYSTEMS ADMINISTRATOR (bioinformatics)
We are seeking a Linux systems administrator who will be responsible for the management of a scientific computing facility (/technology-services/high-performance-computing/) that includes a 240 core cluster, several servers, workstations, 500 Tb raw disk storage and backup facilities, to provide support to research groups of the IGTP. Besides fulfilling the systems administrator duties listed below, the successful candidate will be expected to propose and implement improvements in the design of the system when necessary.
The Institute for Health Science Research Germans Trias i Pujol (IGTP) is a public research centre located at the Can Ruti Biomedical Campus, Badalona, near Barcelona. The IGTP is dedicated to increasing scientific knowledge and transferring it to improve the care and lives of patients.
The candidate should have a Computer Science/Informatics/Bioinformatics degree/equivalent with/or a demonstrated track record in:
- Configuration and administration of Linux computer clusters
- Knowledge of scripting languages (bash, python, perl, ruby)
- Experience in automating OS installation
- Experience with configuration management tools (puppet, ansible)
- Strong diagnostic and analytical skills
- Basic understanding of IT security principles and best practices
Closing date: 1st of September 2018
Posted on August 03, 2018
Postdoctoral Associate: Computational Biology
Dr. Mohammadi’s lab is looking for computational postdocs to join ongoing efforts in systems genetics and precision medicine projects. Possible projects include, but are not limited to, modeling variation in non-coding genome, identifying regulatory variations that contribute to disease, and combining genetic data with health monitoring sensor data.
Our research is at the interface of Bioinformatics, Statistics, and Computer Science. We develop mathematical frameworks and statistical models to address computational challenges of analyzing variation in genome and its effect on human health. We are participating in basic research, as part of large functional genomics consortia such as the GTEx, and are collaborating closely with medical doctors in clinic to ensure a translational impact.
Must possess a doctoral degree. A pending doctoral degree may be considered with approval of the Principal Investigator. The position involves developing analysis pipelines for large genomic and biomedical datasets that are theoretically solid and biologically justified. Therefore, candidates holding a PhD in a theoretical field (e.g. Statistics, Computer Science, etc.) with a keen interest in genetics and biomedical research, or those with PhD/MD in biomedical sciences with substantial experience in scientific programming are encouraged to apply for the position. Lastly, experience in analyzing genomic data, NGS data, or probabilistic machine learning is a plus.
Postdoc Fellow in Bioinformatics
Reporting to the Genomics Core Facility Director and Director at the Waksman Institute, this position is responsible for analyzing high thorough-put sequencing data on next generation genome sequencers. The analysis entails assessing the quality of the data, processing of the data through appropriate analysis pipelines, determining the quality of the analysis and whether further analysis should be done, and assembling results for researchers.
Minimum Education and Experience:
• Ph.D. in Bioinformatics, Statistics genetics, Computer science and/or population genetics
• Experience in genomics analysis, next generation sequencing, and pipeline/database development
• Proficiency in Unix/Linux environment, and with at least one programming language (Python, R, Perl, Java, C/C++ etc.)
• Excellent knowledge and experience with large scale biological data analyses especially high-throughput sequencing data
• Background in statistics and/or machine learning preferred
Required Knowledge, Skills, and Abilities:
Able to perform:
1) to run analysis pipelines for NGS (next generation sequencing) data to support the Waksman Genomics Core activities
(2) help researchers in bioinformatics processing and analysis of NGS data using the appropriate genomics tools
(3) Development of innovative methods and/or novel applications of existing methods
(4) Implementation of newly developed pipelines adopted by others in the field
(5) Provide bioinformatics expertise in the planning and implementation of research concepts
Posted on August 01, 2018