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    Latest announcements

    Submitter

    EXCERPT

    The new study, which is the first of its kind, has helped scientists identify key differences in cell-pathway activity in the blood of septic adults and children. Establishing the pathways that help prevent sepsis is a powerful new way to discover drugs for intervention against sepsis and provides direct insight into potential cures for the disease.

    Winston Hide, Professor of Computational Biology at the University of Sheffield's Institute of Translational Neuroscience (SITraN), is an author of the pioneering study published in the journal Molecular Systems Biology.
    Source: medicalxpress.com/news[...].html
    Article: doi.org/10.1[...]77998

    BACKGROUND

    The German Cancer Research Center is the largest biomedical research institution in Germany. With approximately 3,000 employees, we operate an extensive scientific program in the field of cancer research.

    The Division of Regulatory Genomics and Cancer Evolution is seeking a Computational Research Assistant (Ref-No. 134/2018).

    Description:
    An advanced research assistant position in computational biology is available in the laboratory of Duncan Odom at the DKFZ's research program in Structural and Functional Genomics. Over the next year, the Odom lab will be moving to Heidelberg from the University of Cambridge. We are seeking a computational biologist to assist in moving our infrastructure and datasets from Cambridge, and adapt and reinstall them operationally in the DKFZ. You will also carry out a range of research activities and organisational duties in our dynamic and newly formed research group, and closely interact with collaborating bioinformatics groups in Heidelberg and Cambridge.

    We are looking for an experienced and highly motivated candidate who is excited about setting up a new laboratory focused on single-cell and functional genomics, applied questions in organismal and cancer evolution. This post may require visiting or living abroad in Cambridge, UK to work closely with Cambridge-employed Odom laboratory computational staff in order to facilitate required data transfers. Although this position requires high computational competence, expertise, and enthusiasm, this position is not a primary research role; instead, this post is an excellent opportunity for a computational research scientist to support the research portfolio of a cutting-edge genomics research group in a staff role.

    For more information on Odom laboratory research, please see: science.sciencemag.org/cont[...]/1433 scholar.google.co.uk/cita[...]AAAAJ

    REQUIREMENTS

    Your profile:
    • A strong knowledge of bioinformatics and computational biology is absolutely imperative.
    • Specific requirements:
      • MSc in computational biology, bioinformatics, or related field; PhD advantageous but not required
      • Fluency in Linux and with PostgreSQL is essential
      • Excellent knowledge of Python and Django is essential
      • Prior experience with microarray data or next generation sequencing data would be desireable
      • Requires excellent communication skills in English and German
      • Ability to keep good up-to-date records and write standard operating procedures

    TERMS

    The position is limited to 2 years. The position can in principle be part-time.

    HOW TO APPLY

    To apply for a position please use our online application portal (www.dkfz.de).

    For further information please contact d.odom[at]dkfz.de.

    We ask for your understanding that we cannot return application documents that are sent to us by post (Deutsches Krebsforschungszentrum, Personalabteilung, Im Neuenheimer Feld 280, 69120 Heidelberg) and that we do not accept applications submitted via email. We apologize for any inconvenience this may cause.

    POLICY

    The German Cancer Research Center is committed to increase the percentage of female scientists and encourages female applicants to apply. Among candidates of equal aptitude and qualifications, a person with disabilities will be given preference.

    BACKGROUND

    We are looking for a highly motivated and experienced computational scientist to develop genome assembly algorithms using 3rd generation sequencing data.

    The Wellcome Sanger Institute is a world leader in genomic research, with an expanding scientific programme dedicated to understanding gene function in health & disease.

    RESPONSIBILITIES

    In the High Performance Assembly group, part of Sequencing Informatics, we develop algorithms and software tools for de novo genome assembly and sequence alignment for various applications. High profile projects such as the Genome10K Vertebrate Genome Project (VGP) and the Cancer Genome Project start to collect and sequence a large number of human and non-human samples, aiming for high quality de novo assemblies. The sequencing platforms include, but not limited to PacBio, Oxford Nanopore, 10X genomics, Bionano and HiC etc and the VGP consortium plans to combine various data types in order to produce assemblies with the best quality. The 2nd and 3rd generation sequencing technologies offer huge amount of sequencing output at massively reduced costs but the new datasets pose significant challenges in the assembly progress. To further strengthen our bioinformatics applications development, we are looking for outstanding computational scientists to join us working in this exciting area.

    REQUIREMENTS

    • Educated to a PhD level in Computer Science, Mathematics, Physics, or a computational related area with 1-3 years of post-doc experiences
    • Highly skilled in C/C++ programming under Unix/Linuxi
    • Experiences in large scale scientific computation/simulation
    • Numerical algorithm design

    PREFERENCES

    • Perl and/or Java and skills
    • Multithread programming
    • Knowledge in sequencing technology and/or genome biology
    • Database design/administration
    • Project management experiences

    TERMS

    Fixed term contract for 3 years

    LOCALE

    HInxton, Cambridge CB10 1RQ

    Our Campus: Set over 125 acres, the stunning and dynamic Wellcome Genome Campus is the biggest aggregate concentration of people in the world working on the common theme of Genomes and BioData. It brings together a diverse and exceptional scientific community, committed to delivering life-changing science with the reach, scale and imagination to pursue some of humanity's greatest challenges.

    COMPENSATION

    Salary range: £31,503 to £39,492 (depending on experience) plus excellent benefits

    Our Benefits:
    Our employees have access to a comprehensive range of benefits and facilities including:
    • Group Defined Contribution Pension Scheme and Life Assurance
    • Group Income Protection
    • Private Health Insurance
    • 25 days annual leave, increasing by one day a year to a maximum of 30
    • Family friendly environment including options for flexible and part-time working, a childcare voucher scheme and Campus Nursery
    • Two days paid Employee Volunteering Leave a year
    • Employee Discount Scheme
    • Campus Gym, tennis courts, cricket pitch and sports hall plus a range of dining facilities
    • Active Campus Sports and Social Club
    • Free Campus Bus Service

    HOW TO APPLY

    Clicking on the following link: jobs.sanger.ac.uk/wd/p[...]54581

    Please include a covering letter and CV with your application.

    DEADLINE

    31st July 2018, however applications will be reviewed on an ongoing basis.

    POLICY

    Genome Research Limited is an Equal Opportunity employer. As part of our dedication to gender equality and promoting women's careers in science, we hold an Athena SWAN Bronze Award. We will consider all qualified applicants without discrimination on grounds of disability, sexual orientation, pregnancy or maternity leave status, race or national or ethnic origin, age, religion or belief, gender identity or re-assignment, marital or civil partnership status, protected veteran status (if applicable) or any other characteristic protected by law.

    Submitter

    June 14 through July-August, 2018
    Jaipur, India
    edu.t-bio.info/amit[...]tics/

    Pine Biotech and Amity University announce the registration for its upcoming Amity University Summer Bioinformatics Training Program which starts June 14 and continues through August 15, 2018. This training program will provide students and faculty access to online resources and practical exercises in analyzing high-throughput biomedical datasets.

    Are you interested in gaining practical bioinformatics skills to be able to analyze large collection of biomedical datasets? The upcoming summer program organized by the Amity University this summer is your chance to acquire such skills in its bioinformatics training program.

    Bioinformatics is a blend of molecular biology and data science and deals with the application of computational methods to analyze large collections of biological data, such as genetic sequences, cell populations or protein samples.

    For today's world biologists, scientists, engineers, students and educators bioinformatics provides an opportunity to enhance their understanding of biology using public domain datasets accumulated in such repositories NCBI, TCGA and many others. Amity University is collaborating with Pine Biotech to prepare online educational modules that provide curated projects and guided tutorials on how to apply algorithms and visualization tools through the user-friendly visual interface platform T-BioInfo (t-bio.info). This platform allows scientists and students from all backgrounds to use computational approaches to explore large biomedical data.

    The innovative program will address the major skills gap in processing and analysis of high-throughput biomedical data. This will be achieved by participants applying algorithms to quantify gene expression and detect statistically significant variation from RNA-seq projects in oncology.

    The summer program will see the use of a "deep dive" project based approach that reduces time spent on theoretical introductions to quickly introduce the students to the real issues and challenges one faces in a research project. This milestone achievement is possible due to utilization of the popular T-BioInfo platform that provides an intuitive and educational interface for the complex processing and analysis tools.

    About Amity University & Pine Biotech:
    Amity University, Jaipur established by the Govt. Act of 2008 of Government of Rajasthan. Its goal is to increase student interest in biomedical research careers throughout the world by providing summer research opportunities and programs to all Indian institutions.

    Pine Biotech is biomedical data analytics company that is commercializing a SaaS informatics platform for commercial researchers in need of a reliable and flexible solution to analyze large volumes of multi omics data. It's mission is to bring exiting new capabilities of big omics data analysis and integration using a simple and intuitive interface, innovative algorithms, integration and visualization.

    For more information and course registration visit the website or send an email to info[at]pine-biotech.com

    November 11, 2018
    Dallas, TX
    works.cs.cardiff.ac.uk
    Held in conjunction with SC18, sc18.supercomputing.org
    Paper submission deadline: July 30, 2018

    CALL FOR PAPERS

    Data-intensive workflows (a.k.a. scientific workflows) are routinely used in most scientific disciplines today, especially in the context of high-performance, parallel and distributed computing. They provide a systematic way of describing a complex scientific process and rely on sophisticated workflow management systems to execute on a variety of parallel and distributed resources. With the dramatic increase of raw data volume in every domain, they play an even more critical role to assist scientists in organizing and processing their data and to leverage HPC or HTC resources, being at the interface between end-users and computing infrastructures.

    This workshop focuses on the many facets of data-intensive workflow management systems, ranging from actual execution to service management and the coordination and optimization of data, service and job dependencies. The workshop covers a broad range of issues in the scientific workflow lifecycle that include: data-intensive workflows representation and enactment; designing workflow composition interfaces; workflow mapping techniques to optimize the execution of the workflow for different infrastructures; workflow enactment engines that need to deal with failures in the application and execution environment; and a number of computer science problems related to scientific workflows such as semantic technologies, compiler methods, scheduling and fault detection and tolerance.

    The topics of the workshop include but are not limited to:
    • Big Data analytics workflows
    • Data-driven workflow processing (including stream-based workflows)
    • Workflow composition, tools, and languages
    • Workflow execution in distributed environments (including HPC, clouds, and grids)
    • Reproducible computational research using workflows
    • Dynamic data dependent workflow systems solutions
    • Exascale computing with workflows
    • In Situ Data Analytics Workflows
    • Interactive workflows (including workflow steering)
    • Workflow fault-tolerance and recovery techniques
    • Workflow user environments, including portals
    • Workflow applications and their requirements
    • Adaptive workflows
    • Workflow optimizations (including scheduling and energy efficiency)
    • Performance analysis of workflows
    • Workflow debugging
    • Workflow provenance
    • Workflows in constrained environments e.g. IoT, Edge computing, etc.

    IMPORTANT DATES

    Papers due: July 30, 2018
    Paper acceptance notification: September 9, 2018
    E-copyright registration completed by authors: October 1, 2018
    Camera-ready deadline: October 1, 2018

    PAPER SUBMISSION

    Submitted papers must be at most 10 pages long. The proceedings should be formatted according to the IEEE format (see www.ieee.org/conf[...].html). The 10-page limit includes figures, tables, and appendices, but does not include references, for which there is no page limit. WORKS papers will be published in cooperation with TCHPC and will be available from IEEE digital repository.

     

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