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    BACKGROUND

    About Dana-Farber:
    Located in Boston, Dana-Farber Cancer Institute brings together world renowned clinicians, innovative researchers and dedicated professionals, allies in the common mission of conquering cancer, HIV/AIDS and related diseases. Combining extremely talented people with the best technologies in a genuinely positive environment, we provide compassionate and comprehensive care to patients of all ages; we conduct research that advances treatment; we educate tomorrow's physician/researchers; we reach out to underserved members of our community; and we work with amazing partners, including other Harvard Medical School-affiliated hospitals.

    Overview:
    Join Chris Sander's group as a postdoc at Dana-Farber Cancer Institute (cBio Center at DFCI) or Harvard Medical School (computational biology collaboratory at HMS), with links to the Broad Institute. We are forming a dynamic group of smart scientists to make scientific discoveries in basic biology and help cure cancer. On computers, in the lab and in collaboration with clinicians. Work with us on:
    • Perturbation biology and network pharmacology
    • Cancer genomics and proteomics and metabolomics
    • Protein structure, function & evolution
    • Biological information resources
    Join a highly interactive team of postdocs, graduate students and software engineers. Work on algorithms and computational analysis, and/or on combination therapy and evolution experiments in the wet lab. Collaborate with others and lead a project. Check your predictions against experiment. Do imaginative basic science and help apply it in real life.

    REQUIREMENTS

    You have a PhD or equivalent in biology, medicine, mathematics, computer science, physics, chemistry or engineering. Your appointment will be in the Department of Biostatistics and Computational Biology at DFCI or the Department of Cell Biology at HMS.

    TERMS

    Job Family: Research -- Laboratory
    Full/Part Time: Full-Time
    Regular/Temporary: Regular
    Schedule Standard Hours: Monday -- Friday
    FLSA Status: Exempt

    LOCALE

    Boston, MA, USA
    Center for Life Sciences

    ABOUT US

    The mission of Dana-Farber Cancer Institute is to provide expert, compassionate care to children and adults with cancer while advancing the understanding, diagnosis, treatment, cure, and prevention of cancer and related diseases.

    Our Core Values are:
    Impact -- Above all else, we make a difference by relieving the burden of disease now and for the future through our research, clinical care, education, outreach and advocacy.
    Excellence -- We pursue excellence relentlessly and with integrity in all that we do, adhering always to the highest standards of conduct.
    Compassion and respect -- For those in our care and for one another.
    Discovery -- We foster the spirit of inquiry, promoting collaboration and innovation across traditional boundaries while celebrating individual creativity.

    HOW TO APPLY

    Send CV, bibliography, brief statement of research interests and names of 3 references to cbio.jobs{at}jimmy.harvard.edu. Then pack your bags and spend a few years doing productive research in computational and systems biology in the silicon valley of the life sciences: Boston, Massachusetts. Science for peace and research for a better quality of life.

    Please apply directly online at http://www.dana-farber.org/Care[...].aspx. Click Search Job Openings and use the Job ID number to quickly locate the appropriate job listing. Once you have located the desired job, click on the checkbox in the 'Select' column, and then click the 'Apply Now' button, located at the bottom of the screen.

    DFCI Employees please apply directly through PeopleSoft Self Service. Sign on to PeopleSoft and navigate to Main Menu > DFCI Careers.

    Apply Here: http://www.Click2Apply.net/z7m4fzy6sj

    Job ID: 28100
    Date Posted: 05/24/2016

    POLICY

    Equal Employment Opportunity:
    Dana-Farber Cancer Institute is an equal opportunity employer and affirms the right of every qualified applicant to receive consideration for employment without regard to race, color, religion, sex, gender identity or expression, national origin, sexual orientation, genetic information, disability, age, ancestry, military service, protected veteran status, or other groups as protected by law.

    DESCRIPTION

    We are looking for a Senior IT Systems Engineer with strong interest in High Performance Computing, experience in deploying and configuring complex open source packages, and in managing cluster schedulers. Solid background in UNIX, Linux, network architecture, scripting and parallel file systems is mandatory. You should have a Bachelor or Master degree in computer science or a related field or at least 5 years of hands-on experience.

    In this position you will be responsible for the maintenance and development of our scientific computing cluster. The main tasks on the cluster are related to genome-wide proteomics, human genome next generation sequencing, and large-scale statistical modeling. The work involves the interaction with several groups at CeMM including Michael Pilz (CeMM IT), Jörg Menche (bioinformatics, network theory) and Christoph Bock (bioinformatics, epigenomics, precision medicine).

    Knowledge of BeeGFS - Parallel Cluster File System, Bright Cluster Manager, SLURM job scheduler and Azure cloud services would be an advantage. We take career development of our staff seriously at CeMM. Successful candidates get the opportunity to attend international HPC conferences like ISC High performance, EMiT (Emerging Technology) conference or the HPC Knowledge Meeting. As an international top research institute we encourage co-operations within our scientific networks in academia and industry.

    Environment:
    Supermicro SYS-F627G2-F73+ and IBM x3350 Nodes, Nehalem, Sandy Bridge and Hasswell based Xeon cpu's 592 cores, 5,7 TB RAM, QDR and FDR Infiniband interconnect, SAS connected FhgFs 4 Fileservers 1 Metadata Server 715 TB net capacity, FC attached SAN 108 TB net capacity. Expected growth of 100% per year!

    COMPENSATION

    We offer:
    • Excellent work environment
    • Daily bonus for the in-house cafeteria
    • Salary: This position is remunerated with a min. yearly salary (gross) of EUR 47,600 on a full time base. The salary is compliant with the applicable collective agreement including an overpayment depending on the qualifications of the applicant. The definite salary agreement will be made during the personal interview.
    • Varied job in a meaningful, inspiring, international setting

    ABOUT US

    CeMM Research Center for Molecular Medicine is an international and interdisciplinary research institute of the Austrian Academy of Sciences. Driven by medical needs, CeMM integrates basic research and clinical expertise to pursue innovative diagnostic and therapeutic approaches focused on cancer, inflammation and immune disorders. CeMM is located in a new tailor-made building at the center of the Vienna Medical University campus, within walking distance of Vienna's historical city center. According to a study by "The Scientist", CeMM is among the top-5 best places to work in academia world-wide (http://the-scientist.com/2012[...]-2012). Vienna is frequently ranked the world's best city to live. It is a United Nations city with a large English-speaking community. The official language at CeMM is English, as more than 37 different nationalities are represented.

    HOW TO APPLY

    Please send your application documents, referring to #IT-SE by June 30 to: application[at]cemm.at

    BACKGROUND

    About Dana-Farber:
    Located in Boston, Dana-Farber Cancer Institute brings together world renowned clinicians, innovative researchers and dedicated professionals, allies in the common mission of conquering cancer, HIV/AIDS and related diseases. Combining extremely talented people with the best technologies in a genuinely positive environment, we provide compassionate and comprehensive care to patients of all ages; we conduct research that advances treatment; we educate tomorrow's physician/researchers; we reach out to underserved members of our community; and we work with amazing partners, including other Harvard Medical School-affiliated hospitals.

    Scientific Research Director - cBio Center at Dana-Farber Cancer Institute:
    As Scientific Research Director, play a central part in building the new interdisciplinary cBio Center at DFCI, focused on quantitative biology and knowledge systems, with collaborative links to Harvard Medical School (HMS) and the Broad Institute. We are creating an open and collaborative environment to address a range of scientific questions from basic research to clinical trials and precision medicine. Help us develop an agile and innovative program to generate scientific discoveries, serve the cancer research community with information resources and drive the next generation of cancer care. We are actively growing and plan to recruit several research and data science groups to the cBio Center over the next two years.

    About the new cBio Center at DFCI:
    The interdisciplinary cBio Center at DFCI is headed by computational and systems biologist Chris Sander and hosted in the Department of Biostatistics and Computational Biology. Research at cBio addresses difficult and important questions about basic biology and cancer. Selected topics include overcoming resistance to targeted therapy, the design of personalized therapeutic interventions, quantitative models of evolutionary processes, as well as the prediction of protein and RNA structure, interactions and function in collaboration with the Marks lab at HMS. Our shared toolkit includes bench biology, high throughput experimental technology, and computational and data science methods, such as statistical physics and machine learning. Led by Ethan Cerami in the Center's Knowledge Systems Group, we develop enterprise-grade software and information services, such as the open source cBioPortal for Cancer Genomics, for translating research results to the clinic and build strong bridges between research and patients.

    We actively promote an open and collaborative environment that values scientific integrity and reproducibility. We reward creativity, innovation and team spirit and are looking to improve the work experience and the scientific process.

    REQUIREMENTS

    About you:
    • Your scientific and managerial role, working with faculty and staff, includes management of scientific projects and collaborations, recruitment, grant applications and reports, social media communication, overall budget planning, as well as planning the content of seminars and workshops.
    • You have a Ph.D. or equivalent and substantial experience in a leadership position at an academic institution, biotech, pharmaceutical company, or scientific publishing house. You are excited to start up a new research center and take satisfaction from facilitating the scientific success of an interdisciplinary team. You have broad scientific knowledge, e.g., in computational biology, systems biology, genomics or cancer research, as well as strong administrative and managerial skills.

    TERMS

    Job Family: Research - Laboratory
    Full/Part Time: Full-Time
    Regular/Temporary: Regular
    FLSA Status: Exempt

    LOCALE

    Boston, MA, USA
    Center for Life Sciences

    HOW TO APPLY

    Apply Here: http://www.Click2Apply.net/fht56t7bq2

    Job ID: 28065
    Date Posted: 04/15/2016

    BACKGROUND

    The bioinformatics research and core facility platform at the TAGC/TGML in Luminy, Marseille is seeking a person with strong software engineering and development experience to integrate and further improve bioinformatics tools developed at TAGC.

    What we offer:
    The TAGC (http://tagc.univ-mrs.fr/) is located at the heart of the research campus of Marseille-Luminy, France. It unites research & development with a NGS-sequencing and bioinformatics core facility, providing high-quality service for biologists.

    The TAGC is developing its bioinformatics platform with the support of the French Institute of Bioinformatics (IFB (http://www.france-bioinformatique.fr/en), the national service infrastructure in bioinformatics, and the French node of the European research infrastructure, ELIXIR). We seek an experienced software engineer to help conceptualize, organize and improve the software developed and used in the laboratory. As the recruited teammate, you will have an expert role in the laboratory, bringing knowledge of standards and best-practices in code development to build a coherent software environment.

    Joining TAGC, you will have the opportunity to learn and work with different approaches in bioinformatics analysis and integration of large-scale data. We offer a vivid and interactive research environment, with half of its researchers working on bioinformatics algorithm development, the other half working in wet lab science. Four dedicated core facility persons provide support to our costumers in sequencing and data analysis.

    REQUIREMENTS

    Who you are:
    You have a strong background and interest in software engineering and development, ideally - but not necessarily - combined with prior knowledge in bioinformatics. You are familiar with all major programming languages, including Python, Perl, Java and C, and will be proficient in at least one of them. Furthermore, you are experienced in web-programming. You are either trained as a computer scientist or computational biologist. A PhD is a benefit, but not a must: working experience in a software- development dedicated environment will be seen as equivalent qualification.

    The working language at the TAGC is English and a good knowledge in spoken and written English is a must.

    TERMS

    Contract: 2 years
    Starting date: Fall 2016

    COMPENSATION

    Monthly salary: ~ 2000EUR , based on public research engineer salary, according to diploma and experience.

    HOW TO APPLY

    If you are interested, please send your application (motivation letter and CV) with two referee contacts to: Bianca Habermann, bianca.habermann[at]univ-amu.fr

    DESCRIPTION

    There is an immediate opening for a Bioinformatics Application Developer at the La Jolla Institute for Allergy and Immunology (LJI, http://lji.org). The candidate, as part of the Bioinformatics Core Facility (BCF), will have the opportunity to work on several high-profile web resources, including in the Immune Epitope Database Analysis Resource (IEDB-AR, http://tools.iedb.org ).

    Current work for the IEDB-AR is focused on completing a migration of the web applications from Java/Tomcat to Python/Django, developing RESTful APIs, creating standalone tools, making existing applications more efficient, and enhancing usability of the site. These applications are used by researchers worldwide free of charge to help understand and fight infectious and allergic diseases.

    The ideal candidate will have a solid understanding of biology, experience in industry-standard development workflows, and will be able to work as part of a diverse team of principal investigators, postdocs, bioinformatics specialists, and programmers. The candidate will also be able to contribute to decisions on high-level software and hardware architecture.

    RESPONSIBILITIES

    Key Responsibilities:
    • Write and maintain re-usable code
    • Migrate several apps from Java/Tomcat to Python/Django
    • Develop RESTFUL APIs for new and existing tools
    • Develop standalone applications for new and existing tools
    • Implementing interfaces to new tools as they become available
    • Squash bugs as they are uncovered
    • Work with LJI and external postdocs and developers to port code to hardened web applications

    REQUIREMENTS

    Required skills/expertise:
    • Python, Django, and Javascript expertise
    • REST web services
    • Java
    • RDBMS and SQL
    • Version control systems (SVN, git, etc.)
    • Coding best practices (documentation, unit testing, etc.)
    • Knowledge of Biology/Immunology/Bioinformatics or strong desire to learn
    • Optional skills/qualifications:
    • Server administration (MySQL, Apache, Tomcat, etc.)
    • NoSQL databases
    • PBS/Torque
    • RabbitMQ
    • Celery
    • Docker
    Work environment:
    • Must be willing to work as part of a team
    • Must be able to juggle priorities and adapt as they change

    COMPENSATION

    Title and salary commensurate with experience.

    HOW TO APPLY

    Interested candidates must send their resume, a cover letter, and list of three professional references to be considered. Please enclose the required documents within a single file attachment.

    To apply, please visit our careers page: http://www.liai.org/page[...]loper

    BACKGROUND

    The Herbert Irving Comprehensive Cancer Center (HICCC) is seeking an Associate Research Scientist to support the bioinformatics operations of the Biomedical Informatics Shared Resource (BISR) and the Columbia University JP Sulzberger Genome Center (CGC). The BISR (http://www.hiccc.columbia.edu/rese[...]rces/) supports the computational biology and bioinformatics needs of HICCC investigators on a wide range of projects in the areas of Cancer Research, including the analysis of gene expression, polymorphism, sequence, microRNA, and epigenomics data. The CGC (http://genome.columbia.edu) is equipped with state-of-the-art high-throughput sequencing instruments and has extensive collaborations with investigators at Columbia University working on biology, human diseases, and precision medicine.

    RESPONSIBILITIES

    The candidate will be expected to work with scientists to understand project requirements and to provide advice and guidance on bioinformatics solutions. As a result, he or she must possess excellent interpersonal and communication skills. The candidate may also work with programming staff in designing and implementing larger scale solutions for specific projects. BISR projects will involve the analysis of microarray and RNA-Seq gene expression data, including differential expression analysis, pathway enrichment analysis, computational methods for supervised and unsupervised learning, as well as integrative approaches utilizing systems biology methods. CGC projects will involve improving and maintaining a robust and highly automated computational pipeline for analyzing RNA-Seq and genome sequencing data; improving quality control procedures and interpreting quality control metrics for optimizing high-throughput sequencing experiments; and leading data analysis in strategic collaborations, including new technology development and human disease studies.

    REQUIREMENTS

    The successful candidate must be able to work and thrive at the interface between laboratory science and computational biology. Applicants should have a good working knowledge of a variety of platforms for genomic data analysis. The ideal candidate will be able to complement this experience with programming skills to extend existing tools and develop new tools as needed.

    Minimum Qualifications:
    • PhD in Computational Biology, Bioinformatics, Genetics, or equivalent field
    • Experience in the analysis of next generation sequencing data
    • Fluency with R/Bioconductor at with at least one general-purpose programming language such as Python
    • Excellent communication skills and ability to work as member of a team
    • Strong creative thinking and organizational skills with demonstrated experience in problem solving and programming for bioinformatics projects

    PREFERENCES

    Preferred Qualifications:
    Working knowledge of Java, Perl and/or C++ is a plus. Experience working with a relational database system such as MySQL would be very helpful.

    HOW TO APPLY

    You may submit application directly through academicjobs.columbia.edu and search by Requisition # 0006503 or by using the quicklink provided: http://academicjobs.columbia.edu/appl[...]62335

    POLICY

    Columbia University is an Equal Opportunity and Affirmative Action Employer.

    BACKGROUND

    The Institute for Genome Sciences (IGS) and Genomics Resource Center (GRC) is recruiting for a Bioinformatics Analyst II. Comprised of an inter-disciplinary, multi-department team of investigators, IGS uses genomics and bioinformatics to understand genome function in health and disease, to study molecular and cellular networks in a variety of model systems, and to generate data and bioinformatics resources of value to the international scientific community. The Genomics Resource Center (GRC) is a high-throughput laboratory and data analysis group supporting the scientific programs of IGS and its collaborators , both across the University of Maryland Baltimore campus and around the globe. Using multiple high-throughput sequencing and analysis platforms, the GRC generates high-quality genomic data in a cost-effective manner. Bioinformatics teams at IGS include researchers with expertise in genome assembly, genome analysis and annotation, comparative analysis, evolutionary analysis, systems biology, cancer genomics, and genotyping. The Informatics Resource Center (IRC) at IGS provides annotation and analysis of genomic data for projects locally and internationally, using state-of-the-art computational infrastructure.

    With minimal supervision, the Bioinformatics Analyst II will contribute to genomic research projects and scientific analysis of the data generated by those projects using a variety of database and software applications. The responsibilities include generation, annotation, gathering or analyzing data and preparing for further analysis, research, or publication.

    RESPONSIBILITIES

    • Independently develop procedures or specific scientific protocols, add value to data generated by genome sequencing projects through assembly, annotation, curation, and quality assurance.
    • Perform 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 and present the data at scientific meetings.
    • Perform data mining and synthesis activities using various internal resources, public databases and publications.
    • Participate and contribute to multiple ongoing projects as a member of large-scale, multi-member project teams.
    • Participate in community outreach and training.

    REQUIREMENTS

    Education: Bachelor's degree in Computer Science, Information Systems, Bioinformatics or Life Sciences, including fields, I.e., Biology, Molecular Biology, Genetics, Biochemistry.

    Experience: Two (2) years genomic research analysis experience in Windows and UNIX-based operating systems.
    • Strong knowledge of molecular biology, microbiology, genetics, and/or infectious disease research and their relationship to genomics
    • Demonstrated experience with genomic data QC/QA, assembly, annotation, or other analysis
    • Experience independently developing procedures or specific scientific protocols, adding value to data generated by genome sequencing projects through assembly, annotation, curation, and quality assurance
    • Proficiency using relational database management systems (e.g., Sybase, MySQL, PostgreSQL, or Oracle)
    • Analysis of genomic data and formatting for use by other analysts or scientists
    • Experience contributing to multiple ongoing projects as a member of large-scale, multi-member project teams
    • Excellent oral and written communication, presentation and interpersonal skills

    PREFERENCES

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

    LOCALE

    US-MD-University of Maryland, Baltimore

    COMPENSATION

    Commensurate with education and experience

    HOW TO APPLY

    Applicants can apply on-line at the University of Maryland, Baltimore Website - http://www.umaryland.edu/jobs/

    If accommodations are needed for a disability, please contact Staffing & Career Services at 410-706-7171, Monday -- Friday, 8:30am -- 4:30pm EST. Maryland Relay can be accessed by dialing 711 (in-state) or 1-800-735-2258.

    DEADLINE

    Open until filled

    POLICY

    Equal Opportunity/Affirmative Action Employer. Minorities, women, protected veterans, and individuals with disabilities are encouraged to apply.

    BACKGROUND

    The Institute for Genome Sciences (IGS) and Genomics Resource Center (GRC) is recruiting for a Bioinformatics Analyst I. Comprised of an inter-disciplinary, multi-department team of investigators, IGS uses genomics and bioinformatics to understand genome function in health and disease, to study molecular and cellular networks in a variety of model systems, and to generate data and bioinformatics resources of value to the international scientific community. The Genomics Resource Center (GRC) is a high-throughput laboratory and data analysis group supporting the scientific programs of IGS and its collaborators, both across the University of Maryland Baltimore campus and around the globe. Using multiple high-throughput sequencing and analysis platforms, the GRC generates high-quality genomic data in a cost-effective manner. Bioinformatics teams at IGS include researchers with expertise in genome assembly, genome analysis and annotation, comparative analysis, evolutionary analysis, systems biology, cancer genomics, and genotyping. The Informatics Resource Center (IRC) at IGS provides annotation and analysis of genomic data for projects locally and internationally, using state-of-the-art computational infrastructure.

    Bioinformatics Analysts contribute to genomic research projects and scientific analysis of the data generated by those projects using a variety of database and software applications. Their responsibilities include generation, annotation, gathering or analyzing data and preparing for further analysis, research, or publication.

    RESPONSIBILITIES

    • 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.
    • Perform data mining and synthesis activities using various internal resources, public databases and publications.
    • 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.
    • Other duties as assigned

    REQUIREMENTS

    Education: Bachelor's degree in Computer Science, Information Systems, Bioinformatics or Life Sciences, including fields, I.e., Biology, Molecular Biology, Genetics, Biochemistry.

    Experience: Experience with Windows and UNIX-based operating systems.
    • Knowledge of relational database management systems, e.g., Sybase, MySQL, PostgreSQL, or Oracle
    • Basic knowledge of relational database management systems, e.g., Sybase, MySQL, PostgreSQL, or Oracle
    • Ability to effectively operate analysis software and manipulate data in a UNIX environment
    • Ability to learn additional computer skills quickly
    • Strong analytical skills and the ability to effectively solve problems within the scope of the position
    • Excellent oral and written communication, presentation and interpersonal skills
    • Able to document and describe routine processing

    PREFERENCES

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

    LOCALE

    US-MD-University of Maryland, Baltimore

    COMPENSATION

    Commensurate with education and experience

    HOW TO APPLY

    Applicants can apply on-line at the University of Maryland, Baltimore website: http://www.umaryland.edu/jobs/

    If accommodations are needed for a disability, please contact Staffing & Career Services at 410-706-7171, Monday -- Friday, 8:30am -- 4:30pm EST. Maryland Relay can be accessed by dialing 711 (in-state) or 1-800-735-2258.

    DEADLINE

    Open Until Filled

    POLICY

    Equal Opportunity/Affirmative Action Employer. Minorities, women, protected veterans, and individuals with disabilities are encouraged to apply.

    BACKGROUND

    The Samuel Roberts Noble Foundation, Inc. is seeking applicants for the position of Postdoctoral Fellow in Bioinformatics to develop innovative methods, bioinformatics software and systems to investigate and decipher the plant genotype-phenotype (G2P) associations through integrative genome-scale biological network and genome-wide association analysis. Research related to this position will be conducted in the laboratory of Dr. Patrick Zhao.

    This temporary Postdoctoral Fellow position is funded through a grant from the National Science Foundation. Funding is anticipated to be renewed annually based upon performance and funding availability and is scheduled to end on or before May 31, 2019.

    RESPONSIBILITIES

    The successful candidate will be responsible for the development of novel algorithms/models and new tools 1) to mine large-scale functional "omics", genotypic, and phenotypic data to study how genome-scale gene regulatory networks regulate biological processes, pathways, and complex plant traits; and/or 2) to enable precise, genome wide molecular marker-trait association analysis in plants by incorporating novel statistical genetics approaches.

    Other duties of the position also include, but are not limited to, soundly and timely design and implementation of experiments, complete data analysis and interpretation, preparing results and manuscripts for publication in peer-reviewed journals and participation in the Foundation's profession development program.

    REQUIREMENTS

    Qualifications:
    Applicants are required to have a Ph.D. in Quantitative Sciences, Engineering, Bioinformatics, Computer Science, Information Systems, Electronic Engineering, Genomics, Genetics, Plant Biology or other related field.

    PREFERENCES

    Preferred Qualifications:
    • Independent problem solving skills along with comprehensive knowledge related to mathematics, computer programming and algorithm implementation
    • Programming skills with one of major computational languages such as C/C++, Java, Python, Perl or PHP; efficiency in Linux/Unix operating systems
    • Understanding of the basic biological principles and the ability to develop biological insight applications
    • Have good communication skills, strong team-work spirit, and self-learning abilities

    HOW TO APPLY

    To apply, please follow the online instructions.

    The Noble Foundation does not accept unsolicited resumes from individuals interested in future employment. Applicants must be applying for available posted positions and must follow the application procedures outlined.

    The Samuel Roberts Noble Foundation, Inc. will provide equal employment opportunity to applicants and employees, without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, genetics, disability or Veteran status.

    If you have a disability which adversely affects your ability to complete an on-line employment application or if you have general questions regarding the application process, please contact Human Resources by telephone at (866) 223-5810 or (580) 224-6230 or by email at nfhr[at]noble.org for assistance.

    https://careers-noble.icims.com/jobs[...]w/job

    BACKGROUND

    About Dana-Farber:
    Located in Boston, Dana-Farber Cancer Institute brings together world renowned clinicians, innovative researchers and dedicated professionals, allies in the common mission of conquering cancer, HIV/AIDS and related diseases. Combining extremely talented people with the best technologies in a genuinely positive environment, we provide compassionate and comprehensive care to patients of all ages; we conduct research that advances treatment; we educate tomorrow's physician/researchers; we reach out to underserved members of our community; and we work with amazing partners, including other Harvard Medical School-affiliated hospitals.

    RESPONSIBILITIES

    Overview:
    The Knowledge Systems Group at Dana-Farber Cancer Institute seeks a Senior Computational Biologist to perform integrative cancer genomics analysis and build cloud-based computational pipelines. This is an essential role for building precision medicine platforms within DFCI, analyzing genomic profiles and patient cohorts from TCGA and DFCI's enterprise sequencing effort, and contributing to our recently announced partnership with Intel for the Collaborative Cancer Cloud (CCC).

    Primary Responsibilities:
    • Perform integrative cancer genomics analysis on multiple data sets, including TCGA and the DFCI Profile project.
    • Build cloud-based computational pipelines for genomic analysis within the Collaborative Cancer Cloud (CCC) project.
    • Perform predictive modeling and distributed machine learning to correlate genomic signatures with patient outcome on large-scale cancer genomic data sets.
    • Collaborate with a group of computational biologists and software engineers to integrate your analysis into new precision medicine platforms at DFCI.

    REQUIREMENTS

    Required Skills:
    • Bachelors Degree required, Masters or Ph.D. in computational biology or computer science, with a strong cancer genomics focus, strongly preferred.
    • Expertise in integrative cancer genomics analysis
    • Expertise in building and validating NGS pipelines, such as variant calling pipelines or copy number analysis pipelines
    • Excellent communication and writing skills
    • Exceptional attention to detail
    • Strong leadership skills and high-level of persistence to lead a scientific project from start to finish
    The candidate must also demonstrate outstanding personal initiative and the ability to work effectively as part of a team.

    PREFERENCES

    Highly Desired Skills:
    • Prior experience in analyzing TCGA data sets
    • Prior experience in building cloud-based computational pipelines. Experience with WDL or CWL a plus.

    TERMS

    Job Family: IT/Health IT/Informatics
    Full/Part Time: Full-Time
    Schedule: Standard Business Hours, Monday - Friday, 8:30am-5:30pm
    Regular/Temporary: Regular
    FLSA Status: Exempt

    LOCALE

    Center for Life Sciences
    Boston, MA, USA

    HOW TO APPLY

    Please apply directly online at http://www.dana-farber.org/Care[...].aspx. Click Search Job Openings and use the Job ID number to quickly locate the appropriate job listing. Once you have located the desired job, click on the checkbox in the 'Select' column, and then click the 'Apply Now' button, located at the bottom of the screen.

    DFCI Employees please apply directly through PeopleSoft Self Service. Sign on to PeopleSoft and navigate to Main Menu > DFCI Careers.

    Please send a short description of your interest with your resume / CV.

    Job ID: 28168
    Date Posted: 05/10/2016

    Apply Here: http://www.Click2Apply.net/gft85ybsfk

    POLICY

    Equal Employment Opportunity

    Dana-Farber Cancer Institute is an equal opportunity employer and affirms the right of every qualified applicant to receive consideration for employment without regard to race, color, religion, sex, gender identity or expression, national origin, sexual orientation, genetic information, disability, age, ancestry, military service, protected veteran status, or other groups as protected by law.

    BACKGROUND

    At Memorial Sloan Kettering (MSK), we're not only changing the way we treat cancer, but also the way the world thinks about it. By working together and pushing forward with innovation and discovery, we're driving excellence and improving outcomes.

    For the 26th year, MSK has been named a top hospital for cancer by U.S. News & World Report. We're treating cancer, one patient at a time. Join us and make a difference every day.

    RESPONSIBILITIES

    We are currently seeking a Bioinformatics Group Leader to direct a new bioinformatics group in the Center for Molecular Oncology (CMO), a program developed to lead large-scale translational and clinical research and promote "precision" medicine through tumor molecular profiling.

    As a Bioinformatics Group Leader you will:
    • Supervise a group of engineers, programmers and computational scientists to develop and utilize software and database systems to track and manage laboratory processes, catalyze technology development, and analyze "next-generation" sequence data primarily from human tumors
    • Work closely with CMO leadership, experimental and computational biologists, and technical staff in the Center
    • Assist clinical and translational researchers with analysis of core genomic projects

    REQUIREMENTS

    • MS degree required, PhD degree strongly desired in bioinformatics, computer science, genomics, or relevant field
    • At least 7-10 years of postgraduate training in academic or industry research is required with expertise operating in a high-throughput production environment
    • Cross-disciplinary and strong analytic skills, as well as broad experience with bioinformatics methods, databases, software, and computer programming languages are essential. Previous managerial experience of a multifaceted group is mandatory.
    • Highly organized and self-directed individual who is able to work in a dynamic, team-oriented environment
    Thorough experience with the following is required:
    • UNIX environment
    • Next-generation sequence analysis packages (e.g. Picard, Samtools, GATK)
    • Advanced programming skills
    • Database management (e.g., both SQL and modern noSQL systems)
    • Statistical packages (e.g., R)
    • High performance computing
    Essential Skills/Attributes:
    • Outstanding communication and interpersonal skills
    • Detailed expertise and proven track record with bioinformatics concepts, methods, and tools
    • Strong organizational and troubleshooting abilities
    • Familiarity with genomic technologies
    • Proficiency with genomic data, tools, and databases
    • Experience with human cancer bioinformatics analysis desired
    • Demonstrated attention to detail and analytical skills
    • Excellent time management skills, especially involved the simultaneous management of multiple projects
    • Experience in software management strongly desired
    • Leadership skills and ability to work well in a team environment
    • Passion for science and desire to impact cancer

    LOCALE

    New York, NY

    COMPENSATION

    Competitive

    HOW TO APPLY

    Apply online at careers.mskcc.org and search by Job Title or Job Posting Number: 8315

    POLICY

    MSK is an equal opportunity and affirmative action employer committed to diversity and inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration without regard to race, color, gender, gender identity or expression, sexual orientation, national origin, age, religion, creed, disability, veteran status or any other factor which cannot lawfully be used as a basis for an employment decision.
    Federal law requires employers to provide reasonable accommodation to qualified individuals with disabilities. Please tell us if you require a reasonable accommodation to apply for a job or to perform your job. Examples of reasonable accommodation include making a change to the application process or work procedures, providing documents in an alternate format, using a sign language interpreter, or using specialized equipment.

    BACKGROUND

    SingHealth Duke-NUS Institute of PRecISion Medicine (PRISM) is the institutional flagship initiative of SingHealth and Duke-NUS Medical School that aims to drive, promote and standardize the use of Precision Medicine and Precision Health for improving patient care, focusing on diseases relevant to Asian populations. Among our various projects, we are developing SPECTRA; a multi-dimensional database of healthy Asian normality incorporating genomic, clinical, lifestyle, and imaging data. Targeting 5,000 healthy volunteers, SPECTRA will serve as an invaluable reference database for disease-oriented studies at SingHealth/Duke-NUS and across the nation.

    RESPONSIBILITIES

    We are seeking a Bioinformatics Specialist who will play an instrumental role in building PRISM's production analytics platform. Among others, you will be responsible for implementing cutting-edge bioinformatics analysis pipelines that scale across distributed computing environments, and into the cloud. You will also be using your background and experience in machine learning to develop analytics pipelines that will derive insights for precision medicine from complex and heterogeneous datasets. Finally, you will also play a key role in helping build a genome-phenome data warehouse that will enable all our various datasets to reside in one place and enable integrative analysis.

    REQUIREMENTS

    Educational/Professional Qualifications:
    • PhD/MSc in Computational or Life Sciences (e.g. computer science, computational biology, genetics, biology)
    Relevant Experience:
    • Degree or proven experience in bioinformatics and statistics
    • Previous experience on handling next generation sequencing pipelines and gene expression analysis projects
    • Familiarity with contemporary high-performance computing (HPC) and big data analytics methodologies: Cloud computing, containerization, distributed and parallel computing
    • Knowledge of statistical and machine learning approaches, as well as big data processing frameworks such as Apache Spark is desirable.
    • Must be well-versed in the Unix environment, Perl/Python and R.
    Personal Characteristics & Behaviours:
    • Ability to work as a team player
    • Effective communication of work-related activities to upper management, peers, and peers and management in collaborating organizations
    • Able to effectively manage multiple ongoing priorities
    • Flexibility in learning new technical skill and new areas of biomedicine

    LOCALE

    National Heart Centre, Singapore

    HOW TO APPLY

    Email wengkhong [dot] lim [at] duke-nus [dot] edu [dot] sg with CV, copies of up to three recent papers, and, if a recent graduate, a copy of your university transcripts (courses and grades). Please indicate "PRISM Bioinformatics applicant" in your subject line.

    DEADLINE

    Position open 6 May 2016 until filled

    BACKGROUND

    The Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc. (HJF) is seeking a Bioinformatician for the Surgical Critical Care Initiative (http://www.sc2i.org), a Department of Defense precision medicine program located at the Uniformed Services University of the Health Sciences (Bethesda, MD). Responsibilities are to provide biostatistical support for clinical and/or laboratory research. This involves performing statistical analysis on data collected from clinical trials and/or research studies.

    RESPONSIBILITIES

    • Performs data management, data modeling, and software engineering to support analytical projects
    • Provides statistical support via statistical consultation and data analyses throughout the courses of studies and assists in the preparation of statistical reports for presentations and publications.
    • Assists in the design of biomedical research protocols
    • Assists with coordinating statistical analysis and protocol data between protocols by providing statistical consulting on an ad hoc basis
    • Provides relevant statistical and project status updates to research staff
    • Works with research staff to achieve the goals of the research program
    • Performs other duties as required

    REQUIREMENTS

    Required Knowledge, Skills, and Abilities: Experience with a scripting or programming language such as Perl, Python, C++, Java or similar. Experience with relational databases such as MS SQL Server, MySQL, SQLite or similar. Experience with a statistical computing language such as SAS, MATLAB, or R. Data modeling, machine learning, and software engineering experience a plus.

    Minimum Education/Training Requirements: Bachelor's degree in Statistics, Bioinformatics, Computational Biology, Biology, Computer Science or similar.

    Minimum Experience: 2 to 4 years experience

    Physical Capabilities: Extended periods of sitting and working at a computer

    Work Environment: Office or laboratory environment

    HOWO TO APPLY

    Please copy and paste the following URL into your web browser: http://careers.hjf.org/psp/[...]Seq=1

    POLICY

    The Henry M. Jackson Foundation for the Advancement of Military Medicine, Inc. (HJF) is an equal opportunity and affirmative action employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, protected veteran status or other status protected by law.

    BACKGROUND

    Helping accelerate scientific discovery in Mental Health Research Field

    OMNITEC Solutions, Inc. (https://www.omnitecinc.com) has an employment opportunity available for a Scientific Data Analyst / Clinical Data Curator to join our team supporting the NIMH Data Archive. We have designed and implemented the leading data sharing platform at the National Institutes of Health (NIH). See http://data-archive.nimh.nih.gov

    This platform has expanded to include all human subjects research data related to mental health and will soon support other research areas.

    If you enjoy hands-on work with things like universal data definitions, data curation, data harmonization or data QA/QC, this is the job for you!

    RESPONSIBILITIES

    Using your science, research, and overall data management skills, you will help organize large, complex data sets making them broadly available to the scientific community.

    The focus of this position is to help harmonize and QA large amounts of scientific data. In helping manage this research/scientific data, you will have heavy interfacing with end-users who are Researchers, Scientists, or data managers.

    REQUIREMENTS

    Required Skills:
    • A degree is required, preferably in life sciences, bioinformatics, or related field.
    • Experience with big and complex data sets is required, with any experience managing scientific or medical data like MRI data files, next-gen sequencing, etc., a big plus.
    • Strong data management concepts and experience with a relational database and/or complex Excel files, with any SQL and/or Scripting skills preferred.
    • The ability to work collaboratively on projects with an intensely goal oriented team
    • The flexibility and dedication to deliverables allowing you to take on multiple roles and shifting priorities based on end-user priorities
    • Excellent verbal and written communication skills, to include demonstrable past work performance and/or assignments requiring active interaction with Researchers, Analysts, other technical staff, and end users
    • US Citizenship is required along with the ability to pass a Minimal Background Investigation/MBI to ensure your access to client systems and work sites.
    Additional Helpful Skills:
    • Amazon Web Services / AWS or other Cloud technologies
    • Graph based analysis tools
    • Proficiency with scripting languages
    • Any experience with universal data definitions
    • Clinical assessments (clinical trial experience is a plus)
    • Understanding about biological data variability

    LOCALE

    Work site location and Zip Code: Rockville, MD 20892

    HOW TO APPLY

    If you are applying to this position from an external job posting, you can apply directly via our web site, https://www.omnitecinc.com/Care[...].aspx. Please be sure to:
    1. Add Employment[at]omnitecinc.com to your contacts list, and
    2. Use Chrome, Firefox/Mozilla, or Safari for your browser as IE tends to have display issues.
    Job Title: Scientific / Clinical Data Analyst
    Alternate Job Title: Clinical Data Curator

    POLICY

    OMNITEC Solutions, Inc., is an Equal Opportunity/Affirmative Action employer. All qualified applicants will receive consideration for employment without regard to age, ancestry, color, disability, gender, gender identity, marital status, national origin, race, religion, sexual orientation, veteran status or any other characteristic protected by law.

    BACKGROUND

    Berkeley Lab is Bringing Science Solutions to the World, and YOU can be a part of it!

    In the world of science, Lawrence Berkeley National Laboratory (Berkeley Lab) is synonymous with "excellence." That's why we hire the best -- whether in research, finance or other operations. This is a great opportunity to bring your top-notch skills to bear in support of world-class scientific research that addresses national and global challenges!

    RESPONSIBILITIES

    Position Summary:
    The Department of Energy Joint Genome Institute (DOE JGI, a division of Berkeley Lab) is looking for a Research Scientist to join the Metagenome Program. The position will report to the Metagenome Program Group Lead.

    This position has three primary roles:
    •  Design, conduct and publish independent research that pushes the boundaries of metagenomics. Current research cuts across ecosystems and includes projects like discovering new RNA viruses in metagenomes through machine learning methods, sequencing the first large-scale soil virus metagenomes, constructing large scale Bayesian ecological networks and exploring plant-microbe interactions.
    •  Develop new computational and molecular methods in metagenomics that can be applied by our production groups to thousands of metagenome samples per year.
    •  Assist scientists who have received user grants from the Joint Genome Institute in planning and implementing experiments.
    Specific Responsibilities:
    •  Lead or assist in diverse 16S tag, metagenome and metatranscriptome sequencing efforts.
    •  Perform new and detailed analysis of ribosomal DNA sequence data, metagenomic shotgun sequence data, and metatranscriptome data: build phylogenetic trees, analyze annotated metagenomes, and perform comparative analyses.
    •  Work on the development of software for machine learning and network analysis of genomic data.
    •  Design and carry out experiments aimed at recovering microbial genome sequence from environmental samples.
    •  Create, design, and execute experiments to obtain metagenomic, metatranscriptomic and/or single cell genomic data from target functional and phylogenetic groups of interest
    •  Perform Research & Development experiments to improve and automate various aspects of metagenomic sequencing, assembly, annotation, and binning.
    •  Identify areas of improvement and efficiency and offer feedback.
    •  Troubleshoot all stages of experimental process and optimize Standard Operating Procedures (SOP).
    •  Interface with collaborators, JGI staff, management, and sponsors at other national laboratories.
    •  Publish in peer-reviewed journals; contribute to scientific research papers and reports.
    •  Prepare proposals.
    •  Lead, mentor and train postdoctoral fellows, technical staff and other group members as necessary.
    Additional Desired Responsibilities:
    •  Attend group meetings and present status reports and scientific findings.
    •  Keep an accurate and detailed record of laboratory and analytical work.

    REQUIREMENTS

    Required Qualifications:
    •  Ph.D. in Molecular Biology, Biology, Genetics or a closely related discipline and/or normally less than 5 years related
    •  Demonstrated ability to independently carry out creative research with a proven record of publications and achievement
    •  Experience programming in Python, Bash scripting and familiarity with Linux/Unix
    •  Experience with environmental nucleic acid extraction and next generation sequencing technologies and with the R statistical analysis platform
    •  Familiarity with Molecular Biology Techniques such as: PCR, qPCR, cloning
    •  Familiar with command line sequence analysis tools e.g. Bbtools, Last, Hmmer, Megahit, Velvet, Samtools
    •  Familiar with databases, e.g. RefSeq, BioCyc, PFAM, IMG
    •  Experience in 16S rRNA sequence analysis tools and databases including QIIME, Greengenes, RDP, and Silva
    •  Demonstrated ability to conduct and perform collaborative research and effectively interact with a broad range of colleagues with tact and diplomacy
    •  Effective problem solving and decision-making skills with the ability to troubleshoot experimental processes and provide analysis
    •  Excellent organizational, analytical, and record-keeping skills with the ability to organize and present technical reports to collaborators, JGI staff, management, and sponsors
    •  Demonstrated ability to accurately and eloquently represent and promote scientific projects to audiences of diverse technical backgrounds
    •  Effective interpersonal skills with experience establishing effective collaborations and interacting with members of the scientific, instrumentation and informatics communities
    •  Excellent written communication skills with demonstrated experience preparing funding proposals and research publications

    PREFERENCES

    Additional Desired Qualifications:
    •  Experience with machine learning especially using using Apache Spark/MLlib, Scikit-learn and deep neural networks
    •  Experience in viral biology

    LOCALE

    Work will be performed at the DOE Joint Genome Institute (JGI) in Walnut Creek, CA.

    TERMS

    This is a 1 year, career-track term appointment that may be renewed to a maximum of 5 years and that may be converted to career based upon satisfactory job performance, continuing availability of funds, and ongoing operational needs. This position requires completion of a background check.

    COMPENSATION

    Salary is commensurate with experience.

    ABOUT US

    Berkeley Lab 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.

    HOW TO APPLY

    Apply directly online at http://50.73.55.13/coun[...]67838 and follow the on-line instructions to complete the application process.

    The posting shall remain open until the position is filled.

    POLICY

    Equal Employment Opportunity: Berkeley Lab is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, disability, age, or protected veteran status. Berkeley Lab is in compliance with the Pay Transparency Nondiscrimination Provision under 41 CFR 60-1.4 (http://www.dol.gov/ofcc[...]c.pdf). Click here (http://www.dol.gov/ofcc[...]t.pdf) to view the poster: "Equal Employment Opportunity is the Law".
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