Jobs

Jobs in Bioinformatics, Genomics and Life Science


Update on March 01, 2024


Postdocs and Research Scientists in Bioinformatics and Multi-Omics

Postdoctoral and Associate Research Scientist Positions in Etienne Caron Lab at Department of Immunobiology, Yale School of Medicine. The Caron Lab seeks exceptional Postdoctoral and Associate Research Scientist candidates with a passion for innovation in immunotherapy and cancer vaccine research using computational proteogenomics and immunopeptidomics approaches.

The overarching goal of the Caron Lab is to develop and apply mass spectrometry-based immunopeptidomics and systems immunology approaches to understand the generation, composition and dynamics of both the self and nonself immunopeptidome, as well as its interaction with T cells, with the goal of innovating treatments and preventive strategies for a broad range of immune-related diseases.

Responsabilities:

  1. Develop and apply computational pipelines and innovative bioinformatics approaches for the discovery of novel tumor-specific antigens, PTMs, and both canonical and non-canonical actionable T cell epitopes from large immunopeptidomics datasets,
  2. Collaborate with other researchers (academic and industry).
  3. Train other lab members,
  4. Publish high impact factor publications,
  5. Present in conferences, locally, nationally and internationally,
  6. Actively contribute to the lab's activities, including preparation of manuscripts and research grants.

Qualifications:

  1. Ph.D. in systems immunology, bioinformatics or related field,
  2. Demonstrated expertise in the integration and analysis of large multi-omics datasets (WGS, RNAseq, ribo-seq, proteomics, immunopeptidomics),
  3. Knowledge in T cell biology and neoantigen prediction using epitope prediction algorithms,
  4. Demonstrated expertise in the development of computational pipelines and databases,
  5. Strong publication track record (at least one first author paper in a high impact factor journal)
  6. Strong communication skills in English (spoken and written),
  7. Demonstrated excellence in time management and teamwork.

Closing date 29 Apr 2024

If interested, please send your CV and motivation letter to etienne.caron@yale.edu.

For details click here


Postdoctoral Associate- Single- Cell and Data Science

Division:  Duncan Cancer Center
Schedule:  Monday - Friday; 8:00 a.m. to 5:00 p.m.
Work Location:  Houston, TX
Salary Range:  Per NIH Guidelines
FLSA Status:  Exempt
Requisition ID:  18519

Summary

The position is intended for Computer Science, Computational Biology, or life science graduates transitioning to a data science and bioinformatics career.  The successful candidate will receive training in analyses of single-cell and bulk-tissue multi-omics data and be expected to participate in multiple projects involving design, implementation and integration of large-scale datasets and data processing pipelines.

Job Duties

  • Analyzes single cell RNA-Sequencing, single cell ATAC-Seq, CITE-Seq, as well as bulk RNA-Seq, Proteomics, Metabolomics, and Lipidomics datasets, generated from brains of HIV patient cohorts with rich clinical data.
  • Conducts advanced modeling of cognitive ability scores using approaches that include generalized linear models and deep learning.

Minimum Qualifications

  • MD or Ph.D. in Basic Science, Health Science, or a related field.
  • No experience required.

Preferred Qualifications

  • Experience in epigenetics or gene regulation is a plus, and experience with statistical analysis tools such as R or Python is recommended (successful candidates will be expected to pass a basic programming test in Python).
  • Candidates must have a  Ph.D. in Computer Science, Bioinformatics, or biology, as well as a strong background in statistics, and familiarity with large data sets such as proteomics or sequencing.
  • Must be highly proficient in spreadsheets and generating reports.
  • Excellent communication skills is a plus.

Apply here


Posted on Feb, 29, 2024

Postdoctoral Research Associate - Computational Mass Spectrometry

The Skinnider Lab of the Ludwig Princeton Branch at Princeton University aims to recruit one to two postdoctoral associates or more senior research positions to work on projects related to computational analysis of and machine-learning approaches to mass spectrometry-based metabolomics and/or proteomics data. Positions are available starting March 2024, and will remain open until excellent fits are found.

Successful candidates will develop and apply computational approaches for mass spectrometry data, with artificial intelligence/machine learning (AI/ML) being a major focus. They will have an opportunity to lead and contribute to a range of exciting projects: for example, developing machine-learning approaches for the identification of known and unknown metabolites in MS/MS data; meta-analysis of mass spectrometry-based metabolomics from human disease; novel approaches to proteomic data analysis; or curation and development of new data resources. Opportunities are also available to support the development of an independent research agenda that is congruent with the interests and goals of the laboratory.

The scope of the work builds on recent publications from the laboratory, e.g. integrating language models with mass spectrometry data (https://www.nature.com/articles/s42256-021-00407-x, https://www.nature.com/articles/s42256-021-00368-1) developing bio- and cheminformatic tools to discover bacterial natural products (https://www.nature.com/articles/s41467-020-19986-1, https://www.nature.com/articles/nchembio.2018), or executing repository-scale meta-analyses of mass spectrometric datasets (https://www.nature.com/articles/s41592-021-01194-4).

Apply here


Postdoc in bioinformatics and cancer genomics

The Department of Clinical Medicine at Faculty of Health at Aarhus University invites applications for a position as Postdoc in the field of bioinformatics and cancer genomics as per June 1st, 2024, or as soon as possible thereafter. The position is a 3-year full-time position.

Department of Clinical Medicine

As a postdoc at the Department of Clinical Medicine, you will be part of what is probably the largest health science research department in Denmark. Our clinical research covers all the medical specialities and takes place in close collaboration with the university hospital and the regional hospitals in the Central Denmark Region. We have approx. 30,000 square meters of modern research facilities for experimental surgery and medicine, animal facilities and also advanced scanners at our disposal. The department has overall responsibility for the master’s degree programs in medicine and in molecular medicine. At the department we are approx. 670 academic employees, 500 PhD students and 160 technical/administrative employees who are cooperating across disciplines. As a postdoc, you will be working at Aarhus University Hospital or another hospital in the Central Denmark Region. You can read more about the department here and about the faculty here.

Your job responsibilities

As Postdoc in bioinformatics ad cancer genomics your position is primarily research-based but may also involve teaching assignments. You will contribute to the development of the department through research of high international quality. In your daily work, you will work closely with colleagues on your project, where you will receive supervision and guidance.
Your main tasks will consist of:

  • Independent research of high international quality, including publication.
  • Performing research using bioinformatic tools and supercomputer facilities
  • Obtaining, handling, and analyzing sequencing data including single cell- and spatial transcriptomics
  • Maintaining a high degree of technical expertise and biological insights based on published literature
  • Interaction with other team members to help facilitate bioinformatic procedures
  • Interaction with various collaborators, local, national, and international
  • The position may also include co-supervision of PhD, MSc, MD and/or BSc students.
  • The position may also include grant writing or assistance with grant writing.

Deadline: Sunday 24 Mar 2024 at 23:59 CET

Apply here


Posted on February 24, 2024

Postdoctoral Associate Computational Biomedicine

The Boston University Section of Preventive Medicine and Epidemiology is seeking postdoctoral candidates for its T32 Training Program in Cardiovascular Epidemiology awarded by the National Heart, Lung, and Blood Institute. Scholars will focus their training on the epidemiology of cardiovascular disease such as coronary heart disease, stroke, heart failure, and other forms of vascular disease, following one of the training pathways: statistical genetics and genomics, computational biology and bioinformatics, or clinical epidemiology.  Please visit https://www.bumc.bu.edu/preventive-med/education/t32-multidisciplinary-training-program-in-cardiovascular-epidemiology/ for additional program information.

The successful candidate will participate in training activities including pathway-specific coursework and workshops, as well as individual professional development workshops, one-on-one professional counseling and career planning, grant writing workshops, research seminars, journal internships, and working on research projects with a Boston University senior investigator on longitudinal epidemiological studies such as the Framingham Heart Study, Long Life Family Study, Risk Underlying Rural Areas Longitudinal study, and other cohort studies. All trainees will be supervised by their assigned faculty mentor as well as by the program’s co-directors for progress evaluation.

This position is a postdoctoral training opportunity which provides a bi-monthly stipend. The successful individual will be engaged in a 2-year period of mentored advanced training and professional development following completion of a doctoral degree program. Boston University provides benefits for employee postdocs (Postdoctoral Associate NRSA). Please visit the Professional Development & Postdoctoral Affairs website https://www.bu.edu/pdpa/postdocs/postdoc-101/benefits-for-non-employee-postdocs/ for details.

Required Qualifications:

  1. US Citizen or green card holder
  2. D. degree in Biostatistics, Epidemiology, Computational Biology, Bioinformatics, Genetics/Genomics or related field or M.D. degree

Programming skills (SAS and/or R) preferred

Earliest Training Program Start Date: April 1, 2024

Apply here


Postdoctoral Associate- Single- Cell and Data Science

Division:  Duncan Cancer Center
Schedule:  Monday - Friday; 8:00 a.m. to 5:00 p.m.
Work Location:  Houston, TX
Salary Range:  Per NIH Guidelines
FLSA Status:  Exempt
Requisition ID:  18519

Summary

The position is intended for Computer Science, Computational Biology, or life science graduates transitioning to a data science and bioinformatics career.  The successful candidate will receive training in analyses of single-cell and bulk-tissue multi-omics data and be expected to participate in multiple projects involving design, implementation and integration of large-scale datasets and data processing pipelines.

Job Duties

  • Analyzes single cell RNA-Sequencing, single cell ATAC-Seq, CITE-Seq, as well as bulk RNA-Seq, Proteomics, Metabolomics, and Lipidomics datasets, generated from brains of HIV patient cohorts with rich clinical data.
  • Conducts advanced modeling of cognitive ability scores using approaches that include generalized linear models and deep learning.

Minimum Qualifications

  • MD or Ph.D. in Basic Science, Health Science, or a related field.
  • No experience required.

Preferred Qualifications

  • Experience in epigenetics or gene regulation is a plus, and experience with statistical analysis tools such as R or Python is recommended (successful candidates will be expected to pass a basic programming test in Python).
  • Candidates must have a  Ph.D. in Computer Science, Bioinformatics, or biology, as well as a strong background in statistics, and familiarity with large data sets such as proteomics or sequencing.
  • Must be highly proficient in spreadsheets and generating reports.
  • Excellent communication skills is a plus.

Apply here


Posted on February, 21, 2024

Post Doctoral Fellow - Department of Biomedical Informatics

Emory University is a leading research university that fosters excellence and attracts world-class talent to innovate today and prepare leaders for the future. We welcome candidates who can contribute to the diversity and excellence of our academic community.

Description

Helps design and conducts research in the field of biomedical natural language processing and machine learning, while receiving advanced training from a designated Principal Investigator to enhance professional skills and research independence needed for career pursuit. The specific focus of research in which the trainee is mentored is determined by the department and laboratory of the Postdoc. Develops new ideas that promote current research. Helps in the preparation of project proposals and grant applications. Prepares and publishes scientific manuscripts under the direction of the Principal Investigator. Designs and evaluates experiments and may be responsible for operation of specific equipment. May teach techniques to others, train, and supervise research staff and students. Positions are temporary appointments as a research trainee. The initial appointment is for one year, renewal expected if progress is satisfactory and funds are available. Appointments cannot exceed five years.

MINIMUM QUALIFICATIONS: A doctoral degree or equivalent in one of the following majors: Electrical Engineering, Biomedical Engineering, Computer Science and Engineering, or Applied Mathematics. Excellent scientific writing ability and strong oral communication skills. The ability to work effectively and collegially in a multidisciplinary team.

Additional Details: The Emory University Department of Biomedical Informatics is seeking a postdoctoral researcher skilled in the advanced application of natural language processing and machine learning techniques, addressing a wide spectrum of medical and public health issues. The researcher will engage with diverse datasets, encompassing social media big data, electronic health records, unstructured clinical narratives, registry information, and patient surveys to support clinical decisions and influence policy direction. The postdoctoral scholar's primary research areas will be: (1) crafting AI/ML techniques to interpret and distill insights from biomedical and social media text; and (2) formulating clinical predictive tools using varied and sequential health data.

The Department of Biomedical Informatics is a highly dynamic and multidisciplinary environment that has strengths in bioinformatics, global health informatics, imaging informatics, machine learning, mHealth informatics and signal processing.

Candidates are required to have a strong background in at least one of the following areas: Biomedical Engineering, Biomedical Informatics, Biostatistics, Computer Science, Electrical and Computer Engineering, Signal Processing, Mathematics, or a related field.

Experience with large volumes of text based and streaming data are essential. Strong programming skills in Python, and modern machine learning platforms are required; experience with computing in cloud environments is a strong plus; some experience with high-performance computing, database administration and health data analytics is desired but not required. A strong sense of responsibility to complete research in a timely manner is required.

Apply here


Postdoctoral Researcher Bioinformatics & Machine Learning

Friedrich Schiller University is a traditional university with a strong research profile rooted in the heart of Germany. As a university covering all disciplines, it offers a wide range of subjects. Its research is focused on the areas Light-Life-Liberty. It is closely networked with non-research institutions, research companies and renowned cultural institutions. With around 18,000 students and more than 8,600 employees, the university plays a major role in shaping Jena’s character as a cosmopolitan and future-oriented city.

You will be embedded in the Cluster of Excellence Balance of the Microverse ( microverse-cluster.de ). The Cluster combines expertise in life, material, optical and computational sciences to elucidate fundamental principles of the interactions and functions in microbial communities in diverse habitats. We aim to identify the shared characteristics of disturbed or polluted ecosystems as well as infectious diseases on the microbiome level, and develop strategies for their remediation by targeted interventions.

Phage-host interactions (PHI) are an emergent trait that depends on the complex integration of factors like their taxonomic identity, the environment, and phage- and host-encoded proteins. The DiversiPHI project aims to unravel PHI by 1) measuring, 2) modelling, and 3) experimentally testing these diverse factors to develop a predictive understanding of host-range evolution. Your role will be to integrate experimental evolution data that we have obtained in the project with data from public repositories, to predict and understand the evolution of phage host-range.

Your responsibilities:

    • Plan, design, and create machine learning tools to integrate bacteriophage and bacterial (meta-) genomics data.
    • Analyse phage-host association datasets, which are often noisy and require specific knowledge to interpret.
    • Communicate and discuss your predictions with experimental group members.
    • Report your findings in publications and presentation at international scientific platforms.
    • Support PhD students, Master students and undergraduate project students.
    • Collaborate productively with experimental and computational researchers in the Microverse.

Your profile:

    • A Ph.D. degree in bioinformatics, computational biology, machine learning, or a related field with specialist knowledge and demonstrated hands-on expertise in meta’omics data analysis, bacteriophages, and machine learning.
    • Track record of planning, performing, and publishing original research.
    • Track record of supervision and training of students or junior researchers.
    • Enthusiasm and talent for working on a variety of projects in parallel and for interdisciplinary research.
    • Strong motivation, excellent organisation skills and ability to contribute to a friendly and collaborative working environment in a cross-disciplinary scientific research group.
    • Fluency in English is required, both written and spoken. Fluency in other languages is advantageous.

Apply here


Posted on February, 2024

Postdoctoral Researcher - Microbial Bioinformatics

We are seeking a Postdoctoral Researcher - Microbial Bioinformatics to join School of Biomedical Sciences, Faculty of Health, Academic Division. Microorganisms have a profound influence on biological, environmental, and industrial processes, but understanding the complex dynamics of microbial communities and how to manipulate them to our advantage remains a challenge. CMR Director Professor Gene Tyson has recently been awarded a prestigious ARC Laureate Fellowship that aims to overcome current technological limitations and transform microbial ecology from a descriptive to a predictive science. This will be achieved using as a model the most intensively studied ecosystem on the planet: the human gut microbiome.

What you need to succeed

  1. Education, training and/or relevant experience equivalent to the completion of a PhD in a relevant field (microbial ecology, microbial genomics, bioinformatics).
  2. Demonstrated experience and knowledge of bioinformatics and coding languages.
  3. Demonstrated ability to work collaboratively within a multi-disciplinary team, along with proven ability to autonomously organise and prioritise tasks and workflow to meet project deadlines.
  4. High level communication skills, including demonstrated written communication skills and strong interpersonal skills.
  5. Ability to problem solve, logically plan and coordinate research activities, and critically assess existing literature and methods.

Applications Close: 01-Jan-2024 at 11.30pm

Apply here


Postdoctoral Fellow – Bioinformatics or Genomics or Neuroscience

The Center & job descriptions: A postdoctoral position in bioinformatics or genomics or neuroscience is available at the Loma Linda University Center for Genomics (directed by Dr. Charles Wang, MD, PhD, MPH), which was a key testing site for the FDA’s SEQC consortium international collaborative multi-center research projects. Dr. Wang played a leadership role on the SEQC multicenter genomics studies.  We recently published three papers in Nature Biotechnology including a multicenter study benchmarking single-cell RNA sequencing technologies (https://www.nature.com/collections/fjhdjcdefg). The center is well-equipped with many different NGS genomic tools including single-cell sequencing and spatial genomics as well as cutting-edge bioinformatics infrastructure and neuroscience equipment for genomics, neuroscience and bioinformatics studies.

The position will primarily support a genomic and epigenomic NIH funded project, which focuses on the investigating the genomic and epigenomic mechanisms underlying maternal e-cigarette induced abnormal brain development. See our recent novel findings in this paper (https://www.cell.com/iscience/pdf/S2589-0042(22)00958-0.pdf). The candidate will receive training in many aspects of the bioinformatics and will perform bioinformatics data analyses including single-cell sequencing, spatial genomics, RNA-seq transcriptomics, and epigenomics multi-omics data. The candidate also has the opportunity be involved in multiple collaborative projects in the Center. The candidate is expected to apply various algorithms involving R package/language, Bioconductor, Python, Bash, and other bioinformatics tools to the projects.

Required qualifications: A doctoral degree in relevant fields such as computational biology, neuroscience, or genomics, is required. Having demonstrated knowledge or experience with data analyses on genomics data including RNA-seq, scRNA-seq, spatial transcriptomics, ATAC-seq, or DNA methylation are a plus. The successful candidate will benefit from an outstanding research environment in our center and opportunities for career development into an independent investigator in academia.

Salary and compensations: Competitive salary relevant to the experience with the full benefit package plus the great California weather!

Application: Please submit by e-mail a cover letter including three referees and curriculum vitae to Dr. Charles Wang at chwang@llu.edu.


Senior Bioinformatics Scientist

The Duchossois Family Institute focuses on the role of commensal bacteria in enhancing disease resistance and is using genomic and metabolomic platforms to characterize the microbiome and its metabolites. Computational and bioinformatic expertise is required to understand how commensal bacteria impact human health. Bioinformaticians in the DFI perform genomic analyses including genome assembly and annotation and working with computation software programs to analyze microbial genome sequences and characterizing their metabolite utilization and secretion.

The Senior Bioinformatics Scientist conducts bioinformatics research and has deep specialized knowledge for developing methods and software tools to analyze and interpret data for genomic and microbiome studies.

This role is responsible for all aspects of research data management for clinical data, microbiome sequence data and results of analysis within the translational informatics. Plans and conducts clinical and non-clinical research. Manages engineering and technical support activities to develop and maintain tools and computational methods needed to gather and analyze data.

Responsibilities

  • Development of an integrated data warehouse for symbiote including clinical, microbiome sequence, and metabolomic data.
  • Management of DFI Biobank, MMF, and HMMF data within the Symbiote platform.
  • Functional analysis of the metagenome data by managing the KEGG database and integrating it within translational applications.
  • Facilitate the development of analytical pipelines for 16s and shotgun metagenome data.
  • Collaborate with CRI to facilitate access to and integration of clinical data for various clinical projects within DFI and also external collaborations such as PreSET.
  • Leads implementation or modification of existing web-based bioinformatics tools.
  • Provides expertise to biomedical informatics related concepts, applications, and tools.
  • Improves development of training, tools, and process documentation.
  • Performs other related work as needed.

Minimum Qualifications
 

Education:

Minimum requirements include a college or university degree in related field.

Minimum requirements include knowledge and skills developed through 7+ years of work experience in a related job discipline.

Preferred Qualifications

Education:

  • Master’s degree in Bioinformatics, Public Health, Industrial Engineering or a related field.

Experience:

  • Extensive knowledge of microbial metabolic pathways.
  • Expertise with Machine Learning and Shiny Fundamentals.
  • Participation in workshops focusing on the analysis of next-generation sequencing data.

Technical Skills or Knowledge:

  • Expertise with programming languages R-script, Python, SQL, JavaScript, and metagenomic pipelines (dada2, prokka, kneaddata, spades, kraken2, metaphlan, bowtie2, blastn).
  • Experience working on Linux and/or Unix systems, bash scripting.
  • Experience with RNA-Seq analysis.

Apply here


Posted on December , 2023

Bioinformaticist- Genetics

A subgroup of Dr. Ting Wang’s lab led by Dr. Daofeng Li in the Department of Genetics and The Edison Family Center for Genome Sciences and Systems Biology at Washington University School of Medicine is seeking a highly motivated Bioinformaticist to develop new data visualization techniques in the WashU Epigenome Browser platform.

We are looking for candidates with a strong background in bioinformatics, computational biology, and/or web development with excellent critical thinking, data management, and programming skills. Candidates must have experience in HTML, CSS and JavaScript/TypeScript. Full stack web development skills will be very beneficial.

This is a hybrid position with the flexibility of additional days on campus as needed for special projects. The Wang Lab is located is located in the Central West End of St. Louis, a vibrant neighborhood adjacent to major cultural institutions.

Job Description

Primary Duties & Responsibilities

Designs, develops, and implements:

  • Algorithms and computer software for omics-based data sets [high-throughput, massively parallel genomic/proteomic/clinical.]
  • Data management and analysis solutions that aid in the storage, investigation, and dissemination of large data sets.
  • Independent research projects, including design of research protocols and development of procedures for the collection, verification, and management of data.
  • Performs complex systems analysis of data and writes interpretative reports.
  • Evaluates commercial and academic bioinformatics software.
  • Trains other researchers on the everyday use of analysis software and research databases.
  • Assists with grant preparation and reporting of methods, data, and results.
  • Solves practical problems relating to difficulties with equipment or test subjects; suggests technical or procedural improvements in testing methods.

Preferred Qualifications

  • Master’s degree or Doctor of Philosophy in computer science or related field.
  • Two year related working experience.
  • Experience in HTML, CSS and JavaScript/TypeScript.
  • Excellent critical thinking, data management, and programming skills
  • Full stack web development skills
  • Analytical, reasoning, and problem-solving skills.
  • Good understanding of computational biology, probabilistic models, statistics, machine learning, and discrete mathematics.
  • Ability to analyze and interpret large complex data sets, such as genome sequences, microarray gene expression studies, human genetic studies, and model organism studies, and to communicate data in a clear, concise manner.
  • Expertise in standard bioinformatics tools.
  • Proficiency in scientific programming languages (e.g., Python, R, Perl, Java), in a UNIX/Linux and/or Windows environment.

Required Qualifications

Bachelor’s degree in computer science, bioinformatics, biostatistics, or related field plus four years of experience; OR master’s degree in computer science, bioinformatics, biostatistics, or related field plus two years of experience; OR combined education and experience of nine years.

Apply here


Postdoctoral Research Associate - Computational Biology & Bioinformatics

The Postdoctoral Research Associate will have a responsibility for conducting computational biology and bioinformatics research in the areas of genomics, microbiome analysis, and microbial ecology. The candidate will join Professor Shibu Yooseph’s Computational Biology research group in the Kravis Department of Integrated Sciences at Claremont McKenna College.

An ideal candidate will have a background in the computational sciences, and will lead the development, implementation, and application of combinatorial and machine learning algorithms to analyze microbiome data. This position involves knowledge of algorithms design, computer programming, and biological data analysis. Candidates who aspire to establishing themselves as independent researchers and innovative teachers are strongly encouraged to apply.

DESCRIPTION OF DUTIES AND RESPONSIBILITIES

  • Lead the design, implementation, and evaluation of algorithms to analyze microbiome data, including 16S ribosomal RNA sequence data and metagenomic sequence data. The main biological questions pertain to understanding microbial community composition, function, evolution, and interactions, and biomarker identification. Computational areas of interest include metagenome assembly, homology detection, biological sequence database representation and searching, omics data integration, mixture modeling, sparse network inference, and phylogenetics.
  • Lead the preparation, writing, and publication of research manuscripts presenting the findings of the research questions. Participate in professional development activities including presenting research findings at seminars and conferences. Responsible for the management and organization of microbiome datasets, and for the management of computer code generated by the research projects.
  • Serve as a mentor or co-mentor for undergraduate students on research projects. Help train new research associates. Work in a collaborative, flexible, and team-focused manner.
  • Perform other essential duties and tasks specific to the position and other duties as assigned.

QUALIFICATION STANDARDS:

EDUCATION:  A Ph.D. in Computer Science, Computational Biology, Bioinformatics, Mathematics, Artificial Intelligence, Machine Learning, or other computational sciences.

EXPERIENCE:  Research experience (3-4 years) in algorithm design and in the analysis of sequence data obtained from various next-generation DNA sequencing technologies.

REQUIRED KNOWLEDGE, SKILLS, and ABILITIES:  Individual must possess knowledge, skills, and ability to be able to successfully perform the essential functions of the position.

  • Background in algorithms design and implementation. Familiarity or background in machine learning algorithms.
  • Strong programming background. Programming languages include R, Python, or C/C++.
  • Demonstrate effective, accurate and clear communication with excellent verbal, written, and interpersonal skills.
  • Demonstrate a commitment to teaching, mentoring, and inspiring students representing a broad range of socioeconomic backgrounds, political opinion, genders, races, ethnicities, nationalities, sexual orientations, and religions.
  • Independently use exceptional organizational and time management, planning and priority skills to complete work with accuracy and a keen attention to detail by established deadlines, including the ability to effectively track the status of ongoing projects.
  • Ability to work effectively, cooperatively, collaboratively and professionally with the academic community, with colleagues, and with others. Ability to receive and respond appropriately to constructive criticism.

START DATE: This is a two-year position. We are looking to fill this position immediately, with a latest start date of January 1, 2024.

Apply here


Posted on September 27, 2023

Postdoctoral Researcher in Computational Biology / Bioinformatician Engineer

Join our dynamic team at the Institut Pasteur, Paris, and contribute to cutting-edge research in computational biology. We are engaged in ERC (BinD) and ANR projects (Nucleoseq, Genstabes) aimed at unraveling the influence of transcription factors on the inheritance of genetic and epigenetic information. Our work combines epigenomic and transcriptomic technologies with advanced imaging and genetic engineering to investigate the establishment, maintenance and transformation of cell identity in stem cells, early mouse embryos and cancer.

You will play a pivotal role in applying bioinformatic, statistical, and deep learning approaches to analyze data generated from various high-throughput sequencing technologies (e.g.  ChIP-seq, ATAC-seq, MNase-seq, RNA-seq, TT-seq, Nome-seq, Fiber-seq). You will have substantial autonomy and freedom to shape and lead your own research project aligned with your interests and career goals. Mentorship and support will be integral to your scientific journey.

Candidate Profile:

We are looking for candidates passionate about all aspects of knowledge production, from experimental setup to ensure statistical power to initial data analysis, integration, interpretation, and new hypotheses formulation. The successful candidate should hold a Ph.D. in life or computational sciences and possess expertise in high-throughput sequencing analysis. Establishing fruitful interactions with experimentalists is crucial and candidates are expected to be collaborative, enthusiastic, and deeply curious about complex scientific challenges.

Application:

Interested candidates should submit the following application materials via email to Pablo Navarro (pnavarro@pasteur.fr): Cover letter; Curriculum vitae; Contact information for 3 references.

Apply here


Post Doctoral associate Bioinformatics

The Department of Medicine, Division of Hematology/Oncology is seeking to hire a Post Doctoral Associate in bioinformatics working with Dr. Yu-Chiao Chiu. The candidate will engage in bioinformatics research to systematically understand the biology of adult and pediatric cancers, identify diagnostic and prognostic biomarkers, and improve cancer therapy.

The candidate will work on high-throughput genomic and pharmacogenomic datasets generated at the bulk and single-cell levels. At the UPMC Hillman Cancer Center, the candidate will have the opportunity to build cross-disciplinary collaborations with clinical, translational, and basic scientists in order to bridge cutting-edge computational algorithms to unmet needs in precision oncology. A candidate who recently earned a Ph.D. degree in bioinformatics, computational biology, biomedical/electrical engineering, computational biology, computer science, or a related field. Strong experience in computational modeling of biological systems, large-scale cancer multi-omics datasets (TCGA, TARGET, CCLE, etc.) high-throughput drug and genetic screens (DepMap, GDSC, etc), and common bioinformatics resources (NCBI, UCSC, Ensembl, etc.) is essential.

Experience in deep learning, machine learning, single cell, and spatial omics, and image processing is highly desirable. The candidate must be proficient with Linux and multiple bioinformatics programming languages, such as R, Python, MATLAB, and Perl. The candidates must possess effective written and verbal English communication skills.

Candidates apply to join.pitt.edu requisition #22005469.

Apply here


Posted on September 19, 2023

Bioinformatics Scientist - Radiation Oncology

The Department of Radiation Oncology at Washington University is seeking an experienced Bioinformatics Scientist to support Wash U's newly established Radiation Oncology-Biology Integration Network (ROBIN) Center. This cross-disciplinary center aims to integrate genomics, proteomics, metabolomics, and radiomics to understand the impact of radiation treatment on the tumor microenvironment in cervical and pancreatic cancer. The Bioinformatics Scientist position will be based in the Cancer Biology Division of Radiation Oncology. The Cancer Biology Division is a diverse group of clinical, physics, and computational science investigators who collaborate to answer fundamental questions about radiotherapy efficacy and cancer biology. The ideal candidate will have broad experience interpreting sequencing data from large cancer-related datasets.

Job Description

Primary Duties & Responsibilities

Designs, develops, and implements

  • Algorithms and computer software for omics-based data sets [high-throughput, massively parallel genomic/proteomic/clinical.]
  • Data management and analysis solutions that aid in the storage, investigation, and dissemination of large data sets.
  • Independent research projects, including design of research protocols and development of procedures for the collection, verification, and management of data.

Other Functions

  • Performs complex systems analysis of data and writes interpretative reports.
  • Evaluates commercial and academic bioinformatics software.
  • Trains other researchers on the everyday use of analysis software and research databases.
  • Assists with grant preparation and reporting of methods, data, and results.
  • Solves practical problems relating to difficulties with equipment or test subjects; suggests technical or procedural improvements in testing methods.

Preferred Qualifications

  • Master’s degree or Doctor of Philosophy in computer science or related field.
  • Experience analyzing large cancer-related single-cell sequencing datasets. Experience analyzing exome sequencing.
  • Experience collaboratively developing and implementing bioinformatics pipelines (ideally in Snakemake).
  • Experience with metabolomics or spectrometry-based proteomics.
  • Familiarity executing bioinformatics pipelines in local UNIX/Linux environments and cluster execution (LSF).
  • Proficiency in scientific programming languages including Python and R.

Apply here


Postdoctoral Scientist –Metagenomics bioinformatics

The VIB-UGent Center for Medical Biotechnology is hiring an enthusiastic postdoctoral scientist to develop and implement data analysis workflows for (meta)genomics data analyses, in the context of the Horizon Europe ODIN project on environmental surveillance of pathogens. This position is part of an exciting international project, where the successful candidate will contribute to building data analysis pipelines, data processing aimed at advancing genetic surveillance in developing countries, and local capacity building around these topics.

These pipelines will facilitate genetic surveillance by integrating with initial data acquisition processes, performing initial data interpretation and quality control, centralizing data collection, implementing data processing workflows, and developing a dashboard for interactive data visualization and analysis – this in close collaboration with internal (VIB and Ghent University) as well as external partners.

The successful candidate has strong data analytical skills and can rely on previous experience in high-throughput (meta-)genomics data analysis (including amplicon sequencing and shotgun sequencing data), developing data analysis pipelines, and data storage.  Moreover, the candidate is genuinely interested in genomic surveillance, quality control, and FAIR data dissemination, and is eager to collaborate in a multidisciplinary, highly international environment.

The postdoctoral scientist will be a key bioinformatician in an international project. Their main focus will be on:

  • Setting up bioinformatic processes to analyse nucleotide sequencing data, notably including amplicon sequences and metagenomes generated (in situ) from environmental samples
  • Developing workflows that will facilitate targeted analyses
  • Developing workflows that will facilitate generation of easy-to-understand reports from raw sequence data
  • Develop methods for data sharing in real-time

Profile

The candidate has:

  • Ph.D. in Bioinformatics, Computational Biology, Biostatistics or equivalent
  • Well-developed knowledge of state-of-the-art (meta)genomics data analysis
  • Hands-on experience in a Linux/Unix server environment and with relevant languages (e.g. Python), working in a cluster or cloud computing environment, developing pipelines (e.g. in Nextflow), relational and NoSQL databases
  • Keen interest in FAIR data,  quality control, containerizing (e.g. Docker), data visualization
  • Previous experience in (meta)genomics surveillance projects is a plus

Apply here


Posted on September 15, 2023

Post-Doc Research Associate Bioinformatics

The UNC School of Medicine has a rich tradition of excellence and care. Our mission is to improve the health and wellbeing of North Carolinians, and others whom we serve. We accomplish this by providing leadership and excellence in the interrelated areas of patient care, education, and research. We strive to promote faculty, staff, and learner development in a diverse, respectful environment where our colleagues demonstrate professionalism, enhance learning, and create personal and professional sustainability. We optimize our partnership with the UNC Health System through close collaboration and commitment to service.

The BARC, in partnership with the Office of Research in the Dean’s office of the School of Medicine, is launching a Bench to Bioinformatics program. This initiative will recruit promising experimental scientists with an aptitude and inclination for computational biology and bioinformatics so that they may receive mentored training in informatics as part of a career transition from benchwork to computational work. While successful applicants will have protected time for learning new approaches and algorithms, these positions will be focused on providing bioinformatic and analytic services to the UNC research community.

Applicants will be expected to commit to at least two years at the BARC, during which they will be expected to publish co-first and/or second/middle author manuscripts in conjunction with the collaborating laboratories, and help train the next generation of scientists. After completion, candidates will have the qualifications and expertise to pursue a career in genomic data science.

Applicants must have a PhD in a biological, biomedical, or similar field. We are particularly interested in candidates with strong experience with generating genomics data, especially single cell RNA-seq or ATAC-seq. Experience with spatial RNAseq approaches is also a plus. Strong preference will be given to candidates with a demonstrated foundation in R/Python and high-performance computing, and a basic understanding of statistical approaches for genomic data analysis.The ideal candidate will be able to work across interdisciplinary subjects to provide bioinformatics support to laboratories at UNC-Chapel Hill.

Department Contact Telephone or Email Tyrone_Surmons@med.unc.edu

Vacancy ID PDS003966

Apply here


Bioinformatics Data Scientist

Join our research institute at the University of North Carolina at Chapel Hill today and help us spark a scientific renaissance across the Research Triangle Park, North Carolina, and beyond. Position Summary Renaissance Computing Institute (RENCI) is seeking a Bioinformatics Data Scientist to support projects creating, maintaining, and analyzing biomedical knowledge graphs. The Data Scientist will be responsible for identifying relevant biomedical knowledge, understanding its contents, developing ingestion tools, and integrating knowledge. The Data Scientist will actively develop code, tests, and benchmarks to drive projects forward, and will have the capacity to develop new research projects advancing RENCI’s data science portfolio.

Responsibilities:

- Identify relevant biological or biomedical knowledge bases, and provide expertise in their interpretation and use.
- Collaborate with software engineers and researchers to help design data systems to advance scientific discovery.
- Develop and implement algorithms for knowledge graph ingestion, manipulation, and analysis.
- Contribute to publications and grant proposals.
- Contribute to interdisciplinary teams; be a team player.

Qualifications:

- MS or PhD in Computer Science, Information Science, Bioinformatics, or related discipline.
- Experience with graph databases such as neo4j or redis graph, including experience with the cypher query language.
- Experience with semantic web tools such as RDF and SPARQL.
- Experience with graph neural networks or rule mining.
- Knowledge of Kubernetes container orchestration.

Position Number 20059390

Vacancy ID NF0007337

Apply here


Posted on September 11, 2023

PostDoc Bioinformatics

The Medical Bioinformatics unit (lead: Prof. Dr. Jan Budczies) works closely together with the Center for Molecular Pathology (MPZ) Heidelberg, one of the leading centers for molecular diagnostics in Europe. Our working environment includes cutting-edge sequencing technologies, a state-of-the-art IT infrastructure and offers access to national and international research networks. You will work in a highly motivated and interdisciplinary team of pathologists, biologists, and bioinformaticians.

Your tasks:

  • Development of bioinformatic methods for the analysis of molecular-oncological data
  • Bioinformatic pipelines for the analysis of Next Generation Sequencing (NGS) and other -omics data
  • Combined analysis of molecular high-throughput, histomorphological and clinical data
  • Application of machine learning/artificial intelligence/neuronal networks
  • Internal and external presentation of research results
  • Paper writing and publication
  • Participation in the implementation of bioinformatic pipelines for patient care
  • Optional: continuation of the academic career (e.g. habilitation)

Your profile:

  • PhD in Bioinformatics or a related science (Informatics, Mathematics, Physics etc.)
  • Proficiency in the analysis of NGS and other -omics data
  • Proficiency in computer programming ideally including R, Python, and Shell Scripts
  • Ideally: skills and experiences with machine learning, neuronal networks and computer vision
  • Ability to think in a structured, abstract and analytical way
  • Proficiency in English speaking and writing, ideally additionally German
  • Ability to work independently as well as in a multi-disciplinary team

For further information please contact Yvonne Reichelt via e-mail .

Interested?

Applications will be accepted until 30.09.2023 via e-mail.

Apply here


Postdoctoral Research Fellow in Comparative Genomics Bioinformatics

Department

Research | El-Kassaby Lab | Department of Forest and Conservation Sciences | Faculty of Forestry (Yousry El-Kassaby)

We invite applications for a full-time post-doctoral position in the areas of genomic variant identification and comparative genomics. The research position will lead a computational effort to characterize the importance of large structural variants for plant genomes. Responsibilities include developing genomes/genomic data analysis, linking associated variants with functional knowledge, annotations and other key genomic features, and development of manuscripts; supervising duty might be assigned.

The position will require strong bioinformatics and computing background and skills in integrating and handling multi-dimensional biological datasets. Candidates with skillsets and experience in managing large genomes and statistical genetics will be preferable as well.

The successful candidate will have:

- A PhD in Bioinformatics, Computational Genetics, or related fields

- Experience with handling large data, scripting and bioinformatics skills are required

The location of this position is at the University of British Columbia on the Vancouver campus, with some travel to Oklahoma State University, USA. The length of the position is one year. The start date is flexible. Salary: 60-65,000 Canadian funds, commensurate with qualifications and experience.

Apply here


Posted on September 05, 2023

Bioinformatics Specialist

The Forsberg Lab in the Department of Biomolecular Engineering at the University of California, Santa Cruz (UCSC) invites applications for the position Bioinformatic Specialist.

Under the direction of Professor Camilla Forsberg, the bioinformatics specialist will contribute to stem cell research through the following activities:

  • Provide highly specialized, technical research and support, along with consultation in bioinformatics with a focus on analyzing omics data.
  • Identify and design novel pipelines and computational solutions to a diverse array of problems arising from associated scientific data and experiments.
  • Participate in research projects by conceiving, planning, and performing experiments in the laboratory, depending on the experience level of the candidate.
  • Contribute to the research endeavors of colleagues within the laboratory and at the institution, as appropriate.

Essential to the position are strong organizational, communication, and interpersonal skills, as well as ability and desire to work both independently and as part of a team. Applicants with expertise in Python, R, or other languages suitable for analyzing omics data with a high degree of self-organization and autonomy are strongly encouraged to apply. UCSC is a vibrant research community with state-of-the art facilities for research focused on stem cells, epigenetics, genomics, cancer, sequencing technologies, RNA biology, developmental biology, and related fields. Candidates will have excellent opportunities for intellectual growth on campus and beyond. The proximity to Silicon Valley and the San Francisco Bay Area affords extensive opportunities for interactions with nearby research institutions.

Basic qualifications (required at time of application)

  • Ph.D. (or equivalent foreign degree) in a scientific field, bioinformatics, molecular biology, or a related field.
  • Two to three years’ research experience relevant to the advertised position such as, performing analysis on 'omics' datasets.

Apply here


Postdoc in Bioinformatics and Cancer Genomics

The Department of Clinical Medicine at Faculty of Health at Aarhus University invites applications for a position as Postdoc in the field of bioinformatics and cancer genomics as per 1 December 2023 or as soon as possible thereafter. The position is a 3 year full-time position.

As a postdoc at the Department of Clinical Medicine, you will be part of what is probably the largest health science research department in Denmark. Our clinical research covers all the medical specialities and takes place in close collaboration with the university hospital and the regional hospitals in the Central Denmark Region. We have approx. 30,000 square metres of modern research facilities for experimental surgery and medicine, animal facilities and also advanced scanners at our disposal. The department has overall responsibility for the master’s degree programs in medicine and in molecular medicine. At the department we are approx. 670 academic employees, 500 PhD students and 160 technical/administrative employees who are cooperating across disciplines. As a postdoc, you will be working at Aarhus University Hospital or another hospital in the Central Denmark Region. You can read more about the department here and about the faculty here.

Your job responsibilities

As Postdoc in bioinformatics and cancer genomics your position is primarily research-based but may also involve teaching assignments. You will contribute to the development of the department through research of high international quality. In your daily work, you will work closely with colleagues on your project, where you will receive supervision and guidance.

Your main tasks will consist of:

  • Independent research of high international quality, including publication.
  • Performing bladder cancer research using various bioinformatic tools and supercomputer facilities.
  • Handling and analysing sequencing data including single cell- and spatial transcriptomics.
  • Analysis of liquid biopsy data.
  • Interaction with other team members to help facilitate bioinformatic procedures.
  • Interaction with various collaborators in the context of an EU consortium.
  • Contribute to applications for obtaining external funding.

You will report to the managing professor at Department of Molecular Medicine, Lars Dyrskjøt Andersen

Apply here


Posted on September 01, 2023

Research assistant - bioinformatics and metapangenomics

The Department of Aquatic Sciences and Assessment (www.slu.se/aquatic-sciences) is working with applied environmental science, with a national responsibility for assessing the condition of Swedish surface waters with respect to water chemistry, pollution and aquatic biota. The department has about 140 employees. The research focuses on geochemical and hydrological processes, aquatic ecology and biodiversity, as well as on aquatic ecotoxicology and environmental chemistry. The department is part of a Soil-Water-Environment cluster, a recently established competence centre for landscape-level processes that also includes the Departments of ‘Soil and Environment’ and ‘Energy and Technology’. The breadth of expertise among the 300 members in combination with a well-equipped infrastructure creates a unique platform for high quality research as well as environmental monitoring and assessment.

Duties:

We are looking for a Research assistant to be placed at the Department of Aquatic Sciences and Assessment, SLU. The candidate will incorporate to a recently established division (Microbial Ecology) and assist with establishing a new research line. The project aims to develop an automated bioinformatics pipeline for analyzing pangenome dynamics from environmental metagenomic datased. For this, we will extend the pipelines existing in the laboratory by integrating additional tools aimed to perform species-level clustering and pangenome assembly. The candidate will be responsible for pipeline development, validation and documentation. The candidate will also be expected to contribute to preliminary analysis of real datasets. The Department research laboratories are a dynamic and stimulating workplace with potential for future career development and opportunities to work with other biological methods such as DNA isolation and sequencing, flow cytometry, microscopy, microbial cultivation and experiments.

Qualifications:

We are seeking a highly motivated candidate with a Master’s degree in bioinformatics or related subject. Candidates are required to demonstrate good knowledge and previous experience with UNIX/shell, the Nextflow programming language and at least an additional programming language with applications for bioinformatics. Knowledge and practical experience on metagenomics and pangenomics is required. Further knowledge of aquatic microbiology, molecular biology and microbial ecology/evolution is desirable and will be considered merits. We are looking for a candidate who can work independently and in a structured manner, with attention to detail and proper documentation of the work performed. Personal qualities such as responsibility, independent problem-solving and interpersonal skills and will be considered as further merits. The ability to communicate well in English is a requirement.

Apply here


Postdoc in Functional 3D-Genome Analysis to Find Covariation Signatures

A post-doc position is available at the group of Assoc. Prof. Pelin Sahlén at the SciLifeLab, KTH. We are seeking a highly motivated individual for working in the field of 3D genome analysis and functional epigenomics in genome medicine field. We will work together with Topological Data Analysis group at the KTH led by Professor Wojciech Chachólski to develop a novel analysis method to find co-variation signatures and the successful candidate will actively collaborate with Chachólski group.

The SciLifeLab and Wallenberg National Program for Data-Driven Life Science (DDLS) is a 12- year initiative that focuses on data-driven research, within fields essential for improving the people’s lives, detecting and treating diseases, protecting biodiversity and creating sustainability. The programme will train the next generation of life scientists and create a strong computational and data science base. The program aims to strengthen national collaborations between universities, bridge the research communities of life sciences and data sciences, and create partnerships with industry, healthcare and other national and international actors. Read more: https://www.scilifelab.se/data-driven

Requirements

  • A doctoral degree or an equivalent foreign degree in bioinformatics or computational biology . This eligibility requirement must be met no later than the time the employment decision is made.
  •  As a person you are ambitious and have a strong ability to take initiative
  • Experience in advanced bioinformatic analyses of large scale genomics or omics data
  • Excellent programming skills in at least one of the following scripting or programming languages such as Python, R or C++ and experience working with large scale computing clusters
  • Good knowledge in statistics
  • Excellent oral and written English language skills
  • Ability to both work independently and collaborate with colleagues

Preferred qualifications

  • A doctoral degree or an equivalent foreign degree, obtained within the last three years prior to the application deadline
  • Experience working with large-scale genome interaction, epigenome or gene regulatory network data
  • Awareness of diversity and equal opportunity issues, with specific focus on gender equality
  • Experience in the field of network science and analysis
    Great emphasis will be placed on personal skills.

Apply here


Posted on August 30, 2023

Postdoctoral Fellow Position in Computational Epigenomics

At Moffitt Cancer Center, we come face-to-face with cancer every day, but we also see courage. And it inspires us to be the safest and best place for cancer care – to bring greater hope to every patient we serve. It’s why we’ve been continually named One of the Top Places to Work in the Tampa Bay Area. As the only National Cancer Institute-designated Comprehensive Cancer Center based in Florida, Moffitt employs some of the best and brightest minds from around the world. Moffitt is the leading cancer hospital in both Florida and the Southeast and has been nationally ranked by U.S. News & World Report since 1999. Because working at Moffitt is both a career and a mission: to contribute to the prevention and cure of cancer. Join a dedicated, diverse and inclusive team of over 7,000 to be a part of the Courageous future we envision.

The Computational Epigenomics Lab (https://lab.moffitt.org/teng) in the Department of Biostatistics and Bioinformatics at Moffitt focuses on data science researches to understand epigenomic mechanisms of oncogenesis, particularly associated to DNA oncoviruses and clonal hematopoiesis.

The Ideal Candidate:

  • Passionate and motivated in computational biomedical research
  • Experience in genomic studies using sequencing datasets
  • Proficient programming skills in biomedical data processing

 

Qualifications:

  • PhD in Bioinformatics, Computational Biology, Biostatistics, or the related fields.
  • At least one first-author publication in related fields.

How to Apply: Interested applicants should send a single PDF file that includes a cover letter summarizing your research training and accomplishments, a brief personal statement of scientific interests and goals, current CV with recent publications, and contact information of three references to Dr. Mingxiang Teng (mingxiang.teng@moffitt.org)

Apply here


Postdoctoral Fellow in Pharmacological Sciences/ Bioinformatics

The Schlessinger Lab at the Icahn School of Medicine at Mount Sinai in New York is seeking a highly motivated Postdoctoral Researcher to join our team in the field of structural bioinformatics and computational chemistry. Our lab focuses on developing and applying advanced computational methods to unravel the molecular mechanisms of proteins and drugs, with the ultimate goal of advancing next-generation therapeutics. We currently have an NIH-funded project centered around studying the structure, function, and drug discovery of membrane transporters.

We are looking for a recent PhD graduate with a strong background in computational chemistry to contribute to our collaborative projects as part of an interdisciplinary team. The ideal candidate should possess excellent analytical skills, be able to work independently, and have experience leading projects to successful completion.

Responsibilities: The successful candidate will be responsible for applying various computational methods to design tool compounds for biomedically important proteins, with a focus on membrane proteins.

Qualifications: PhD in bioinformatics, biophysics, chemistry, physics, computer science, or related field, with a proven record of programming skills. Significant experience and knowledge of computational structural biology, including expertise in structural modeling, molecular docking, or sequence analysis methods. Keen interest in applying quantitative approaches, such as computer-aided drug design, to address biological problems in collaboration with experimental biologists. Strong research background and a track record of publications in simulations of protein/ligand interactions, as well as experience using MD simulation software.

Apply: Interested applicants should email the following documents to Dr. Avner Schlessinger: Brief description of research interests and experience – List of 3 references

Apply here


Posted on August 23, 2023

Senior Bioinformatics Analyst

Baylor College of Medicine requires employees to be fully vaccinated -subject to approved exemptions-against vaccine-preventable diseases including, but not limited to, COVID-19 and influenza.

Summary

This role is an opportunity to be part of ground-breaking research at the forefront of human genomics and functional genomics to advance precision medicine for a variety of pediatric disease. This role will focus on the development of statistical methods and computational pipelines to analyze large-scale human genetics, single-cell RNA-sequencing, and proteomics datasets. You will be part of a rich interdisciplinary environment, working closely with clinicians and trainees in wet lab science and computational biology.

Job Duties

  • Perform genomic analyses on large case-control cohorts to identify risk and response associations for diseases of interest
  • Perform integrative analyses of other molecular and omics data, such as gene expression data, metabolomics and/or proteomics
  • Develop robust pipelines for data annotation, analysis, and quality control
  • Create analytical algorithms and tools to address scientific questions with big data
  • Contribute to publication of results
  • Support and supervise trainees

Minimum Qualifications

  • Bachelor's degree in Genetics, Biology, Bioinformatics, Biostatistics, Computational Biology, Computer Science, or a related field.
  • Four years of relevant experience.

Preferred Qualifications

  • Master’s degree or PhD in a related field
  • Cloud-computing experience
  • Proficiency in Python, R, SQL, Git
Division:  TCH Departments
Schedule:  Monday - Friday; 8:00 AM - 5:00 PM
Work Location:  Texas Medical Center, Houston, TX
Salary Range:  $75,150 - $99,148
FLSA Status:  Exempt
Requisition ID:  16936

Bioinformatics scientist

For already 50 years, the Vrije Universiteit Brussel has stood for freedom, equality and connectedness. These values are strongly present on our campuses, in our students as well as our staff. At the VUB, you’ll find a diverse collection of personalities: pure innovators and especially people who are 100% their authentic selves. With about 3.500 employees, we are the largest Dutch-speaking employer in Brussels, an international city with which we are all too happy to be connected, and around which our four campuses are located.

The Faculteit Geneeskunde en Farmacie, Department Basis (bio)-medische wetenschappen, is looking for a postdoctoral researcher. More concretely your work package contains: The Oncology Research Center (ORC) of Vrije Universiteit Brussel (VUB) is looking for a talented and enthusiastic bioinformatics scientist, who preferentially has obtained a PhD. You will contribute to the ongoing and new projects in the ORC situated in cancer research, with focus on but not limited to tumour biology and its microenvironment, immune-oncology, tumour heterogeneity and plasticity. The ORC is situated on the medical campus of VUB in Jette. The ORC is a multi-disciplinary group in which basic, translational and clinical investigators from the VUB and UZ Brussel collaborate.

Your profile:

  • You preferentially hold a Ph.D. in a relevant domain (obtained max. 6 years ago). Or you have a master in bioinformatics and at least two years of relevant and demonstrated (e.g. via authorship on publications) experience in computer science or computational biology.
  • You have a strong knowledge in bioinformatics and a first experience in research on biological pathways relevant in cancer research.
  • A broad experience in bioinformatics and data-mining of large datasets including (epi)genomics and transcriptomics, bulk as well as single-cell sequencing data is required
  • Working proficiency in Python and R
  • You have a good background in Life Sciences

Do you have questions about the job content? Contact dr. Isabelle Houbracken at isabelle.houbracken@vub.be or on (0486)40 71 57.

Apply here


Posted on August 21, 2023

Postdoctoral Fellow in Bioinformatics

Berkeley Lab’s  (LBNL) Molecular Biophysics and Integrated Bioimaging Division (MBIB) has an opening for a Postdoctoral Fellow to join the SIBYLS Beamline group.

In this role, you will work in a multi- disciplinary team of scientists to integrate experimental biophysical databases with machine learning algorithms. The SIBYLS Beamline is a state-of-the-art synchrotron beamline at the Advanced Light Source (ALS) and is dedicated to measuring structural data on biological samples in solution and connecting this data to atomic models. You may apply your work for ongoing projects on proteins related to pandemic preparedness, cancer, climate change, and biomanufacturing.

What You Will Do:

  • Participate with other members of the scientific team in the application of unique Lab infrastructure to address disease and climate change through structural biology.

  • Integrate experimental database information with machine learning algorithms.

  • Publish scientific papers in peer-reviewed journals and present findings at seminars and conferences.

  • Participate in the development of grant proposals for new research directions and the preparation of competing renewals of current research grants.

  • Maintain an accurate and detailed online laboratory notebook of all experiments performed and provide sufficient details to ensure methods and results can be duplicated by others.

  • Collaborate with program projects that utilize synchrotron beamlines for research.

  • Develop new collaborations as appropriate to further the scientific goals of the programs.

  • Collaborate with members of the SIBYLS Beamline and the Advanced Light Source Division.

 

What is Required:

  • A recent Ph.D. (within the last 1-2 years) in Biological Sciences, Applied Mathematics, Computer Science, or a related discipline.

  • In-depth understanding of protein, DNA, and RNA structure.

  • Strong computational programming skills in a major programming language such as C, Python, etc.

  • Demonstrated problem-solving ability and willingness to learn new skills.

  • Strong oral and written communication skills including the ability to efficiently organize technical information for publication and presentation.

  • Demonstrated interpersonal skills including experience collaborating with a diverse interdisciplinary research team.

 

Desired Qualifications:

  • Experience with computational tools in protein engineering.

  • Experience working with proteins and nucleic acids.

  • Experience in interdisciplinary research.

  • Experience collecting data at a synchrotron.

  • Knowledge of national user facility operations.

For first consideration, please apply with a curriculum vitae (CV) or resume by September 7, 2023.

Apply here


Bioinformatics Specialist I

Founded in 1824, the GW School of Medicine and Health Sciences (SMHS) is the 11th oldest medical school in the country and the first in the nation’s capital. Since its establishment, the school has been at the forefront of medical education, and has grown to include highly-ranked programs in the health and biomedical sciences. With dozens of top-tier residency programs, SMHS is a competitive and esteemed destination for medical school graduates across the country. Find out more here: http://smhs.gwu.edu/

The Department of Biochemistry and Molecular Medicine (BMM) of the George Washington University, School of Medicine and Health Sciences (SMHS), strives to deliver the highest quality of professional education and training, and conduct cutting edge research in the areas of biochemistry, molecular genetics and genomics with a goal to better understand human disease. Additionally, the Department continues to have a long and successful record in training Undergraduate, Master and Graduate students at the George Washington University School of Medicine and Health Sciences.

Preferred Qualifications:

· Strong programming skills and a good understanding of molecular biology and genetics/genomics
· Understanding of key concepts in molecular biology and genetics/genomics
· Advanced skills in bash scripting, R and Python programming
· The ability to implement and optimize the use of newly developed tools for bioinformatics data analysis and integrate publicly available data from resources such as TCGA
· Experience with NGS data processing and analysis: alignment, assembly, gene expression estimation, differential gene expression.Samtools, DeSeq2, Galaxy, etc.)
· Experience and the ability to create and work with databases
· Experience and understanding of analytical approaches for single cell RNA-sequencing (scRNA-seq) and single cell ATAC-sequencing (scATAC-seq)
· Familiarity with popular tools for scRNA-seq analysis (i.e. CellRanger, STARsolo)
· The ability to be productive and successful in a fast-paced and dynamic work environment
· Proven writing and presentation skills
· Ability to generate publication quality graphs, figures, charts, step-by-step instructions after completion of analysis
· Experience in bioinformatics system administration (configure software, manage/advice hardware setup)
· Degree in Computer Science, Bioinformatics, Computational Biology or related field
Posting Number: R001966

Posted on August 18, 2023

Postdoctoral Research Fellow in Statistical Genetics and Big Data

At the Centre for Bioinformatics, there is a Postdoctoral research fellowship position available. The Centre runs a series of multidisciplinary studies aiming to develop algorithms and tools to improve treatment and prognosis of severe mental disorders, as well as contribute to implementing computational infrastructure to facilitate the uptake of this approach. New algorithms involve advanced statistical and machine-learning approaches for the analysis of deeply phenotyped longitudinal clinical samples and population-based studies, leveraging large-scale genotyping, sequencing, and neuroimaging data.

The Centre for Bioinformatics collaborates closely with large international consortia, particularly Psychiatric Genomics Consortium (PGC) and the ENIGMA consortium. The Centre also has access to the data from the Norwegian Mother, Father and Child Cohort study (MoBa), the UK Biobank, and the Adolescent Brain Cognitive Development (ABCD) study. The current position is closely integrated with the Precision Psychiatry Analytical Group (https://www.med.uio.no/klinmed/english/research/groups/precision-psychiatry/index.html) and is focused on multivariate analysis of these large-scale datasets using novel statistical tools to better understand polygenic architectures of severe mental disorders.

Job description

The main purpose of a postdoctoral fellowship is to provide the candidates with enhanced skills to pursue a scientific top position within or beyond academia. To promote a strategic career path, all postdoctoral research fellows are required to submit a professional development plan no later than one month after commencement of the postdoctoral period.

  • The post-doctoral fellow will work in a multidisciplinary team with clinicians as well as with experts in statistics, applied mathematics, big data analysis, and computer science.
  • The research will involve statistical genetics, imaging genetics, bioinformatics, machine learning and Bayesian data analysis, molecular genetics, and novel biostatistical methods (MiXeR, MOSTest, Polygenic Hazard Scoring).
  • The goal is to quantitatively characterize the genotype-phenotype mapping, using datasets from whole genome studies.

Qualification requirements:

The ideal candidate is familiar with statistical genetics, has strong programming skills and hands-on experience with high-performance computing and big data analysis, has knowledge of statistics, applied mathematics, and machine learning, and has a genuine interest in applying and developing the analytical methodology for this project. Background in DNA/RNA sequencing and microarray data analysis, bioinformatics, and genetic engineering among others, can also be useful. The clinical background will be an advantage. How personally suitable the candidate is will also play a role.The fellow will be key scientific personnel in the project. The project is based on collaboration with the University of California, San Diego (UCSD), and deCODE Genetics, Iceland. The position may involve a period of working abroad.

Contact persons: For more information about the project, please contact: Associate Professor Oleksandr Frei, oleksandr.frei@medisin.uio.no or Professor Eivind Hovig, phone + 47 930 69 881, ehovig@ifi.uio.no

For questions regarding the recruitment system, please contact HR Adviser Therese Ringvold, e-mail: therese.ringvold@mn.uio.no

Apply here


Postdoctoral Research Fellow- Quantitative Biosciences

The Quantitative Biosciences department is looking for a passionate and talented Postdoctoral Researcher to join the in vivo Quantitative Biosciences team based in West Point, PA. Our company seeks to drive innovation and accelerate pre-clinical research and development by employing data and digital approaches. Towards this goal, the successful candidate will develop a bioinformatics workflow incorporating language and data mining, machine learning, as well as network analysis on existing literature and data to recommend the best in vivo vaccine research strategies.

The successful candidate will validate the predictability of their analysis in an experimental pre-clinical mouse model of vaccine efficacy. The extent of bacterial infection protection and immune responses elicited will be characterized in this animal model, providing a unique opportunity to do both in silico and bench work (in vivo and in vitro laboratory research). This is a highly collaborative project working across different functional teams encompassing data science, bioinformatics, immunology, infectious disease, and vaccinology.

Responsibilities:

  • Build novel natural language processing (NLP) and bioinformatics workflow, including network analysis, to guide and accelerate in vivo vaccinology research.
  • Evaluate and implement novel enabling technologies and methods as needed.
  • Directly test the application of your data science and machine learning products to real-world challenges using pre-clinical animal models of efficacy
  • Must be willing to perform in vivo studies and other related wet lab work.
  • Remain compliant with all company required trainings and safety regulations.
  • Ensure high quality data generation and proper documentation of experimental designs, protocols, and findings.
  • Work independently and collaboratively across multi-disciplinary teams
  • Drive project direction and publication strategy
  • Publish research findings in peer-reviewed journals, present at internal meetings and scientific conferences.

Education Minimum:

A PhD, with less than 2 years of prior postdoctoral experience, in bioinformatics or a similar discipline with relevant experience on natural language processing (NLP) models, information retrieval, semantic processing, and structured databases, knowledge graph or related techniques. Immunology or Biology background is highly preferred.

Apply here


Posted on August 16, 2023

Postdoctoral Researcher - Computational Biology

The Cui Lab for Systems Immunology research at the Harvard School of Dental Medicine and Harvard Medical School has openings for one or more computational postdoctoral researchers. The postdoc is responsible for driving forward computational biology projects based on the data generated from the lab under the guidance of the PI. Example work includes analyzing high-throughput genomic and/or clinical data from various immune-mediated conditions, such as oral and systemic inflammation, tumor immunity, host-pathogen interactions, and mouse models of diseases.

The postdoc will collaborate with both computational and experimental researchers in the lab, and will prepare figures and draft manuscripts based on the analyses. They are expected to carefully document their work and regularly provide progress updates to the PI. Individuals interested in the position are welcome to contact the PI as early as possible to arrange paperwork and funding. The laboratory is located in the heart of the Longwood Academic and Medical Area in Boston, MA.

Basic Qualifications:

- PhD in bioinformatics, computational biology, data science, computer science, or a
related quantitative field
- 2+ years of research experience in bioinformatics
- 1 or more first-author publications in bioinformatics
- Proficient with the UNIX/Linux environment
- Skilled in data analysis with R or Python
- Experience with code repository tools including GitHub
- Experience with single-cell multi-omic or microbiome analysis is a plus
- Knowledge of immunology is a plus
Interested applicants can send their cover letter, CV, and 2 contact references to Dr. Ang Cui , BASc, MSc, PhD @ ang_cui@hsdm.harvard.edu.

Assistant Scientist, Bioinformatics

Emory University is a leading research university that fosters excellence and attracts world-class talent to innovate today and prepare leaders for the future. We welcome candidates who can contribute to the diversity and excellence of our academic community.

JOB DESCRIPTION:

  • Under minimal supervision, the Assistant Scientist, Bioinformatics performs a wide range of highly technical and complex bioinformatics procedures.
  • Qualification for this position requires demonstrated expertise in designing and developing software, databases, and interfaces for analyzing and manipulating research data applications including expertise with simple programming using Perl/Python or Java, statistical programming, web-development, and database query through SQL.
  • This role collaborates with researchers to develop high throughput data processing and analysis capability.
  • Directs and guides database searches and the computational analysis of resulting data.
  • Provides direct technical support and helps guide, implement, and maintain further improvements to bioinformatics software, databases, and interfaces and works with the entire bioinformatics team to diagnose and fix related issues.
  • May assist in grant and other funding applications, as necessary and appropriate.
  • Demonstrated ability to function as part of a team.
  • Performs other responsibilities as required.

MINIMUM QUALIFICATIONS:

  • PhD in bioinformatics, computer science, biological or physical science and three years of experience. Experience prior to achieving the PhD will be considered.

Job Number 115949

Apply here


Posted on August 14, 2023

Bioinformatician

Stanford Center for Genomics and Personalized Medicine (SCGPM), situated in the heart of SF Bay Area, has an excellent opportunity available for a motivated bioinformatician.  This position within our bioinformatics core team will support our bioinformatics consulting services for faculty and researchers via the Genetics Bioinformatics Service Center (GBSC).  For examples of the projects we support, please visit http://med.stanford.edu/gbsc/baas.html.

The ideal person for this position is a bioinformatician who lives and breathes NGS data analysis and is passionate about learning. The successful candidate will have deep knowledge of NGS technologies, quality analysis for read alignment and variant calling (secondary analysis), and a large suite of analytical methods for discovering genetic components of human diseases (tertiary analysis).

Responsibilities will include: 

  • Meeting faculty members and researchers to evaluate their bioinformatics needs.
  • Conducting data analysis that meets quality standards of major peer-reviewed publications.
  • Providing faculty members and researchers with data, analysis protocols, figures, method descriptions, code, documentation, support, and anything else that might be needed to meet project goals.
  • Managing time and projects efficiently to support the analysis needs of multiple labs simultaneously.
  • Establishing, refining, and standardizing the process for bioinformatics analysis and validation.  Benchmark-driven development is expected, e.g., use of PrecisionFDA/Genome-in-a-Bottle for DNASeq analysis, or the use of well-characterized data or simulated data where commonly-used reference datasets do not exist.

DESIRED QUALIFICATIONS:

Masters in Bioinformatics or other scientific field.

 

EDUCATION & EXPERIENCE (REQUIRED):

Bachelor’s degree in scientific field and one year of related experience, or combination of relevant experience.

 

KNOWLEDGE, SKILLS AND ABILITIES (REQUIRED):

  • Solid analytical skills.
  • Strong written and oral English communication skills.
  • Computer skills, including word processing and spreadsheet applications.
  • Ability to understand scientific literature, experimental procedures and their limitations, and current needs of the research community.

Requisition ID 100294

Apply here


Postdoctoral scientist: Bioinformatics for single-cell multi-omics

A postdoctoral position is available for a computational biologist at the Center of Human Genetics, KU Leuven in the team of Prof. Thierry Voet. In this position you will be responsible for the development and implementation of data analysis strategies for single-cell multi-omics data integration. You will then also be able to apply these strategies to develop understanding of human aging and disease, in particular Parkinson’s disease. By integrating genomic, transcriptomic and epigenomic highly-dimensional data of individual cells using state-of-the-art statistical models and machine learning strategies we aim to answer key fundamental biological questions with potentially high impact in their respective fields.

The team of Prof. Thierry Voet is a highly multidisciplinary team developing and using cutting-edge molecular biology and computational methods to study single cells, to investigate human development, aging and disease biology. Prof. Thierry Voet is also the director of the newly founded KU Leuven Institute for Single Cell Omics (LISCO), that nucleates interdisciplinary research with a wide range of research groups. The Voet team also contributes to leading large-scale international communities.

Responsibilities

  • Develop and establish computational analysis methods for single-cell genomic, epigenomic (DNA methylation, open chromatin, chromatin conformation, histone modifications) and transcriptomic data integration methods.
  • Develop and establish computational analysis methods for spatial transcriptomic and multi-omics analyses.
  • Lead in the experimental design, data analysis and interpretation of large-scale single-cell and/or spatial multi-omics datasets in the context of human aging, Parkinson’s and other diseases, and coordinate with experimental biologists.
  • To play a key role in the publication of the results.
  • Report and communicate on progress in meetings.
Profile
  • MSc in Bioinformatics, Biostatistics, Artificial Intelligence, Computer Science or other relevant degree e.g. Bioscience Engineering with a Ph.D. in a relevant subject, e.g. Computational Biology, Functional Genomics, Genomics.
  • Motivation and ambition to make a personal contribution to single-cell omics research.
  • Extensive experience and in-depth knowledge of bioinformatics approaches for DNA and/or RNA next-generation sequence analyses.
  • Working proficiency in UNIX/Linux.
  • Proficiency in R, Bash and another script programming language (Python, Perl, Ruby, ...).
  • Knowledge of human genetics; genomics, epigenomics, transcriptomics and next-generation sequencing technologies and data types.
For more information please contact Prof. dr. Thierry Voet, mail: thierry.voet@kuleuven.be or dr. Katy Vandereyken, mail: katy.vandereyken@kuleuven.be.
You can apply for this job no later than August 31, 2023 via the online application tool

Posted on August 11, 2023

Postdoctoral Fellow in Functional Genomics

Berkeley Lab’s (LBNL) Environmental Genomics and Systems Biology (EGSB) Division is looking for a Postdoctoral Fellow to join the Comparative and Functional Genomics Group.

In this role, you will be a part of a newly funded project focused on developing a novel functional genomics platform. You will be a creative and devoted experimentalist, who is skilled in designing and interpreting high-throughput experiments to investigate the molecular mechanisms underlying plant-microbial interactions.

What You Will Do:

  • Develop a high-throughput functional genomics platform to characterize rhizobacterial gene functions.
  • Establish pooled assays to quantitatively and robustly characterize thousands of gene library members.
  • Perform molecular biology experiments including nucleic acid preparation/isolation, cell culturing, strain engineering.
  • Perform computational analysis on genomic sequence data.
  • Communicate findings through high-quality publications and posters/presentations.

What is Required:

  • A recent Ph.D. (within the last 1-2 years) in Cell Biology, Molecular Biology, Microbiology, or a related field.
  • In depth knowledge of Microbial Genetics and Physiology.
  • Expertise in the design and cloning of DNA constructs by Gibson Assembly and Golden Gate.
  • Excellent oral and written communication skills including the ability to organize/present technical reports and provide a proven track record of recent or pending scientific publications.
  • Demonstrated interpersonal skills including experience collaborating with a diverse interdisciplinary research team.

Desired Qualifications:

  • Experience in cutting-edge experimental approaches including high-throughput screening, CRISPR technology, genetic engineering, synthetic biology.
  • Experience with plant-microbe interactions in a laboratory environment.
  • Experience working with non-model bacteria.
  • Demonstrated ability to code in Python, R, or similar programming languages.
  • Experience with Illumina Next Generation Sequencing (NGS) execution and data analysis.

For first consideration, please apply with a curriculum vitae (CV) or resume by August 13, 2023.

Apply here


Postdoctoral Research Associate- Computational Biology & Bioinformatics

The Postdoctoral Research Associate will have a responsibility for conducting computational biology and bioinformatics research in the areas of genomics, microbiome analysis, and microbial ecology. The candidate will join Professor Shibu Yooseph’s Computational Biology research group in the Kravis Department of Integrated Sciences at Claremont McKenna College.

An ideal candidate will have a background in the computational sciences, and will lead the development, implementation, and application of combinatorial and machine learning algorithms to analyze microbiome data. This position involves knowledge of algorithms design, computer programming, and biological data analysis. Candidates who aspire to establishing themselves as independent researchers and innovative teachers are strongly encouraged to apply.

DESCRIPTION OF DUTIES AND RESPONSIBILITIES

  • Lead the design, implementation, and evaluation of algorithms to analyze microbiome data, including 16S ribosomal RNA sequence data and metagenomic sequence data. The main biological questions pertain to understanding microbial community composition, function, evolution, and interactions, and biomarker identification. Computational areas of interest include metagenome assembly, homology detection, biological sequence database representation and searching, omics data integration, mixture modeling, sparse network inference, and phylogenetics.
  • Lead the preparation, writing, and publication of research manuscripts presenting the findings of the research questions. Participate in professional development activities including presenting research findings at seminars and conferences. Responsible for the management and organization of microbiome datasets, and for the management of computer code generated by the research projects.
  • Serve as a mentor or co-mentor for undergraduate students on research projects. Help train new research associates. Work in a collaborative, flexible, and team-focused manner.
  • Perform other essential duties and tasks specific to the position and other duties as assigned.

QUALIFICATION STANDARDS:

EDUCATION:  A Ph.D. in Computer Science, Computational Biology, Bioinformatics, Mathematics, Artificial Intelligence, Machine Learning, or other computational sciences.

EXPERIENCE:  Research experience (3-4 years) in algorithm design and in the analysis of sequence data obtained from various next-generation DNA sequencing technologies.

REQUIRED KNOWLEDGE, SKILLS, and ABILITIES:Individual must possess knowledge, skills, and ability to be able to successfully perform the essential functions of the position.

  • Background in algorithms design and implementation. Familiarity or background in machine learning algorithms.
  • Strong programming background. Programming languages include R, Python, or C/C++.
  • Demonstrate effective, accurate and clear communication with excellent verbal, written, and interpersonal skills.
  • Demonstrate a commitment to teaching, mentoring, and inspiring students representing a broad range of socioeconomic backgrounds, political opinion, genders, races, ethnicities, nationalities, sexual orientations, and religions.

START DATE: This is a two-year position. We are looking to fill this position immediately, with a latest start date of January 1, 2024.

Apply here


Posted on August 08, 2023

Bioinformatics Analyst / Data Scientist

The Data Sciences Program of the Linda Crnic Institute for Down Syndrome at the University of Colorado Anschutz Medical Campus in Aurora has openings for Bioinformatics Analysts / Data Scientists at the Research Services Senior or Principal level. Successful applicants will become integral members of a collaborative team researching various aspects of Down syndrome using multiple omics-based approaches.

Key Responsibilities

  • Working collaboratively with other members of the team to provide high-level, professional, and scientifically rigorous data management and bioinformatic analyses.
  • Developing and implementing complex analysis pipelines, programming, and data visualization techniques for multi-layered -omics datasets (transcriptome, epigenome, proteome, microbiome, etc.).
  • Creatively and effectively integrating data from multiple sources to accelerate discoveries.
  • Thinking independently and creatively to identify and implement best-practice bioinformatic and data management solutions.
  • Creating and disseminating tools for all team members to access relevant clinical and sample data.

Minimum Qualifications

Senior Level:

  • Bachelor’s degree in Bioinformatics, Biostatistics, Computational Biology, Data Science, Computer Science, or related field.
    • A combination of education and related technical/paraprofessional experience may be substituted for the bachelor’s degree on a year for year basis.
  • Two (2) years data management and bioinformatic analyses experience.

Principal Level:

  • Bachelor’s degree in Bioinformatics, Biostatistics, Computational Biology, Data Science, Computer Science, or related field.
    • A combination of education and related technical/paraprofessional experience may be substituted for the bachelor’s degree on a year for year basis.
  • Three (3) years data management and bioinformatic analyses experience.

Questions should be directed to: Anne Fiala; anne.fiala@cuanschutz.edu

For details click here


Postdoc Bioinformatics in (single cell) transcriptomic and (epi)genomic analyses

The Princess Máxima Center for Pediatric Oncology is the Dutch research hospital for children with cancer. The institute houses an increasing number of research groups, which aim to develop cures with minimal long-term side effects for all children with cancer. The Kool group, headed by Prof. Dr. Marcel Kool studies the genomics and epigenomics of pediatric brain tumors and how to translate findings from these studies into novel therapies.

Profile

We are looking for a highly motivated, self-managing postdoc with a strong interest in (tumor) biology and expertise in bioinformatic analyses of large multi-omic datasets. You have great communication skills and the ability to work independently as well as collaborative in multidisciplinary and multicultural research teams. Next to that, you are well-organized and detail-oriented. A flexible work attitude and good data management skills are important for this position.

Furthermore:

  • You are a PhD with a strong background in bioinformatics, genomics/ genetics, or related disciplines.
  • You have experience with programming and analysis of (single cell) transcriptomic and (epi)genomic data.
  • You master the English language, both oral and written.

For details click here


Posted on August 05, 2023

Postdoctoral Research Associate - Cheminformatics/ Bioinformatics

The Skinnider Lab at Princeton University (https://ludwigcancer.princeton.edu/people/michael-skinnider) aims to recruit between 1 to 3 postdoctoral or more senior research positions to work on projects related to machine-learning for mass spectrometry-based metabolomics data. Positions are available starting September 2023, and will remain open until excellent fits are found.

 

Successful candidates will develop and apply artificial intelligence/machine learning (AI/ML) approaches to identify known and unknown molecules within mass spectrometry data. They will have an opportunity to lead and contribute to a range of exciting projects: for example, translating tandem mass spectrometry data (MS/MS) into chemical structures to enable de novo annotation of unknown metabolites, or developing machine-learning workflows to preprocess LC-MS experiments. Opportunities are also available to support the development of an independent research agenda that is congruent with the interests and goals of the laboratory. The scope of the work builds on recent publications from the laboratory, e.g. integrating language models with mass spectrometry data (https://www.nature.com/articles/s42256-021-00407-x, https://www.nature.com/articles/s42256-021-00368-1) developing bio- and cheminformatic tools to discover bacterial natural products (https://www.nature.com/articles/s41467-020-19986-1, https://www.nature.com/articles/nchembio.2018), or executing repository-scale meta-analyses of mass spectrometric datasets (https://www.nature.com/articles/s41592-021-01194-4).

 

The research is entirely computational in nature, but requires interacting closely with experimental collaborators and their datasets. Many of the problems are constrained by inherently low-quality or noisy data, and candidates will therefore be expected to be engaged in data preprocessing and curation in addition to model development and evaluation.

 

This opportunity will prepare incumbent(s) for a range of competitive positions in academia or industry that involve computational biology/chemistry, machine-learning for biological data, and drug discovery/design. Mentorship is taken seriously and every effort will be made to ensure the candidate is able to achieve goals in the next stage of their career.

The successful candidate will be motivated, independent, and have strong written communication skills. Candidates are required to have experience in one or more of the following areas as demonstrated through at least one first-author publication: computational biology/bioinformatics, cheminformatics, analytical chemistry/mass spectrometry/metabolomics, or machine learning/computer science. Appointments are for one year with the possibility of renewal pending satisfactory performance and continued funding. Individuals should have or be expected to have a PhD with appropriate research experience in computational biology, chemistry, biochemistry, computer science, biological engineering, or a related field.

 

To apply online, please visit https://www.princeton.edu/acad-positions/position/31201 and submit CV and cover letter. Cover letter should highlight 1-3 publications or preprints that you feel best address the requirement for experience in above-mentioned areas. Please also include contact information for three references. Qualified candidates who pass an initial screening may be provided with short programming exercises to assess their skills. Only suitable candidates will be contacted.


Bioinformatics Support Technician

The role of the Bioinformatics Support Technician is to provide technical management for undergraduate teaching computer laboratories using a broad range of bioinformatics analysis platforms, assist in the use of bioinformatics analysis platforms in research, where appropriate and as time allows and to act in other flexible technical roles within the School/Faculty as might reasonably be required.

To be successful in the role you will have:

  • Experience with administration of Linux and Unix operating systems.
  • Bachelor's Degree (NZQA Level 7) in Bioinformatics, Computer Science or related field.
  • Experience with programming/coding usage across multiple programming languages (e.g., Linux, Bash, R, Shell, Git, Java, Python, Perl)
  • A good knowledge of Health and Safety procedures, legislation and obligations to other staff, students and visitors.
  • A willingness to understand bicultural issues and the Treaty of Waitangi.
  • Able to follow instructions/guidance and work in a team environment.
  • Work accurately and with attention to detail and excellent timekeeping skills.

Desirable skills include:

  • A minimum of 2 years relevant work experience including previous experience working in an appropriate relevant industry/environment and proven practical experience working in bioinformatics support.
  • Advanced knowledge of specialised platforms used in bioinformatic teaching and research.
  • Strong biostatistics, data analysis and database design skills
  • An understanding of biology (with particular emphasis on molecular biology and genomics)
  • A proven ability to communicate effective both orally and in writing, such as scientific reports.

The closing date for this position is: 31st August 2023 (midnight, NZ time)

For details click here


Posted on August 02, 2023

Bioinformatician

The University of Adelaide is a uniquely rewarding workplace. The size, breadth and quality of our education and research programs - including significant industry, government and community collaborations - offers you a vast scope and opportunity for a long, fulfilling career.

The Faculty of Health and Medical Sciences contains one of Australia's largest concentrations of leading health researchers, teachers and clinical titleholders. It's comprised of eight schools and a number of specialist disciplines, institutes and centres, variously focused on world-class research, and training the next generation of: medical doctors; surgeons; dentists; nurses; psychiatrists; psychologists; and other health professionals.

his position is located within the team of Associate Professor Luciano Martelotto at the recently founded Adelaide Centre for Epigenetics (ACE). We are inviting high-achieving postdoctoral researchers to join the newly formed Martelotto Single Cell and Spatial-Omics Laboratory. The collaboration will concentrate on applying and developing new computational methods in the respective field.

ACE, a fresh addition to the Faculty of Health and Medical Sciences, emphasizes research on epigenetics and cell fate, including studies on development, reprogramming, and cancer. Furthermore, ACE is set to collaborate with the newly founded South Australian immunoGENomics Cancer Institute (SAiGENCI), an institution aiming to be the state's premier cancer research institute.

For further information

For a confidential discussion regarding this position, contact:

Associate Professor Luciano Martelotto
Head, Development Laboratory, Adelaide Centre for Epigenetics
E: luciano.martelotto@adelaide.edu.au

For details click here


Postdoctoral Scholar: Genetics, Genomics and Bioinformatics

The biomedical data science lab (https://www.cuilab.net) at University of Tennessee Health Science Center is looking for highly motivated candidates for a Postdoctoral Scholar position. The successful candidate will have the opportunity to develop innovative machine learning strategies for equitable genomic medicine. Our goal is to prevent or reduce new heath disparities arising from biomedical data inequality, by obtaining key knowledge and creating open resources to establish a new paradigm for machine learning with multiethnic biomedical data.

The University of Tennessee Health Science Center is the flagship statewide, public, academic health institution in Tennessee. Founded in 1911, the mission of the University of Tennessee Health Science is to improve the health and well-being of Tennesseans and the global community by fostering integrated, collaborative, and inclusive education, research, scientific discovery, clinical care, and public service. Employing more than 4,600 people on its faculty, staff, and not-for-profit corporation faculty practice groups, and with more than 3,200 students across the state, UTHSC contributes $4 billion to the economy of Tennessee.

Qualifications

Ph.D. in Computational Biology, Computer Science, Statistics, or a related field.

Expertise in machine learning and bioinformatics is required

Research experience in biomedical data analysis is a significant plus.

Applicants should have a demonstrated commitment to and knowledge of equal employment opportunity and affirmative action.

For details click here


Posted on July 28, 2023

Bioinformatics Analyst II

The University of Maryland School of Medicine - Institute for Genome Sciences (IGS) is currently recruiting for a Bioinformatics Analyst II.

Formed in May 2007, the Institute for Genome Sciences is part of the University of Maryland School of Medicine (UMSOM) and is located on the University of Maryland Baltimore (UMB) Campus.

The Institute is lead by Interim Director Jacques Ravel, Ph.D. Members of the IGS team have helped to revolutionize genomic discoveries in medicine, agriculture, environmental science and biodefense. By applying genomic tools to clinical research, these investigators are creating new dynamics for understanding individual differences in our susceptibility to disease, for understanding the role of our bodies microorganisms in health and disease, and for exploring new personalized therapeutics.

Primary Duties:

  • Contribute to genomic research projects and scientific analysis of the data generated by those projects using a variety of database and software applications. Generate, annotate, gather or analyze data and prepare for further analysis, and research.
  • Following established procedures or specific scientific protocols, add value to data generated by genome sequencing projects through assembly, annotation, curation, and quality assurance.
  • Perform preliminary analysis of genomic data and format for use by other analysts or scientists.
  • Integrate and analyze data from genome sequencing projects, functional genomics analysis, and other school of medicine research projects.
  • Organize genomic data with other relevant data types into databases, displays, or graphic presentations for publication and web presentation.
  • Participate in community outreach and training.
  • Performs other duties as assigned.
Qualifications

Education: Bachelors in Life Sciences, including fields, i.e., Biology, Molecular Biology, Genetics, Biochemistry, or Bioinformatics.

Experience: Two (2) years genomic research analysis experience in Windows and UNIX-based operating systems.

Other: Master’s degree in a related field is preferred and may be substituted for two (2) years of experience.

Hiring Range: 89,000 - 95,000 (Commensurate with education and experience)

Job: Reg or CII Exempt Staff - E3317F

Employee Class : Exempt Regular

Full Time/Part Time: Full-Time

Shift: Day Job

Financial Disclosure: No

Organization: School of Medicine - Institute of Genome Sciences

Job Posting: Jul 27, 2023

Apply here


Sr. Research Specialist/ Bioinformatics Specialist

Johns Hopkins offers a total rewards package that supports our employees' health, life, career and retirement. More information can be found here: https://hr.jhu.edu/benefits-worklife/

We are seeking a Sr. Research Specialist/Bioinformatics who will be responsible for scientific and administrative activities of a telomere laboratory that has a broad scientific focus spanning molecular and genetic research. The candidate will be responsible for processing and cataloging of clinical study biospecimens, cell/tissue culture processes, support of laboratory projects, laboratory space and equipment upkeep, and teaching new lab members. The remaining time (approximately on average 30%) will be spent in analyses of genetic data (exome and whole genome sequencing) as well as somatic variant DNA analysis including working with lab members to optimize protocols for new sequencing methods and technologies.

Specific Duties & Responsibilities

  • Works closely with PI and collaborators to provide technical and logistic support for clinical sample processing, curation and storage.
  • Interacts with clinical affiliated lab including for sharing of bio-specimens for clinical research studies and interfacing with clinical bio-specimens workflow.
  • Reviews techniques and research protocols to ensure safety and reproducibility and issues recommendations. Ensure tracking inventory of basic laboratory supplies.
  • Performs and optimizes techniques for genotyping and DNA analyses including exome and genome sequencing for candidate gene variants and known variants.
  • Work with PI to optimization of new computational and bioinformatics workflow of analysis of human genetic data including using the Integrated Genome Viewer for somatic and germline mutation analyses and analyzing of prevalence and interpretation of DNA variants in large datasets.
  • Performs and teaches molecular techniques such as DNA, RNA and protein analyses including that derived from clinical research bio-specimens such as quantitative PCR, Western blotting, and molecular cloning.
  • Work with laboratory members to support laboratory vivarium colonies with emphasis on adhering to IACUC guidelines, genotyping and colony maintenance.

Minimum Qualifications

  • Bachelor's Degree in Biology, Chemistry or related field.
  • Four year's experience in a comparable laboratory performing relevant techniques.
  • Master's degree, with related graduate research, may substitute for experience to the extent permitted by the JHU equivalency formula.

Preferred Qualifications

  • Excellent record keeping, organizational, written and verbal skills.
  • Able to set up assays and conduct technical troubleshooting analysis.
  • Able to analyze data and provide a critical interpretation of results.
  • Ability to handle multiple priorities in a fast-paced environment.
  • Knowledge of basic mammalian genetics and experience with computational skills to analyze genetic data including next generation sequencing data.

Apply here


Posted on July 26, 2023

Data Scientist - Bioinformatics

Location: The University of Texas MD Anderson Cancer Center

We seek a talented, energetic, and collaborative bioinformatician to design bioinformatics pipelines and analyze multi-platform data as part of the development of our flagship platform A 3 D 3 a: Adaptive, AI-augmented, Drug Discovery and Development. With expertise in genomics and the design and deployment of bioinformatics tools, the Data Scientist - Bioinformatics will inform our mission to discover novel therapies for cancer patients.

Led by Prof. Bissan Al-Lazikani, Director of Therapeutics Data Science, the intelligent and ever-learning A 3 D 3 a platform is part of the new initiative in Therapeutics Data Science and part of our ambitious Institute for Data Science in Oncology at MD Anderson. A 3 D 3 a will accelerate the discovery and impact of novel therapies for cancer by enabling novel opportunities for optimized therapies for patients with a focus on rare and hard-to-treat cancers through the development of novel machine learning and AI technologies.

JOB RESPONSIBILITIES

  • Carry out preparation, clean-up, and quality control of biological data, including whole exome sequencing, whole genome sequencing, and RNA sequencing from both bulk and single-cell datasets
  • Develop and maintain pipelines for bioinformatics and statistical analyses of aforementioned data types; activities to include handling raw data, evaluating outputs, optimizing parameters and summarizing findings
  • Deploy bioinformatics pipelines in high performance computing environments
  • Visualize data and interpret results, including implementation of approaches such as variant calling, functional annotation, gene set enrichment, and pathway annotation
  • Maintain knowledge of latest bioinformatic approaches and genomic technologies and implement these where appropriate
  • Present results at multidisciplinary project meetings
  • Produce output for scientific publications and co-author said publications
  • Prepare written reports, manuscripts, and grant applications with investigators
  • Work closely with the team and collaborators to discover novel therapeutic opportunities for cancer patients

EXPECTED SKILLS

  • Deep knowledge of bioinformatics tools and their implementation as part of pipelines, particularly for whole genome sequencing, whole exome sequencing, and RNA sequencing data, in both bulk and single-cell contexts
  • Demonstrated experience and understanding of genomic technologies and analysis of data generated
  • Analyzing and interpreting outputs to identify insights and hypotheses from data
  • Understanding of essential statistical methodologies required for bioinformatics analyses
  • Addressing challenges in bioinformatics as well as mitigation strategies including bias, batch correction, etc.
  • Applying data clustering (e.g., t-SNE, UMAP, novel approaches) and basic machine learning techniques to complement bioinformatic analyses
  • Utilizing High Performance Computing to run large-scale analyses
  • Deploying pipelining tools (e.g., Nextflow or similar)
  • Unix, R, Python or other scripting/programming languages

EDUCATION:
Required: Bachelor's degree in Biomedical Engineering, Electrical Engineering, Computer Engineering, Physics, Applied Mathematics, Science, Engineering, Computer Science, Statistics, Computational Biology, or related field.

Preferred: PhD in Natural/Medical sciences or computational biology, ideally with postdoctoral experience

EXPERIENCE:
Required: Three years experience in scientific software development/analysis. With Master's degree, one years experience required. With PhD, no experience required.

Requisition ID: 157058

Apply here


Post-Doc Position in Proteomics

Host laboratory: The Mass Spectrometry for Biology Lab https://research.pasteur.fr/en/team/mass-spectrometry-for-biology/) headed by Julia Chamot-Rooke is a mixed Institut Pasteur/CNRS Unit. The main research axes of the Unit are: top-down proteomics and structural proteomics (in particular cross-linking mass spectrometry) with major applications in the field of infectious diseases. It is equipped with five Orbitrap mass spectrometers, including an Orbitrap Eclipse with UVPD and ETD and an Orbitrap HF modified with an Omnitrap and equipped with a FTMS Booster.

Candidate’s profile: PhD (or post‐doc) in biological mass spectrometry or proteomics. Knowledge in sample preparation, mass spectrometry and in the bioinformatic tools used in proteomics is required. A first practical experience in top-down proteomics and/or Orbitrap MS or in antibody analysis would be a plus. Good communication, interpersonal skills and experience in presenting concepts and data in oral and written formats (English is necessary).

Gross Salary: 36-43 k€ / year depending on the experience of the candidate and including health insurance and paid annual leave

Project. The project aims at developing new methods for the top-down proteomics analysis of intact antibodies. The developments will be undertaken in the framework a project recently funded by the French Research Agency in collaboration with Spectrotech, a small company expert in signal processing and FTMS data analysis.

If you are interested, please send a CV and motivation letter to Julia Chamot‐Rooke (julia.chamot-rooke@pasteur.fr).

For details click here


Posted on July 24, 2023

Postdoc Researcher in Computational Biology

The postdoctoral researcher will work on the EOSC4Cancer project. EOSC4Cancer research and innovation action aims to connect a set of interoperable nodes, e.g. European Cancer Centres, Research Infrastructures, Medical Centres, that provide access to FAIRified cancer-related data within (a) trusted users environment(s). The selection of data and their connectivity will be driven by key use-cases that demonstrate the value at all stages along the cancer patient journey, and served in the visualization and analysis environments they are familiar with.
This project aims to make cancer genomics, imaging, medical, clinical, environmental and socio-economics data accessible, using and enhancing existing federated and interoperable systems for securely identifying, sharing, processing and reusing FAIR cancer data across borders, and it will offer them via community-driven analysis environments. EOSC4Cancer provision of well curated datasets will be essential for advanced analytics and computational methods to be reproducible and robust, including machine learning and artificial intelligence approaches. EOSC4Cancer use-cases will cover the patient journey from cancer prevention through to diagnosis and treatment, laying the foundation of data trajectories and workflows for future cancer mission projects.

The postdoctoral researcher will work in the “Computational Biology and Bioinformatics” team (IBGC, CNRS, Bordeaux - France) under the supervision of Macha Nikolski (WP3 co-lead). Strong collaboration with other teams within the project is expected, in particular with the team of Pr. Eivind Hovig, University of Oslo (co-lead of WP3).

The postdoctoral researcher will specifically contribute to the advancement of cancer data analysis portals - goal of the WP3 in the EOSC4Cancer project. The Postdoctoral Scientist will be expected to lead the development and application of computational methods for analysis of single-cell multi-omics and spatial omics data, in the context of biological studies of different diseases, and in particular of cancer (e.g. glioblastoma). Particular emphasis will be placed on deciphering cell communications, control of proliferation within tissues, as well as metabolic regulation of individual cells. Successful candidate will collaborate with experimental groups both within the IBGC (T. Daubon) and within the EOSC4Cancer project, contribute to planning experimental designs, author and contribute to biological and methodological manuscripts, and contribute to seminars and other scientific initiations within the lab as well as a wider scientific community.

The successful candidate will work in the Computational Biology and Bioinformatics team of the IBGC under the direction of Dr Macha Nikolski. Strong interactions and collaboration is expected with other labs of the EOSC4Cancer project.

Eligibility criteria

We are looking for a highly motivated individual who has a passion for driving science through technology, has a strong taste for teamwork, and excellent communication skills that will thrive in our team to deliver best results. A successful candidate will have the following skills or experience:
Ph.D. degree in Bioinformatics, Computer Science, Biostatistics, Applied Mathematics or related discipline.
Hands-on experience in processing and analyzing Next Generation Sequencing data (DNA-Seq & RNA-Seq) for health-related applications.
Understanding of main cancer data analysis (e.g. variant calling and annotation, biomarker identification)
Proficiency in Python and R.
Prior experience in software development.
Knowledge of pipeline managers/workflow systems (e.g. Galaxy, Snakemake)
Docker and/or Singularity experience
Experience in machine learning would be a plus.

Application Deadline : 10 August 2023

Apply here


Postdoctoral Associate- Genomics

Division:  Human Genome Sequencing Center
Schedule:  Monday - Friday
Work Location:  Houston, TX
Salary Range:  Per NIH Guidelines
FLSA Status:  Exempt
Requisition ID:  16567

Summary

The Human Genome Sequencing Center (HGSC) at Baylor College of Medicine was founded in 1996 under the leadership of Dr. Richard Gibbs and is a world leader in genomics. The primary mission of the HGSC is actionable translational research across the full spectrum of human health and disease using large-scale genomic data to drive collaborative analytics, gene-phenotype discovery, and clinical innovation. The HGSC is funded from multiple National Institutes of Health sources, including the All of Us Research Program (AoURP) as a Genome Center, the Gregor Consortium to elucidate the genetics of rare disease funded by the National Human Genome Research Institute (NHGRI) and as a sequence technology core for the Texas Medical Center Genomic Center for Infectious Disease (GCID) established by the National Institute for Allergy and Infectious Diseases (NIAID). Being a premier large-scale sequencing center, the HGSC provides a unique opportunity to work on the cutting edge of genomic science in a state-of-the-art institution.

As part of a new National Institutes of Health Common Fund program called the Somatic Mosaicism across Human Tissues (SMaHT) Network, BCM-HGSC will establish a genome characterization center (GCC) for the consortium. The GCC will use existing state-of-the-art methodologies and tools as wells a develop new ones to catalog the extent of somatic mosaicism in different cell types, tissues and life stages, to better understand how much somatic mosaicism influences human biology and disease. The Baylor College of Medicine Human Genome Sequencing Center is seeking to recruit a Postdoctoral associate to work on SMaHT project and related activities.

Job Duties

  • Plans, directs and conducts specialized and advanced research experiments.
  • Establishes new laboratory research protocols and procedures. Evaluates different library and sequencing methodologies and analyzes data.
  • Tests, optimizes and scales up new DNA, RNA library and sequencing protocols.
  • Summarizes research findings and publishes results in research journals.
  • Conducts literature searches and summarizes information in an appropriate format for a particular study.
  • Reviews quality control checks on sequencing data, troubleshoots any technical issues, and ensures data integrity throughout the process.
  • Documents results of experiments and generate reports and present in internal and external meetings.
  • Supervises, schedules, and coordinates the activities of less experienced research staff.

Minimum Qualifications

  • MD or Ph.D. in Basic Science, Health Science, or a related field.
  • No experience required.

Preferred Qualifications

  • Strong experience in new laboratory genomics method development; somatic mutation sequencing; duplex sequencing.
  • Hands on experience in qPCR, ddPCR.
  • Familiarity with bioinformatics tools.

Apply here


Posted on July 19, 2023

Postdoctoral Scholar - Department of Genetics, Genomics and Bioinformatics

The University of Tennessee Health Science Center is the flagship statewide, public, academic health institution in Tennessee. Founded in 1911, the mission of the University of Tennessee Health Science is to improve the health and well-being of Tennesseans and the global community by fostering integrated, collaborative, and inclusive education, research, scientific discovery, clinical care, and public service. Employing more than 4,600 people on its faculty, staff, and not-for-profit corporation faculty practice groups, and with more than 3,200 students across the state, UTHSC contributes $4 billion to the economy of Tennessee.

The biomedical data science lab (https://www.cuilab.net) at University of Tennessee Health Science Center is looking for highly motivated candidates for a Postdoctoral Scholar position. The successful candidate will have the opportunity to develop innovative machine learning strategies for equitable genomic medicine. Our goal is to prevent or reduce new heath disparities arising from biomedical data inequality, by obtaining key knowledge and creating open resources to establish a new paradigm for machine learning with multiethnic biomedical data.

Qualifications

Ph.D. in Computational Biology, Computer Science, Statistics, or a related field.

Expertise in machine learning and bioinformatics is required

Research experience in biomedical data analysis is a significant plus.

Applicants should have a demonstrated commitment to and knowledge of equal employment opportunity and affirmative action.

Apply here


Bioinformatics Analyst I - Multi - Omics

Division:  Center for Precision Environmental Healt
Schedule:  Monday - Friday; 8:00 AM - 5:00 PM
Work Location:  Texas Medical Center, Houston, TX
Salary Range:  $54,950 - $70,000
FLSA Status:  Exempt
Requisition ID:  16412

Summary

The laboratory of Dr. Cheryl Walker at Baylor College of Medicine is looking for a Bioinformatics Analyst I who will assist in cancer and genetic related multi-omics bioinformatics. The successful candidate will work primarily in prostate cancer, liver cancer, and kidney cancer related analysis. The Bioinformatics Analyst I will bridge high-throughput data gerneration, data analysis, and molecular biology to integrate multi-modal molecular signatures in normal human and disease populations using bioinformatics and computational techniques and concepts.

Job Duties

  • Utiilizes molecular biology and use of state-of-the art analysis pipelines.
  • Analysis will further incorporate advanced genome editing and data science techniques such as deep learning and classification to identify potential disease drivers or biomarkers, repurposable drugs, and novel clinical associations of molecular profiles.
  • Manages, plans for, and analyzes genomics data to ensure objectives are met as required by project or supervisor.
  • Uses various computational analyses and biological interpretation of results to review existing data and propose improvements.
  • Reviews existing multimodal omics signatures, publicly available datasets, propose and execute integrative analysis.
  • Interprets results from similarity searches and integration of investigator and publicly available datasets.

Minimum Qualifications

  • Bachelor's degree in Genetics, Biology, Bioinformatics, Biostatistics, Computational Biology, Computer Science, or a related field.
  • No experience required

Preferred Qualifications

  • Master’s degree in a related field.

Apply here


Posted on July 14, 2023

Research Assistant/ Associate (Bioinformatics in Pathogen Genomics)

Location: SSHSPH, Kent Ridge Campus, SG

Company: National University of Singapore

Job Description

Research Assistant /Associate (Bioinformatics in Pathogen Genomics)

Job Description
A Research Assistant/Associate position is available in the Saw Swee Hock School of Public Health to support the Principal Investigator in research projects in the areas of bioinformatics and pathogen genomics.

The Research Group focuses on the development and application of Bioinformatics algorithms and tools in the analysis of pathogen genomics for public health surveillance, particularly in the areas of tuberculosis and antimicrobial resistance.

The candidate will be working on the development and application of a data structure known as pan-genome graphs to represent the population structure of pathogen genomes for genomic surveillance and identification of clusters, which may indicate disease transmission. The candidate may also be tasked to work on ad-hoc activities in programming and/or data analysis for other research projects within the research group.

Duties and Responsibilities
The candidate is expected to contribute and assist the Principal Investigator in:
• Literature review
• Data collection and curation
• Software development (Python and/or R)
• Data analysis
• Report(s) writing including presentations and manuscripts
• Assistance in project administration

Requirements
• Proficient in programming languages, especially Python (preferred) and R
• Background in bioinformatics and/or graph theory is essential
• Excellent written and oral communication skills
• Good organization and administrative skills
• Independent mature worker, able to work effectively with colleagues to achieve team goals
• Knowledge of infectious disease is preferred but not essential

Qualifications
• Bsc/Msc degree in a quantitative discipline (bioinformatics, computational biology, computer science, statistics, mathematics, data science) OR
• Bsc/Msc degree in biological or life sciences with demonstrated quantitative skills/competence in programming and/or statistics.

Qualifications

Qualifications
• Bsc/Msc degree in a quantitative discipline (bioinformatics, computational biology, computer science, statistics, mathematics, data science) OR
• Bsc/Msc degree in biological or life sciences with demonstrated quantitative skills/competence in programming and/or statistics.

Apply here


Bioinformatician Single Cell Analysis and Spatial Transcriptomics

The Functional Genomics Center Zurich (FGCZ) is a joint core facility of the ETH Zurich and the University of Zurich that applies the latest omics technologies for biomolecular research and personalized medicine. The FGCZ Genome Informatics group supports researchers with the analysis and interpretation of large-scale datasets, in particular next generation sequencing (NGS) data. The team covers raw data processing, high-performance computing, statistical evaluation, interpretation, and integrated analysis. The team runs an excellent open source based software environment and establishes state-of-the-art data analysis concepts and algorithms.

Job description

You will extend the existing team and closely collaborate with researchers at ETH Zurich and University of Zurich. The main responsibilities will be the reproducible analysis, visualisation and interpretation of multi-omics datasets with a focus on single-cell sequencing and spatial transcriptomics. You will use and extend existing analysis workflows. Additionally, you will advise researchers of ETH Zurich and University of Zurich on experimental design and data analysis strategies.

Your profile

  • PhD degree in bioinformatics or a related field
  • proficient in NGS data analysis with very good scripting skills
  • good understanding of biological research questions
  • highly communicative, team-oriented
  • enthusiastic about statistical and bioinformatics data analysis
  • service-oriented and ready to keep up with the constant developments in the field
  • advanced knowledge of English
  • working experience with GNU/Linux operating system
  • in depth knowledge of R/Bioconductor and/or python

Apply here


Posted on July 12, 2023

Postdoc in -omics integration and cardiometabolic diseases

We are looking to hire a highly motivated and talented Postdoc Fellow with experience in integrating large-scale data and with an interest in cardiometabolic diseases and/or precision nutrition to commence on January 1, 2024, in the Guasch Group at the Section of Epidemiology, Department of Public Health and the Novo Nordisk Foundation Center for Basic Metabolic Research (CBMR), University of Copenhagen. The position is a 3-year position.

The Postdoc fellowship is part of  CBMR International PhD & Postdoc Program.

The Novo Nordisk Foundation Center for Basic Metabolic Research’s vision is to strengthen interdisciplinary research that transforms our basic understanding of the mechanisms that underlie cardiometabolic health and disease, and to accelerate this knowledge toward new prevention and treatment strategies. We were established in 2010, and in 2017, we moved into new laboratories and offices in the Maersk Tower. The Center has around 260 employees who work in an international, highly collaborative research environment across a range of biomedical disciplines. For more information, visit www.cbmr.ku.dk.

The successful candidate will join a research group that is focused on investigating the role of dietary and lifestyle factors in cardiometabolic diseases in an interdisciplinary and international research environment. They will primarily work with high-throughput -omics data, including but not only metabolomics and genetics, to be integrated into traditional epidemiological analyses to gain insights into underlying mechanisms that may explain the link between environmental factors in relation to common cardiometabolic disease outcomes, such as type 2 diabetes and cardiovascular disease. The candidate will design new and/or nested studies leveraging complex and big data from existing cohorts and national registries applying novel machine learning methods.

Required qualifications:

  • PhD in Epidemiology, Bioinformatics, Data Science, Molecular Biology, Biomedicine, or related sciences.
  • Excellent scientific track record in relation to career stage showing scientific productivity in peer-reviewed journals.
  • Profound knowledge of analyzing data, interpreting results, and concisely summarizing key messages.
  • A strong computational background and expertise in dealing with large and complex datasets.
  • An active interest in nutrition, lifestyle, metabolomics, genomics, cardiometabolic diseases, and/or precision health.
  • Excellent English communication skills, both written and oral.
  • A team player, and “can do” attitude.

For further information about the position, please contact Associate Professor Marta Guasch- Ferré at marta.guasch@sund.ku.dk. Questions regarding the CBMR International PhD & Postdoc Program must be directed to cbmr@sund.ku.dk. For questions regarding the recruitment procedure, please contact HR at sund-hr-cbmr@sund.ku.dk.

Application deadline: July 16, 2023, at 23.59pm CET.

Apply here


Postdoctoral Research Associate - Genetics/ Bioinformatics

Postdoctoral Research Associate position open in Dr. Guoyan Zhao’s laboratory (https://sites.wustl.edu/zhaolab/ ) in the Department of Genetics and Department of Neurology at Washington University School of Medicine. The Zhao laboratory employs multiple cutting-edge technologies in genomics and computational biology to investigate the development and function of mammalian brains in the context of human health and disease. Current areas of interest include applying single-nucleus RNA-sequencing and spatial transcriptomics/proteomics technologies on human brain with the goal of understanding disease pathogenesis of Alzheimer disease (AD), Parkinson disease (PD), and Lewy body diseases (LBDs). We are also part of the NIH Helping to End Addiction Long-term (HEAL) Initiative. The goal of the massive effort is to identify science-based solutions to the opioid crisis. We will study human genes and nerve cells using cutting-edge single-cell.

The position requires working collaboratively with a team of experimental and computational biologists focused on single-nucleus RNA-seq data analysis and “multi-omics” data integration with a main goal to identify genetic markers and mechanisms of neurological and neurodegenerative diseases that will lead to better disease diagnosis, treatment and eventually cure. The candidate will be responsible for leading and carrying out these innovative projects, assist with grant preparation and reporting, and prepare and submit papers for publication. The successful candidate will have opportunities to travel and to present at national and international conferences.

Required Qualifications

  • This interdisciplinary research requires both biology/neuroscience and bioinformatics/statistics knowledge.
  • Candidates should have a PhD (or equivalent doctorate) in Genetics, Neuroscience, Bioinformatics, Computational biology, Biostatistics, Statistical Genetics, Medical Statistics, or related areas.
  • Alternatively, an MD with appropriate prior research experience may apply.
  • There should be evidence of a strong quantitative research background with experience in programming and statistics.

Preferred Qualifications

  • Experience in Next-generation sequencing data analysis, large scale data analysis (RNA-seq, ChIP-seq, single cell RNA-seq), comparative genomics.
  • Experience with the relevant bioinformatics tools (e.g., Seurat, STAR, DESEQ2, etc.).
  • Proficiency in scientific programming languages (e.g., Perl, Python, R) in a Linux/UNIX and/or Windows environment.
  • Knowledge or experience in molecular biology. Knowledge of neuroscience and neurodegeneration is a plus.
  • Highly motivated, well organized with excellent oral and written communication skills.
  • Ability to work independently, as well as part of a team, establishing and maintaining good working relationships with P.I. and other members of the research group.

To ensure full consideration, interested candidates should send the following to gzhao@wustl.edu:

1) A cover letter explaining research interests and experience.

2) CV.

3) The name and contact information of three references.

Apply here


Posted on July 10, 2023

Postdoctoral Associate- Bioinformatics/ Cancer Genomics

Division:  Institute for Clinical and Translational
Schedule:  Monday - Friday, 8:00 a.m. - 5:00 p.m.
Work Location:  Houston, TX
Salary Range:  Per NIH guidelines
FLSA Status:  Exempt
Requisition ID:  16099

The Cheng Lab at Baylor College of Medicine is searching for highly motivated and talented postdoctoral candidates to work on Bioinformatics and Computational Biology in Cancer Genomics and Immunology. The position will be involved in the development and/or application of computational approaches to understand the mechanism of cancer development, progression, metastasis, and prognosis. The candidate should have experience in processing and analyzing data from the next-generation sequencing and single-cell technologies (e.g., scRNA-seq, scATAC-seq, scTR-seq, and/or spatial transcriptomics). Previous experience in both Bioinformatics/Genomics and Cancer Biology is desirable. A candidate is expected to collaborate closely with experimental biologists and clinicians.

The position offers an extraordinary team-based science environment with opportunities for significant education, training, and career development. Baylor College of Medicine is located at the Texas Medical Center, which is the largest medical complex in the world and provides an ideal environment for scientific and clinical research.

Job Duties

  • Contributes to the development and/or application of computational approaches to understand the mechanism of cancer development, progression, metastasis, and prognosis.
  • Collaborates closely with experimental biologists and clinicians.

Minimum Qualifications

  • MD or Ph.D. in Basic Science, Health Science, or a related field.
  • No experience required.

Preferred Qualifications

  • PhD degree in Computational Biology, Bioinformatics, or a related field (e.g. statistics, computer science, or quantitative biology)
  • Experience in the application and development of computational methods/tools or machine learning algorithms
  • Good computer programming skills in R/Matlab/Perl/Python/
  • Knowledge of basic molecular biology, genomics, and epigenetics
  • Experience in next-generation sequencing data and scRNA-seq data.

Apply here


Bioinformatics Specialist

We are seeking a Bioinformatics Specialist to join School of Biomedical Sciences, Faculty of Health, Academic Division.

The successful candidate will work as part of a USA government funded project “EMergent Ecosystem Response to ChanGE Biology Integration Institute”. The appointees’ primary role will be to assist in developing novel bioinformatic techniques and applying these workflows to the project’s large datasets (e.g. >4Tbp of metagenomes). Analyses will focus on understand ecosystem-climate feedbacks in Stordalen Mire, a thawing permafrost peatland in arctic Sweden. Rapid warming in the Arctic is driving permafrost thaw, and new availability of formerly-frozen soil carbon for cycling and release to the atmosphere, representing a potentially large but poorly constrained accelerant of climate change.

The Centre for Microbiome Research was established in 2020 by Professor Gene Tyson, an expert in the field of microbial ecology. Professor Tyson and his team are actively involved in the development of innovative culture-independent molecular approaches and bioinformatic tools, and their application to answer important questions about microbial communities across a range of ecosystems.

The team is made up of researchers with diverse expertise within microbial ecology and genomics, providing an intellectually robust and collaborative environment. The Centre is located within the Translational Research Institute (TRI), a unique multidisciplinary facility located at the Princess Alexandra hospital with a strong focus on translational research. This positions the team amongst top researchers and clinicians from diverse disciplines such as genomics, bioinformatics, immunology, oncology and gastroenterology, and provides the team with access to state-of-the-art core facilities.

What you need to succeed

 

  1. Education, training and/or relevant experience equivalent to the completion of postgraduate qualifications, or progress towards postgraduate qualifications in bioinformatics, computer science, phylogenetics, or microbial genomics.
  2. Strong, demonstrated ability to program in Python and/or other high- or low-level programming languages.
  3. Demonstrated experience and knowledge of Linux and common command line tools, and demonstrated proficiency in data analysis and interpretation.
  4. Demonstrated ability to work collaboratively within a multi-disciplinary team, along with proven ability to autonomously organise and prioritise tasks and workflows to meet project deadlines.
  5. High level communication skills, including clear and effective verbal communication, demonstrated written communication skills and strong interpersonal skills.
  6. Ability to problem solve, logically plan and coordinate research activities, and critically assess existing literature and methods.

Reference number: 23613

Term: Fixed term, full-time basis for 12 months

Remuneration: $87,917 to $119,296 pa (LEVA) (inclusive of $74,291 to $100,806 salary pa, 17% superannuation and 17.5% recreation leave loading)

Location: Translational Research Institute

Job opens: 07-Jul-2023

Applications Close: 30-Jul-2023 at 11.30pm

Apply here


Posted on July 02, 2023

An extensive resource for Bioinformatics, Epigenomics, Genomics and Metagenomics