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    Latest announcements

    BACKGROUND

    Two exciting Software Development opportunities have become available under the leadership of Professor Sir Mike Stratton as part of the CRUK Grand Challenge, Mutographs of Cancer project. This is an exciting opportunity for the successful candidates to apply novel bioinformatic algorithms to unravel the mutational signatures that will hopefully explain the major global differences in cancer incidence, to understand the biological mechanisms underlying cancer-causing mutational processes and to explore their application towards surveillance of mutagenic exposures in human populations.

    RESPONSIBILITIES

    The successful candidates will be embedded in a multidisciplinary team and will be tasked with further contributing towards developing the analysis pipelines for this project. These roles involve working at the interface between scientific and IT staff on this projects to ensure efficient analysis of the DNA sequencing data sets.

    These positions would suit a Bioinformatician/Software Developer who enjoys developing or enhancing software tools for analysis of complex NGS biological data sets and to make these efficient, visually appealing and interpretable by the scientific/clinical community. We are looking for individuals who enjoys working in a multi-disciplinary team environment to help solve complex IT issues which will ultimately aid our understanding of mutational processes in human cells.

    REQUIREMENTS

    • Good degree in Bioinformatics or Computer Science with a scientific background
    • Software development skills (using Perl and/or Python)
    • ORACLE/MySQL databases
    • Experience of handling Next Generation sequencing data LSF or Open Grid scheduling software
    • Experience working, developing and compiling software tools in a UNIX/LINUX environment
    • Enjoy working as part of a team

    PREFERENCES

    • Software development using a compiled language (C,C++,Java)
    • Experience of statistical analysis in a bioinformatics (in R)
    • Experience of workflow management IT systems
    • Experience of VMware, OpenStack or Amazon Web Services (AWS)
    • Experience of working in an Agile Software Development Group
    • Web development using Perl, Java, HTML(5), CSS, JavaScript
    • Background in cancer genetics

    COMPENSATION

    £31,498 to £39,729, plus excellent benefits.

    HOW TO APPLY

    Click on link: jobs.sanger.ac.uk/wd/p[...]08825

    Please include a covering letter and CV with your application.

    DEADLINE

    Closing date for applications: 19th April 2017, however applications will be considered and reviewed on an on-going basis and therefore the post may be filled before the deadline.

    POLICY

    Wellcome Trust Sanger Institute welcomes applications from all candidates irrespective of age, disability, gender, gender identity, sexual orientation, race, religion or belief, or marital or civil partnership status.
    Events: Rocky Mountain Bioinformatics Conference
    Submitted by Suzi Smith; posted on Wednesday, March 22, 2017

    December 7-9, 2017
    The Westin Hotel
    100Elbert Lane
    Snowmass Village, CO 81615
    www.iscb.org/rocky2017

    The Rocky series began fourteen years ago as a regional conference, and has grown into an international program with a spotlight on regional development in the computational biosciences. The presenters of the Rocky conference are scientists representing a broad spectrum of universities, industrial enterprises, government laboratories, and medical libraries from around the world. The meeting is a chance to get to know your colleagues near and far, seek collaborative opportunities, and find synergies that can drive our field forward.

    FOR MORE INFORMATION

    Contact:
    Stephanie Hagstrom
    admin[at]iscb.org

    BACKGROUND

    Leidos Overview:
    Leidos is a global science and technology solutions leader working to solve the world's toughest challenges in the defense, intelligence, homeland security, civil, and health markets. The company's 33,000 employees support vital missions for government and commercial customers. Headquartered in Reston, Virginia, Leidos reported pro forma annual revenues of approximately $10 billion for the fiscal year ended January 1, 2016 after giving effect to the recently completed combination of Leidos with Lockheed Martin's Information Systems & Global Solutions business (IS&GS). For more information, visit www.Leidos.com. The company's diverse employees support vital missions for government and commercial customers. Qualified women, minorities, individuals with disabilities and protected veterans are encouraged to apply. Leidos is an Equal Opportunity Employer.

    Program Description:
    The Molecular Characterization Laboratory (MoCha) is part of Leidos Biomedical Research's Clinical Research Directorate (CRD) at the Frederick National Laboratory for Cancer Research. The MoCha Laboratory is responsible for providing high-level research in support of the NCI-Cancer Diagnostics Program (CDP) within the Division of Cancer Treatment and Diagnosis (DCTD). MoCha is charged with the development and application of genomic assays for use in medical research and diagnostics for DCTD-sponsored national extramural clinical trials.

    RESPONSIBILITIES

    Job Description / Basic Function:
    • Serve as the technical authority on computational issues related to the assigned projects/programs
    • Validate and maintain genomic analysis pipelines for exome, whole genome and RNA-seq data generated from the MoCha lab and/or collaborator(s)
    • Provide biological interpretation of genomic analyses to advance the understanding of the molecular biology of cancer
    • Organize and manage large genomic datasets and the integration of data from multiple sources
    • Supervise the activities of bioinformatics team members to ensure quality of work and the prioritization of projects to meet deadlines
    • Interact with management to define strategies for genomic data analysis including hypothesis generation and testing of predictive biomarkers of drug response
    • Collaborate extensively with intramural laboratories at the NIH and extramural scientists
    • Generate scientific opinions, identify potential resources or constraints, and propose strategies for exploiting available databases and program data generated at the molecular and cellular levels

    REQUIREMENTS

    Basic Qualifications:
    To be considered for this position, you must minimally meet the knowledge, skills, and abilities listed below:
    • Possession of a PhD degree from an accredited college or university according to the Council for Higher Education Accreditation (CHEA) in biomedical science/bioinformatics/math/statistics/computer-related field
    • Foreign degrees must be evaluated for U.S. equivalency
    • A minimum of five (5) years of related computational experience in a biological/medical research laboratory environment with a strong background in bioinformatics application development
    • Experience in analysis of next generation sequencing (NGS) data (including quality metrics, mapping, variant calling, quantitation of gene expression and biological interpretation) and microarray analysis
    • Experience in analysis of large genomic data sets including integration with data available from public or private sources
    • Hands-on experience in data processing and analyzing sequencing and expression and other array data including quality and biological assessment
    • Experience in a computer cluster environment
    • Proficiency in bioinformatics tools, database management, bash shell scripting and programming languages such as R, C/C++, PYTHON, PERL, JAVA, SQL
    • Proficiency in several genomic data analysis tools such as GATK, Samtools, Bowtie, AnnoVar, etc., as well as biological pathway/functional analysis
    • Expertise in statistical and algorithm development for analyzing complex biological data
    • Experience and demonstrated success in a team-oriented environment
    • Excellent communication skills (written and oral)
    • Ability to identify and solve complex problems
    • Proven knowledge of cancer biology demonstrated through peer reviewed publications
    • Must be able to obtain and maintain a security clearance

    PREFERENCES

    Preferred Qualifications:
    Candidates with these desired skills will be given preferential consideration:
    • Post Doctoral experience
    • Experience in algorithm development for NGS data analysis
    • In-depth understanding of molecular biology techniques, oncology and clinical research
    • Experience in data integration, database construction, application development and visualization
    • Experience in porting applications to a web environment and working with workflow tools and applications
    • Supervisory experience

    TERMS

    Full Time

    LOCALE

    Frederick, MD

    HOW TO APPLY

    Please visit jobs.leidos.com/Show[...]NCI)/

    BACKGROUND

    Applications are invited for the position of Post-Doctoral Research Associate funded as part of the NIHR Cambridge Biomedical Research Centre to provide bioinformatics and biostatistics analysis of immunological data for research studies in psychiatry.

    The Department has several research projects ongoing that are collecting detailed immunological measurements including multiplex proteomics, flow cytometry and RNA transcripts on blood and cerebrospinal fluid from patients with depression, psychosis and other mental health disorders. This innovative and inter-disciplinary work is funded by the Wellcome Trust and the Medical Research Council with support from partners in the pharmaceutical industry. This role is designed to provide technical expertise and leadership in analysis of these large and complex datasets, and to originate new analytic tools as appropriate, to understand the links between the immune system, brain function and behaviour.

    REQUIREMENTS

    Candidates should have a PhD (or equivalent) in bioinformatics or biostatistics. Specialist knowledge and prior experience of using bioinformatics tools for analysis of immunological datasets would be advantageous.

    TERMS

    Fixed-term: The funds for this post are available for 2 years in the first instance.

    LOCALE

    The post will be based at the Cambridge Biomedical Campus, reporting to Professor Ed Bullmore, Department of Psychiatry (www.psychiatry.cam.ac.uk), and will also be embedded in the specialist bioinformatics/biostatistics research group of Dr Leonardo Bottolo, in the Department of Medicine (www.med.cam.ac.uk) and the Alan Turing Institute (www.turing.ac.uk), with close links to Professor Sylvia Richardson and colleagues in the MRC Biostatistics Unit (www.mrc-bsu.cam.ac.uk).

    COMPENSATION

    £29,301-£38,183

    The post will be appointed at the appropriate point on the University of Cambridge's research associate salary scale, depending on the seniority of the successful candidate.

    HOW TO APPLY

    Please visit www.jobs.cam.ac.uk/job/12772

    Informal enquiries may be directed to Mrs Karen Gipp (ke242[at]medschl.cam.ac.uk).

    DESCRIPTION

    The Boztug Lab and the Menche Lab at CeMM in Vienna are each searching for one motivated postdoctoral fellows for projects within a productive scientific collaboration. We joined forces to realize an ambitious project at the intersection of rare disease genetics, network biology and precision medicine that has the potential to have a lasting impact on each of these three fields.

    The Project – There are more than 7,000 rare diseases and collectively they affect around 5% of the population. Many of them are caused by single-gene defects and thereby offer unique opportunities to establish clear mechanistic genotype-phenotype relationships. To establish the precise molecular mechanisms by which individual gene aberrations perturb cellular networks, systems biology approaches will be instrumental. Rare diseases thus have extraordinary potential to serve as a paradigm for precision medicine that bridges the gap between wholistic, systems based analyses and actionable insights for personalized therapy. The overarching goal of the joint project is to rationalize patient-specific workflows from gene discovery and underlying pathomechanisms to targeted therapy. The subproject lead by Kaan Boztug will focus on using network biology to more efficiently identify novel disease etiologies underlying immunodeficiencies and to systematically dissect rare disease clusters to compare to more common immune disorders and to predict drug responses. The subproject lead by Jörg Menche will focus on the development of multi-layer network approaches to integrate diverse genomic data into a predictive platform for personalized medicine. Both research projects are funded by WWTF (www.wwtf.at).

    The Research Groups – Kaan Boztug (www.rare-diseases.at) is a leading immunologist and rare diseases researcher and director of the newly founded Ludwig Boltzmann Institute for Rare and Undiagnosed Diseases (LBI-RUD). His lab is interested in the genetics of rare primary immunodeficiencies and rare diseases of hematopoiesis with a special focus on disorders with autoimmunity and/or autoinflammation (Dobbs et al., NEJM 2015; Salzer et al., Nat Immunol 2016). His goal is to identify targets for tailored molecular therapies and to develop precision medicine approaches for diagnostics and treatment. His group applies a combination of state-of-the-art genomic technologies including next generation sequencing, a wide range of cellular and molecular techniques and innovative systems biology to elucidate novel pathways important for hematopoiesis and immune system homeostasis. Jörg Menche (www.tinyurl.com/joergmenche) leads a newly established computational network medicine group and is an expert in analyzing large datasets derived from post-genomic technologies through the lens of network science (Menche et al., Science 2015). His overarching goals are (i) to gain conceptual insights into the network signatures that characterize disease states, (ii) to convert these insights to novel bioinformatics tools for the analysis of molecular data and ultimately (iii) to make a real impact by translating concepts and tools to the clinic.

    The Institute (www.cemm.at) – CeMM is a flagship institute for biomedical research in the heart of Europe, Vienna. We are committed to highest scientific standards as exemplified by recent publications in top journals including Nature, Science and Cell. CeMM offers a uniquely dynamic, interactive and international environment and is located in a beautiful building at the center of the Medical University campus, within walking distance of Vienna's historical city center. CeMM has been ranked among the top-5 best places to work in academia (the-scientist.com/2012[...]-2012). Vienna is frequently ranked the world's best city to live in. It is a United Nations city with a large English-speaking community.

    The official language at CeMM is English, and more than 40 different nationalities are represented at the institute. We are convinced that diversity and a multicultural work environment are clear advantages for successful research and are committed to attract, develop, and advance the most talented individuals regardless of their gender, race, sexual orientation, religion, age, disability status or any other dimension of diversity.

    Why you want to join our team:
    • You want to pursue meaningful research projects at the highest level in an inspiring and international working environment.
    • You want to be part of the next generation of scientists that shape the future of medicine and value our numerous possibilities for personal and professional growth.
    • You appreciate our young and dynamic working atmosphere and the possibility to join our cultural, social and sports activities.
    • We are happy to provide help and assistance to all our employees, their spouses and family members in terms of visa and relocation procedures, dual-career and childcare services, and others.
    • You wish to receive a competitive salary: your position will be remunerated according to FWF personnel costs (www.fwf.ac.at/en/r[...]osts/) depending on qualifications and experience.
    Why we want you to join our team:
    • You are a proactive and independent thinker with a background in Bioinformatics, Systems or Network Biology, Complex Systems, or similar.
    • You are enthusiastic and passionate about science.
    • You are motivated to find innovative, creative and free-spirited solutions to open research questions.
    • You love to communicate, to collaborate, to connect different scientific disciplines and to contribute to multidisciplinary and multicultural teams.

    HOW TO APPLY

    Please apply online with a cover letter describing your career goals and explaining why you are the ideal candidate for this position, your detailed curriculum vitae and contact details of 2-3 referees. Please indicate in your cover letter which lab you would preferably like to join and upload your full application here: cemm.jobbase.io/job/l7vwx4x2

    Ideally, you should please submit one PDF file containing all of your application documents. Initial application deadline is 20th of April 2017, but the call will remain open until the position is filled.

     

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