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    BACKGROUND

    Professor Pandurangan Vijayanand's laboratory (www.lji.org/labs/vijayanand/) at the La Jolla Institute for Immunology (LJI) in San Diego is seeking a number of highly motivated postdoctoral candidates for positions in immunology, genomics and computational biology. The Vijayanand lab employs genomic tools, genetics and computational approaches to understand the immunological basis of human diseases.

    LOCALE

    The Institute hosts 20 world-renowned faculty and over 200 postdoctoral researchers hailing from 37+ different countries. LJI is located in the Science Research Park on the campus of UC San Diego, with easy access to the San Diego life sciences community and all that the area has to offer.

    COMPENSATION

    To be determined based on experience. Full-time employment at LJI includes a competitive salary, medical/dental/vision benefits, paid vacation/sick leave, and contributions to a retirement plan (403B).

    HOW TO APPLY

    Please review the following papers, and respond with your interest and CV to Research and Administrative Assistant Claire Roney (croney[at]lji.org) IN ADDITION TO completing the online application here: us59.dayforcehcm.com/Cand[...]w/457.

    Publications to Review:
    a. Kusnadi A, et al. Severely ill COVID-19 patients display impaired exhaustion features in SARS-CoV-2-reactive CD8+ T cells. Sci Immunol. 2021. PMID: 33478949.
    b. Meckiff BJ, et al. Imbalance of Regulatory and Cytotoxic SARS-CoV-2-Reactive CD4+ T Cells in COVID-19. Cell. 2020. PMID: 33096020.
    c. Chandra V, et al. Promoter-interacting expression quantitative trait loci are enriched for functional genetic variants. Nat Genet. 2021. PMID: 33349701.
    d. Seumois G, et al. Single-cell transcriptomic analysis of allergen-specific T cells in allergy and asthma. Sci Immunol. 2020. PMID: 32532832.
    e. Clarke J, et al. Single-cell transcriptomic analysis of tissue-resident memory T cells in human lung cancer. J Exp Med. 2019. PMID:31227543.
    f. Benjamin J. Schmiedel, et al. Impact of genetic polymorphisms on human immune cell gene expression. Cell. 2018 PMID: 30449622

    DEADLINE

    June 7, 2021

    *** APPLY HERE: us59.dayforcehcm.com/Cand[...]w/457 ***

    Submitter

    BACKGROUND

    The Mefford Lab in the Center for Pediatric Neurological Disease Research at St. Jude Children's Research Hospital uses genome-wide approaches to identify genetic, genomic and epigenetic causes of human disease including epilepsy, and related pediatric neurodevelopmental disorders. The major focus of our current work is to identify causes of pediatric epilepsy by employing state-of-the-art technologies including whole exome sequencing, targeted gene panel sequencing and custom array comparative genomic hybridization (aCGH). The Mefford lab has discovered numerous new epilepsy genes and copy number variants, including deletions of chromosomes 1q21, 15q13 and 17q12, each of which cause a range of clinical features.

    The Bioinformatics Research Scientist will take a prominent role in our research and collaborations to analyze multiple types of genomics data: exome and genome sequence, bulk RNA-seq, single cell/nuclei RNA-seq, methylation, SNP array, and others to identify variants associated with human genetic conditions and understand their underlying mechanisms. The ideal candidate will be capable of self-directed research within broader goals set by group, have previous experience with next-generation sequence data analysis highly desirable, knowledge of statistical/mathematical packages such as R.

    REQUIREMENTS

    • Seven (7) years of relevant post-degree work experience is required.
    • Five (5) years of relevant post-degree work experience is required with a Master's degree.
    • Two (2) years of relevant post-degree work experience is required with a PhD.

    LOCALE

    Memphis, TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]95308

    Submitter

    DESCRIPTION

    The Center for Applied Bioinformatics (CAB) is looking for a highly motivated and creative individual to join our Genetics Group. As a Bioinformatics Research Scientist, your responsibilities will involve running routine genetics pipelines and developing new, faster and more efficient pipelines under the direction of Dr. Evadnie Rampersaud (Genetics Group Lead). We are seeking candidates with expertise in computer science, and related programming fields. Knowledge and training in computational biology, genetics, or molecular biology is useful. In this position you will be part of a fast pace group working with leading clinical and research scientist on key projects including focus on cancer epidemiology and genetics, and neurological diseases. You will be highly integrated into a larger Center with Transcriptomics and Epigenetics Groups, which will allow for educational and cross-training opportunities.

    Our group works closely with investigators in St. Jude Children's Research Hospital Comprehensive Cancer Center, the first and only NCI designated cancer center devoted to children, in order to discover and understand the genetics and biology of pediatric cancers. Our projects extend to nonmalignant hematological disorders such as the Sickle Genome Project and related blood disorders and neurological diseases. We have close collaboration with the Department of Biostatistics for expanding methodological approaches.

    Applicants should have substantial training in computer science and programming languages. Some understanding of molecular biology or related field would be useful. Knowledge of web design and/or Cloud interface development would be highly desired.

    RESPONSIBILITIES

    • Work with CAB Genetics group to learn and provide routine pipeline assistance for genetic studies.
    • Assist with preparation of project reports, presentations, and manuscript of analysis results, including detailed description of approaches.
    • Participate in the development of operations and procedures for the collection, editing, verification and management of data.
    • Work collaboratively with guidance from scientists within the CAB Genetics group.

    REQUIREMENTS

    • Seven (7) years of relevant post-degree work experience is required.
    • Five (5) years of relevant post-degree work experience is required with a Master's degree.
    • Two (2) years of relevant post-degree work experience is required with a PhD.

    LOCALE

    Memphis,TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]95307

    Submitter

    DESCRIPTION

    We are seeking a highly motivated and creative bioinformatics research analyst to join the team of Dr. Kim Nichols in the Division of Cancer Predispositon at St. Jude Children's Research Hospital. The bioinformatics analyst will develop and apply innovative analytical approaches in the area of cancer genetics and functional genomics and have the unique opportunity to help carry out research studies that focus on known hereditary forms of childhood cancer and discovery of new causes for familial cancers.

    You will work closely with research team members to analyze data such as WES, WGS, bulk and single cell RNA seq, Cut&Run seq and ATAC seq data, to identify novel cancer predisposition genes and interrogate their biological function. You will develop, improve, modify, and operate data analysis pipelines, generate and provide analysis results and reports, and perform requested custom analyses.

    The department provides a highly interactive environment with collaborative opportunities, access to high performance computing clusters, a cloud computing environment, innovative visualization tools, highly automated analytical pipelines and mentorship from scientists with interests experience in data analysis, data management and delivery of high-quality results. The Division of Cancer Predisposition supports strong teamwork as well as individual and personal growth.

    Candidates with a strong background and interest in genetics, cancer biology, hematopoiesis, and experience with use of genetic approaches to understand disease pathogenesis are highly encouraged to apply for this position. Familiarity with statistical genetics/genomics software including MERLIN, PLINK, GATK, EdgeR, samtools is preferred. This position is a forecasted position located in Memphis, TN, and relocation assistance is available.

    REQUIREMENTS

    • Bachelor's degree is required. Master's degree or PHD is preferred.
    • Two (2) years of relevant experience is required.
    • No experience may be acceptable with a Master's degree in Computer Science or Bioinformatics, with a background in the biological sciences.
    • Experience in programming (Python, Java, C/C++, perl or other programming/scripting languages) under Linux/Unix environment is required.
    • Experience of data analyses under supervision is required.
    • End user support and training experience is preferred.
    • Experience with open source software development is preferred.
    • Experience in development of algorithms, statistical methods or scientific software is preferred.
    • Experience in next-generation sequence analysis is preferred.
    • Experience working on a team project is preferred.
    • Scripting experience using a statistics package such as R, S-Plus or SAS is preferred.

    LOCALE

    Memphis, TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]95306

    Submitter

    BACKGROUND

    A bioinformatics research scientist position is available in the field of pharmacogenomics in the Savic laboratory. The primary research focus of the Savic laboratory involves studying the gene regulatory architecture of pediatric leukemia and genomic responses to antileukemic agents in order to define how the noncoding portion of the human genome impacts chemotherapeutic drug response, chemotherapeutic drug resistance and leukemia relapse. To address these critical questions, the Savic laboratory uses functional genomics (ChIP-seq, ATAC-seq, RNA-seq, Hi-C, etc.) to map cis-regulatory elements and noncoding sequence variants in primary leukemia cells from patients and further applies high-throughput approaches (STARR-seq, MPRA, CRISPR screening, etc.) to functionally characterize their impact on gene regulation and pharmacological phenotypes using both in vitro and ex vivo models. The long-term goal of the Savic laboratory is to gain a better understanding of the genetic underpinnings of chemotherapeutic drug resistance and relapse in pediatric leukemia.

    RESPONSIBILITIES

    The successful candidate will be responsible for analyzing and integrating orthogonal genomic datasets in order to infer the pharmacogenomic impact of cis-regulatory elements and noncoding sequence variants. To meet these tasks, the candidate will be responsible for implementing, building and managing analytical pipelines for collaborative projects within the laboratory and beyond the laboratory.

    REQUIREMENTS

    Seven (7) years of relevant post-degree work experience is required.
    Five (5) years of relevant post-degree work experience is required with a Master's degree.
    Two (2) years of relevant post-degree work experience is required with a PhD.

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]95305

    Submitter

    BACKGROUND

    St. Jude Children's Research Hospital is seeking multiple Bioinformatics Research Scientists to study the role of genome and other nuclear organization in pediatric cancers. Recognized for state-of-the-art computational infrastructure, well-established analytical pipelines, and deep genomic analysis expertise, St. Jude offers a work environment where you will directly impact the care of pediatric cancer patients. As a Bioinformatics Research Scientist, your responsibilities include analyzing data generated from a variety of second- and third-generation sequencing applications that interrogate a broad range of human gene regulatory biology.

    The Abraham lab studies gene expression-regulation mechanisms in healthy and diseased mammalian cells. We are recruiting computational biologists to collaboratively develop computational tools and frameworks to analyze high-throughput sequencing (-omics) data. We build analytical software pipelines to find answers to biological questions about gene regulation in big datasets, usually from applied sequencing experiments like ChIP-Seq, RNA-Seq, and Hi-ChIP. Our interests center on enhancers and super-enhancers. Specifically, we seek to understand how these regulatory elements establish gene expression programs in healthy cells, and how enhancers are altered by mutation, abused by mistargeting, and targetable with drugs in diseased cells. We focus on characterizing the core regulatory circuitries driving disease-relevant cells, and on understanding how mutations in the non-coding DNA of such cells can drive disease, including cancers, through gene misregulation.

    The successful candidate will become a fundamental component of a multidisciplinary, inter-institutional team assembled to study how genome structures meaningfully differ between normal and pediatric cancer cells.

    Ideal candidates will have experience building, tailoring, and deploying analysis pipelines using widely available genomic analysis toolkits (e.g. bedtools, samtools), as well as experience managing large numbers of datasets. The successful candidate will be tasked with collaborative research within and beyond the lab, so strong communication and interpersonal skills are essential. Additional experience in fundamental understanding of gene expression mechanisms (e.g. transcription factors, enhancers, genome structure, and transcriptional condensates), and experience building succinct, clear figures using R are preferred.

    The department of Computational Biology provides access to high performance computing clusters, cloud computing environment, innovative visualization tools, highly automated analytical pipelines and mentorship from faculty scientists with experience in data analysis, data management and delivery of high-quality results for competitive projects. We encourage first author, high profile publications to share this element of discovery. Take the first step to join our team by applying now!

    Relevant Papers:
    Abraham BJ, Hnisz D, Weintraub AS, Kwiatkowski N, Li CH, Li Z, Weichert-Leahey N, Rahman S, Liu Y, Etchin J, Li B, Shen S, Lee TI, Zhang J, Look AT, Mansour MR, Young RA. Small genomic insertions form enhancers that misregulate oncogenes. Nat Commun. 2017 Feb 9;8:14385. doi: 10.1038/ncomms14385. PubMed PMID: 28181482; PubMed Central PMCID: PMC5309821.

    Hnisz D, Abraham BJ, Lee TI, Lau A, Saint-André V, Sigova AA, Hoke HA, Young RA. Super-enhancers in the control of cell identity and disease. Cell. 2013 Nov 7;155(4):934-47. doi: 10.1016/j.cell.2013.09.053. Epub 2013 Oct 10. PubMed PMID: 24119843; PubMed Central PMCID: PMC3841062.

    Dowen JM, Fan ZP, Hnisz D, Ren G, Abraham BJ, Zhang LN, Weintraub AS, Schujiers J, Lee TI, Zhao K, Young RA. Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes. Cell. 2014 Oct 9;159(2):374-387. doi: 10.1016/j.cell.2014.09.030. PubMed PMID: 25303531; PubMed Central PMCID: PMC4197132.

    REQUIREMENTS

    • PhD in Molecular Biology, Biochemistry, Computer Science, Statistics, Mathematics, Bioinformatics or related field required.
    • Ph.D which must include research related to bioinformatics (such as analysis of sequence data, microarrays, SNPs, image data, proteomics data, or biological pathways; development of algorithms, statistical methods, or scientific software); OR If Ph.D with no bioinformatics research, then two (2) years of pre-or postdoctoral experience in Computational Biology or Bioinformatics research is required.
    • Experience with programming languages such as Perl, C, or Java required.

    LOCALE

    Memphis, TN

    HOW TO APPLY

    Apply online: bs.serving-sys.com/Serv[...]95304

    BACKGROUND

    The USDA-Agricultural Research Service in Pendleton, Oregon, invites applications for a permanent, technical support position in Bioinformatics (Computational Biologist). The support bioinformaticist will work as part of an interdisciplinary team to understand how microbes, plants and pathogens respond to environmental changes and how management strategies can be leveraged for beneficial outcomes. The Pendleton ARS is in an exciting transition and period of growth with three new scientific programs and major lab and facility renovations. Research at the location focuses on precision agriculture, soil and water conservation, sustainable agriculture, global climate change, and crop diversification in the Columbia Plateau and related land resource areas with water-limited dryland agriculture.

    RESPONSIBILITIES

    This position will support the operational requirements of research programs. This includes conducting molecular and bioinformatic analyses, statistics, visualization, and assisting with data interpretation to solve complex biological research problems using computational approaches and molecular analyses.

    LOCALE

    Pendleton, Oregon

    HOW TO APPLY

    Please visit USAjobs.gov for more details (announcement ARS-S21Y-11068889-KAS, www.usajobs.gov/GetJ[...]10000).

    DEADLINE

    April 16th, 2021

    BACKGROUND

    Lawrence Berkeley National Lab's (LBNL, www.lbl.gov) Environmental Genomics and Systems Biology Division (biosciences.lbl.gov/divisions/egsb/) has an opening for a Software Developer.

    The Software Developer will help build applications and frameworks supporting a variety of high-profile bioinformatics projects and will contribute to a variety of critical National Institutes of Health (NIH) and Department of Energy (DOE) projects, including the Gene Ontology (GO), the Monarch Initiative, and the Center for Cancer Data Harmonization (CCDH).

    This position involves developing and maintaining Python software for the creation, management, and analysis of biological knowledge about genes, pathways, diseases, and phenotypes. Working as part of a distributed team, the Software Developer will develop systems for interacting with databases (primarily graph/RDF databases), supporting curation interfaces, and workflow systems for integrating data from a variety of heterogeneous sources.

    We actively seek diverse applicants for this position. Note that applicants are not expected to have extensive knowledge of biology – we are open to those who are eager to learn about areas such as molecular biology and medical informatics.

    We encourage you to submit a cover letter with your application, and to include a URL for your code repository (e.g., GitHub or GitLab).

    RESPONSIBILITIES

    What You Will Do:
    • Work with an international team of software developers, curators, scientists, and clinicians to provide quality applications that realize scientific goals.
    • Work with domain experts to plan and prototype new applications, features, and interfaces.
    • Develop and maintain software for integrating biological data using ontologies.
    • Maintain and extend extract, transformation, and load pipelines.
    • Develop and maintain Python codebase for ontology-based data access.
    Additional Responsibilities for Level 3:
    • Perform requirements analysis and work with product owners on software specifications.
    • Provide technical assistance and training to collaborators at other sites.
    • Serve as a key contributor to troubleshoot and solve highly technical, complex problems and provide direction for the project.
    • Assist in the writing of manuscripts and progress reports.

    REQUIREMENTS

    What is Required:
    • Bachelor's Degree in computer science, bioinformatics, or related field and a minimum of 5 years of relevant experience, or Master's Degree and a minimum of 3 years of relevant experience.
    • Demonstrated software engineering skills.
    • Experience in team-based software engineering, using collaborative software development methodologies.
    • Experience with one or more forms of database management systems (e.g., relational, graph, document).
    • Experience with the Python programming language.
    • Experience with modern devops workflows and implementations.
    • Experience with the maintenance and tuning of common software stacks.
    • Experience with one or more data modeling frameworks (e.g., UML, JSON-Schema, LinkML)
    • Ability to work effectively both independently and in a diverse team environment.
    Desired Qualifications:
    • Knowledge of ontology and knowledge engineering frameworks, APIs, languages, and techniques (e.g., OWLAPI, Jena, SPARQL).
    • Experience with systems architecture, operations, deployment, and security.
    • Expertise with graph or RDF databases.
    • Understanding of and experience with open-source software and open science.
    • Familiarity with biomedical terminology.
    Additional Desired Qualifications for Level 3:
    • Bachelor's Degree in computer science, bioinformatics, or related field and a minimum of 8 years of relevant experience, or Master's Degree and a minimum of 5 years of relevant experience.
    • Demonstrated experience programming as part of a team on mid to large software applications.
    • Demonstrated experience working with users to gather requirements, demonstrate new features, etc.
    • Experience modeling and working with complex heterogeneous biomedical data.
    • Demonstrated contributions to full stack applications for exploring, analyzing, or visualizing data.

    TERMS

    • This is a full time, 2 year, term appointment with the possibility of extension or conversion to Career
    • This position will be hired at a level commensurate with the business needs and the skills, knowledge, and abilities of the successful candidate.
    • This position may be subject to a background check. Any convictions will be evaluated to determine if they directly relate to the responsibilities and requirements of the position. Having a conviction history will not automatically disqualify an applicant from being considered for employment.

    LOCALE

    • This position will be remote initially, but limited to individuals residing in the United States tentatively until 2022 due to COVID-19. Once the Bay Area shelter-in-place restrictions are lifted, work will be primarily performed at: West Berkeley Biocenter (Potter St.) – Bldg. 977, 717 Potter St., Berkeley, CA. We are open to fully remote workers. The option for remote work will also be available after shelter in place restrictions are lifted.

    HOW TO APPLY

    Apply directly online at 50.73.55.13/coun[...]96512 and follow the on-line instructions to complete the application process.

    Organization: EB-Environ Genomics & Systems Bio

    ABOUT US

    Learn about us!
    Environmental Genomics and Systems Biology:
    Mission: Linking genome biology to ecosystem dynamics.
    Vision: Sustainable solutions to energy and environmental challenges developed through mechanistic understanding of ecosystem dynamics.
    Approach: We develop systems-level models using integrated molecular observation and controlled manipulation of model organisms and defined biomes to design and test interventions that promote beneficial outcomes.

    Berkeley Lab:
    Berkeley Lab (LBNL) addresses the world's most urgent scientific challenges by advancing sustainable energy, protecting human health, creating new materials, and revealing the origin and fate of the universe. Founded in 1931, Berkeley Lab's scientific expertise has been recognized with 13 Nobel prizes. The University of California manages Berkeley Lab for the U.S. Department of Energy's Office of Science.

    Working at Berkeley Lab has many rewards including a competitive compensation program, excellent health and welfare programs, a retirement program that is second to none, and outstanding development opportunities. To view information about the many rewards that are offered at Berkeley Lab – Click Here (hr.lbl.gov).

    DESCRIPTION

    The Division of Biostatistics and Epidemiology in the Department of Molecular and Translational Medicine of the Paul L. Foster School of Medicine, Texas Tech University Health Sciences Center El Paso, seeks highly qualified applicants for the following full-time tenure-track faculty position:

    Assistant Professor or higher: This position requires a Ph.D. in Biostatistics, Statistical Genetics, Genetic Epidemiology, or a related field. A minimum of 4 years post-doctoral or equivalent experience in one of the areas of Biostatistics, Statistical Genetics, Genetic Epidemiology, or a related field as well as a strong record of peer-reviewed publications, and experience with scientific collaborations are required. The preferred candidate will have a demonstrated track record of methodological/analytical research, focused on the development of analysis of omics data, big data, and/or population genetics in the biomedical sciences. Additional preferred qualifications include: teaching experience in basic and advanced bioinformatics, statistical genetics, and/or biostatistics; strong interest and aptitude in working with biomedical investigators in fundamental, translational, population health, and clinical research projects; and experience in common statistical/bioinformatics software such SAS, STATA, R, Python, and Perl. A minimum of six-year experience as an assistant professor is preferred for the rank of associate professor, and a minimum of 10-years combined experience as an assistant and associate professor is preferred for the rank of professor. Emerging or established regional or national reputation is expected for the rank of associate professor or higher. The major essential functions of the position are to conduct high-quality independent methodological/analytical research in bioinformatics/biostatistics/data science/statistical genetics and teach graduate level courses in bioinformatics/biostatistics/data science. The successful candidate will collaborate with faculty investigators in their research design and analysis; mentor graduate students and medical students; and train and supervise statistical programmers in providing bio-statistical, epidemiology, and bioinformatics support services to investigators.

    LOCALE

    The city of El Paso is nestled between the beautiful Franklin Mountains and the Rio Grande River and has over 300 days of sunshine a year. It is ranked as one of the safest cities in America with a population of more than 600,000. El Paso also is one of the most affordable cities in Texas, and has been voted as one of the best cities in the United States in which to raise a family.

    HOW TO APPLY

    Interested candidates should apply online at careers.texastech.edu, and reference requisition number 22513BR. For further information, potential applicants may inquire confidentially to Alok Dwivedi, Ph.D., Division of Biostatistics and Epidemiology, Department of Molecular and Translational Medicine, at alok.dwivedi[at]ttuhsc.edu or 915-215-4177.

    DEADLINE

    Position will remain open until filled. Application review will begin immediately.

    POLICY

    As an EEO/AA employer, the Texas Tech University System and its components will not discriminate in our employment practices based on an applicant's race, ethnicity, color, religion, sex, sexual orientation, gender identity, national origin, age, disability, genetic information, or status as a protected veteran.

    BACKGROUND

    The Biostatistics and Bioinformatics group at the Fox Chase Cancer Center in Philadelphia, PA is seeking applicants for a faculty position in Bioinformatics.

    Diverse clinical and biological studies at Fox Chase create a steady flow of interesting scientific questions, with research opportunities in many areas including genetics, epigenetics, immunology, and cancer biology. Successful candidates will collaborate with Fox Chase scientists and physicians on all aspects of research (e.g., design, analysis, interpretation of results and publication) supporting projects across multiple research programs. The position offers the opportunity for professional development and encourages scholarly investigation into innovative analyses and methods and supports both collaborative and independent methodological publications. Faculty members publish in top-tier journals. Level of appointment will be commensurate with experience.

    About Fox Chase Cancer Center:
    Fox Chase Cancer Center researchers have been recognized worldwide for landmark contributions to our knowledge about the causes, treatment and prevention of cancer, with a committed faculty working in basic, translational, population-based and clinical research. Faculty members at Fox Chase have been recipients of the Nobel Prize, the Kyoto Prize, and the Lasker Award for fundamental discoveries in genetics, virology, and biochemistry. A dynamic and collegial group of researchers continues to make important discoveries. As an NCI-designated Comprehensive Cancer Center, Fox Chase continues to build on a foundation of human commitment - people caring for others and working together for a common goal, to relieve the burden of human cancer.

    RESPONSIBILITIES

    Successful candidates must be self-directed, have a commitment to collaborating with biomedical researchers, strong written and verbal communication skills, solid programming skills in R and Python, and experience modeling biological or other complex systems.

    REQUIREMENTS

    Candidates must hold a doctoral degree in bioinformatics, computational biology, computer science, applied mathematics, or other quantitative discipline.

    PREFERENCES

    Preference will be given to applicants with experience working in an HPC Linux environment and cloud-based computational platforms, familiarity with bioinformatics tools used in the analysis of high-throughput genomics data, and experience in interdisciplinary cancer research resulting in publications.

    TERMS

    Full time

    LOCALE

    Philadelphia, PA

    HOW TO APPLY

    Send cover letter and CV to Judie Devlin (Judie.Devlin[at]tuhs.temple.edu), Biostatistics and Bioinformatics Facility, Fox Chase Cancer Center, 333 Cottman Avenue, Philadelphia, PA, 19111.

    DEADLINE

    As soon as possible

    POLICY

    Fox Chase Cancer Center is an Equal Opportunity Employer.

    BACKGROUND

    We are seeking to recruit a Senior Bioinformatician who can help to develop genomic annotation pipeline for the world's key cancer genomics resource, in COSMIC (Catalogue of Somatic Mutations of Cancer).

    About Us:
    COSMIC is the key information source in global human cancer research and is growing rapidly in content, scope and its value. This role will require the evolution and expansion of our systems to enable this growth. Data is currently gathered from a variety of sources, from manual curation to structured repositories, and standardised into the COSMIC database before release via our analytic website. This genetic and genomic data is increasing in quantity and scope, its value is enhanced by analytic highlights, and this position will improve the handling, annotation, meaningful presentation and user access of this information.

    About You:
    You will be responsible for developing an automated genomic annotation system and pipeline to handle high throughput cancer genetics datasets, and also develop data structures that will support future COSMIC databases, downloads and websites. You must be a good communicator and able to understand the goals and aims of the collaborative COSMIC team and its customers of researchers, scientists and clinicians, globally. You will have experience in developing software and analytical tools across large and complex biological datasets, ensuring throughput and quality. You will bring new perspectives on options for storage, pipelining and visualisation. You will possess a degree in Bioinformatics or Computer Science, and demonstrate expertise in a modern programming language such as Python and (Oracle) SQL, within a Unix/Linux environment as well as a flair for innovation and out of the box thinking. This role would suit somebody with significant previous bioinformatics experience. You will join a multidisciplinary, committed and supportive team with the opportunity to work in conjunction with software developers, bioinformaticians, curators and scientists as well as colleagues and collaborators both in the Cancer Ageing and Somatic Mutation Research Programme and externally.

    REQUIREMENTS

    Technical:
    • Degree, PhD, or equivalent experience in Bioinformatics, Software development or Computer Science
    • Significant data handling skills
    • Experience in one or more scripting languages
    • Expertise across large and complex relational databases (particularly Oracle), proficient in SQL
    • Expertise in software development, particularly Python
    • Experience with modern coding practices: Git, Agile, Cloud and Containers
    Behavioural Competencies:
    • Ability to work with a high degree of detail and thoroughness, independently and part of a team
    • Strong interpersonal skills with the ability to communicate with people from a wide variety of disciplines
    • Ability to develop and maintain collaborative working relationships with internal and external groups
    • A demonstrable, enthusiastic, can-do, proactive attitude
    • Enthusiasm, commitment and attention to detail

    PREFERENCES

    Technical:
    • Experience or willingness to learn development best practice in DevOps, Ci/CD, TDDF in an Agile environment
    • Exposure to genomic data annotation using Ensembl tools
    • Experience of advanced data modelling concepts
    • Cancer genomic data
    Behavioural Competencies:
    • Excellent, broad based and self-reliant problem-solving skills
    • Good time management skills leading to high quality solutions within often short timeframes
    • Ability to manage prioritise your workload and meet tight deadlines

    COMPENSATION

    £37,865 to £45,000 per annum

    HOW TO APPLY

    Click on the following link: jobs.sanger.ac.uk/vaca[...].html

    DEADLINE

    25 April 2021

    POLICY

    We are committed to fostering an inclusive, stimulating and rewarding culture where everyone can thrive and diversity is celebrated.

    Are you a Principal Bioinformatician with a passion for genomics who would like to improve the prevention and treatment of skin cancers?

    BACKGROUND

    We are seeking a Principal Bioinformatician to join our Experimental Cancer Genetics group (for a four year fixed term contract) who can support us drive computational data analysis for the DERMATLAS Project. The project aims to profile the somatic mutational landscape of rare skin tumour types, and to understand the germline drivers of these conditions. You will need to be able to use existing pipelines and tools, as well as develop new analytical and statistical methods to effectively mine the data that we will generate.

    About Us/the Project:
    The Experimental Cancer Genetics group aims to identify cancer genes and to understand their function. We are also interested in how genes interact to promote cancer development, and how these interactions may be exploited for therapy. The DERMATLAS project aims to understand the genomics behind skin cancers to improve patient treatments and preventative measures. The project is a shared initiative which will give you the opportunity to work with global collaborators.

    About You:
    You must be a good communicator and able to understand the objectives of the project and the clinical need. You must be proficient at devising and implementing software solutions and statistical analyses and able to effectively communicate with wet-lab scientists. This role would suit somebody with significant previous bioinformatics experience and a deep understanding of next-generation sequencing data analysis. You will join a multidisciplinary team with the opportunity to work in conjunction with computational biologists, bioinformaticians, PhD students, postdocs in the Cancer Ageing and Somatic Mutation Programme, as well as collaborators both within the Wellcome Sanger Institute and externally.

    REQUIREMENTS

    Technical:
    • A degree or further degree related to biology/computer science ideally at PhD level or equivalent experience.
    • An interest in genomics, cancer biology and genetics
    • Excellent programming skills in R
    • Experience with modern coding practices: Git, Agile, Cloud and Containers
    • Experience of other languages and development tools such as Unix, Java, Python, and SQL
    • Experience with variant calling and transcriptomics
    • Strong design and analysis skills including object orientated software development
    • The ability to think laterally in order to combine disparate technologies
    • Ability to rapidly attain new technical skills and understanding of new concepts
    • Experience of basic systems administration in Linux
    Competencies and Behaviours:
    • Ability to work with a high degree of thoroughness, independently or part of a team
    • Strong interpersonal skills with the ability to communicate with people from a wide variety of disciplines
    • Ability to understand new scientific processes via communication with laboratory scientists
    • Ability to develop and maintain collaborative working relationships with internal and external groups
    • Excellent, broad based and self-reliant problem-solving skills
    • Good time management skills leading to high quality solutions within often short timeframes
    • Ability to manage prioritise your workload and meet tight deadlines
    • Strong influencing skills

    COMPENSATION

    £45,516 – £54,524 per annum

    HOW TO APPLY

    Click on the following link: jobs.sanger.ac.uk/vaca[...].html

    DEADLINE

    14 April 2021

    POLICY

    We are committed to fostering an inclusive, stimulating and rewarding culture where everyone can thrive and diversity is celebrated.

    BACKGROUND

    Solgate is a new research-driven biopharmaceutical startup that develops drugs targeting solute carrier (SLC) proteins, the largest family of membrane transporters. By modulating the function of the "gates" to cellular metabolism, Solgate aims to address unmet medical needs in neurological diseases, in metabolic disorders and in cancer. Solgate is located in the newly established IST Park, a space housing a growing community of technology startups and biotech companies, adjacent to IST Austria in Klosterneuburg, near Vienna.

    Solgate is seeking to hire a motivated and accomplished Data Scientist to join our fast-growing interdisciplinary research team, together developing novel small molecule therapeutics that modulate the functions of membrane transporters. We have a high-performance, and result-oriented culture, looking for colleagues eager to learn. The ideal candidate will bring relevant experience, entrepreneurial drive, and a passion for advancing our mission.

    RESPONSIBILITIES

    Role and Responsibilities:
    • Develop and implement newly emerged workflows for bioinformatics, along with well-documented code and reports
    • Engage in multidisciplinary research projects and closely collaborate with Solgate team members to progress strategic targets and support experimental design, statistical analyses, and documentation
    • Provide subject matter expertise on the data needs for project deliverables in ways that enable efficient decision making
    • Provide leadership in the laboratory through scientific/technical mentoring, contribution to documentation, and infrastructure management
    • Employ innovative problem-solving skills utilizing cutting edge data science to identify clinically relevant disease subtypes and associated therapeutic targets
    • Maximize target discovery efforts to incorporate additional data types and novel analysis methods
    • Organize, summarize and deliver data, in written and oral presentations

    REQUIREMENTS

    To accomplish the responsibilities of this role, the candidate must demonstrate excellent interpersonal, organization and communication skills in addition to rigorous scientific thinking.

    Qualifications:
    • M.Sc/PhD in a related field such as Computational Biology, Data Science, Bioinformatics or Computer Science with 3+ years of hands-on experience in applying advanced bioinformatics and data science methods
    • Experience in implementing methodologies for statistical modelling, machine learning, bioinformatics, data visualization, image processing
    • and analysis pipelines.
    • Experience with high content screening and/or in -omics data (proteomics, transcriptomics, metabolomics) processing is an advantage
    • Proficiency with scripting languages such as R or Python
    • Familiarity with relational databases and SQL is a valued asset
    • Experience with high-performance computing, application of machine learning techniques, integrating -omics and medical data or chemoinformatics is an advantage
    • Good presentation and communication skills, explaining complex analytics concepts to colleagues at all levels
    • Comfortable in an agile working environment
    • Fluent in English; other languages will be valued

    COMPENSATION

    At Solgate, you will have the opportunity to expand your knowledge and skills to advance your career and take part in the growth of Solgate from its early days. Solgate embraces diversity and equal opportunity and we are committed to building our team to represent a range of backgrounds, perspectives, and skills. We can offer you market-rate gross monthly remuneration of 3691€. The actual remuneration package will be guided by your professional experience and your qualifications, with readiness to pay in excess of collectively agreed amount.

    HOW TO APPLY

    To apply, please submit your letter of motivation and your curriculum vitae (including the contact details of two references) to our recruitment team using the link: solgate-gmbh.jobbase.io/job/7yate2u7.

    Please provide the documents as separate PDFs, with your name. We can only consider full applications through the portal. Applications are reviewed on a rolling basis until the position is filled. For any questions regarding the position, e-mail us (office[at]solgatetx.com).

    RESPONSIBILITIES

    As a Bioinformatic Scientist supporting NCI's Cancer Genomics Cloud Resource ISB-CGC Cancer Gateway in the Cloud, you will work on various tools and datasets for cancer researchers and describe how these tools and data can be easily and effectively used in the Google cloud to perform groundbreaking, impactful cancer research. In this role, a typical day will include:
    • Collaborating with NCI clients and cancer researchers worldwide to develop further understanding of cancer mechanisms, and develop cancer diagnostics, therapies, and treatments.
    • Developing -omics and clinical pipelines/workflows and/or Jupyter notebooks based on rapidly developing technologies to allow ISB-CGC end users to optimize the use of NCI -omics, imaging, and clinical data in the Google Cloud Platform
    • Writing examples, tutorials, and creating videos for the ISB-CGC documentation that demonstrates to end-users how to best use bioinformatics tools/pipelines on the Google Cloud as well as for tutorials on our ISB-CGC web-applications. Presenting the system to cancer researchers worldwide to increase use of the system
    • Helping to expand available public datasets and assisting with the improvement of querying capabilities across multiple datasets
    • Aiding researchers wanting to customize their own analysis to answer specific research questions
    • Learning/ keeping up to-date with GA4GH and other worldwide -omics and personalized medicine initiatives
    Your success will be measured through collaborative work as a research bioinformatician, working with the team to effectively support our current user base and expand datasets and tools to bring even more researchers to ISB-CGC and the NCI's Cancer Research Data Commons.

    REQUIREMENTS

    What you'll need:
    • Minimally a BS (or equivalent) in bioinformatics, computational biology, computer science, or related field and five years hands on experience
    • Experience with implementing bioinformatics pipelines/workflows, Jupyter notebooks and R scripts in a research environment
    • Proficiency with three of the following: SQL, bash scripting, R or Python programming
    • Experience working in a Unix/Linux environment
    • Prior experience interacting with bioinformaticians and computational biologists through documentation and tutorials
    • Ability to obtain a Public Trust
    Desired Qualifications:
    • Experience with cloud development ecosystems – Google and / or AWS.
    • Experience creating and using container technologies, such as Docker or Singularity
    • Experience implementing parallel computation for bioinformatics pipelines
    • Fluency with tools and methods for -omics data analysis (bwa, GATK, Picard, samtools, vcftools, RVTESTS, beagle, GenomicRanges, tools for RNAseq analysis, etc.)
    • Cancer research experience

    HOW TO APPLY

    Apply at: www.gdit.com/care[...]loud/

    BACKGROUND

    The Quantitative Biomedical Research Center (qbrc.swmed.edu) is a well-established research center in the Department of Population and Data Sciences at the University of Texas Southwestern Medical Center at Dallas (UTSW). This center brings together experts in the fields of bioinformatics, machine learning, artificial intelligence, predictive modeling, pediatric oncology, digital pathology, single-cell genomics and systems biology to remove the technical barriers to understanding the disease etiologies and developing treatment and prevention strategies. It aims to foster collaborations involving quantitative methods and technologies in any aspect of biomedical research. We are actively recruiting new members to join this new and dynamic group.

    RESPONSIBILITIES

    We are recruiting bioinformatician(s) to apply algorithms, statistical models and informatics tools for biomedical research. We are seeking individuals with experience in genomics and bioinformatics. We especially value motivated, creative, adventurous, and collaborative individuals. Also, we firmly believe that the modern biologist should be adept at experimentation as well as computation, and we are committed to training these scientists to succeed as future independent investigators. At UTSW, there are great opportunities for researchers to collaborate with outstanding biomedical investigators and work on exciting research projects. UT Southwestern provides a friendly, dynamic, collaborative, and integrative research and training environment with state-of-the-art facilities.

    REQUIREMENTS

    MS or Ph.D. degree in Biomedical sciences, Bioinformatics, Computer Sciences, Statistics, Engineering or related field. Preferred (but not required): working experience in bioinformatics analysis, gene expression studies or imaging analysis.

    HOW TO APPLY

    Please send your Guanghua Xiao (Guanghua.Xiao[at]UTSouthwestern.edu)

    DEADLINE

    Until filled

    POLICY

    UT Southwestern Medical Center is an Affirmative Action/Equal Opportunity Employer. Women, minorities, veterans and individuals with disabilities are encouraged to apply.
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