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    Software: BIRCH Bioinformatics System v3.20
    Submitted by Brian Fristensky; posted on Tuesday, May 24, 2016



    • blastdbkit - Tools for installing, updating and deleting and managing local copies of NCBI BLAST databases.
    • BLAST+ - updated to version 2.3.0
    • BIRCH News - Learn more about what you can do with BIRCH, and about new features.


    • A comprehensive desktop bioinformatics system which comes with many of the commonly-used bioinformatics programs pre-installed
    • A framework of tools, files, and documentation for organizing and managing a bioinformatics core facility
    • An expandable system that allows you to merge 3rd party programs and documentation seamlessly into the standard BIRCH distribution
    Please visit[...].html



    The Zika virus was relatively unknown until 2015, when it made headlines due its rapid spread and its link to severe brain-related deficiencies in newborns born to mothers who contracted the virus while pregnant. Dr. Carolina Horta Andrade, the principal investigator for the new OpenZika project, discusses how she and an international team of researchers are using World Community Grid to accelerate the search for an effective anti-Zika treatment.
    Events: 2nd Annual Converged IT Summit
    Submitted by Heidi Ohrenberger; posted on Wednesday, May 18, 2016

    October 24-26, 2016
    San Diego, CA, USA

    With research laboratories now capable of generating staggering amounts of data, the IT infrastructure required to store, move and process this information must become an integral part of strategic planning for success. The Second Annual Converged IT Summit will once again cover a broad range of topics framing the issues behind creating computational solutions for modern research methodologies. Our expanded program for 2016 will break out into two tracks, allowing in-depth exploration of both the Infrastructure and the Data Science needed to create a truly converged IT. Sessions will highlight technologies currently in use, how organizations are using them to accelerate discovery, efforts that have worked and those that have failed, organizational challenges and policies for research computing, and the art of converged infrastructure as a research tool.

    The Converged IT Summit is designed for professionals involved with strategic planning and implementation of IT technologies to support science. The goal is to deliver solutions to scientists that give them the freedom to discover.

    Events: 14th Annual Rocky Mountain Bioinformatics Conference
    Submitted by Suzi Smith; posted on Monday, May 16, 2016

    December 8-10, 2016
    Snomass, CO, USA

    The Rocky series, a meeting of the International Society for Computational Biology (ISCB), 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.

    Please take a look at our website for details and submission dates. We hope you enjoy the science, the company, and the spectacular scenery of the Rocky Mountains. Welcome!



    Scientists are now contemplating the creation of a synthetic human genome, meaning they would use chemicals to manufacture all the DNA contained in human chromosomes.

    The prospect is spurring both intrigue and concern in the life sciences community, because it might be possible -- if someone were able to create a totally artificial genome -- to implant that genome into embryos and create human beings without parents.


    The NCBI Eukaryotic Genome Annotation Pipeline celebrates the annotation of its 300th organism with a cavefish genome, Sinocyclocheilus anshuiensis, a cavefish.




    Six teams have been selected to advance their product ideas into prototypes to compete for $230,000 in the Open Science Prize, a global science competition to make both the outputs from science and the research process broadly accessible to the public. The finalists, announced at the 7th Health Datapalooza Conference in Washington, D.C., were selected out of 96 multinational, interdisciplinary teams representing 450 innovators from 45 countries. These are the first finalists for this recently launched global prize competition, a collaboration between the National Institutes of Health and the U.K.-based Wellcome Trust with additional funding provided by the Howard Hughes Medical Institute of Chevy Chase, Maryland.

    Final prototypes will be submitted on Dec. 1, 2016, and will be demonstrated at an Open Science Prize Showcase to be held in early December 2016. The public will also be invited to consider and vote online for their favorite prototype. The ultimate Open Science Prize winner is expected to be announced in late February or early March 2017.


    October 2, 2016
    Seattle, WA, USA

    In conjunction with the ACM Conference on Bioinformatics, Computational Biology and Health Informatics 2016

    BigLS is a workshop series dedicated to the broad theme of Big Data in life sciences. The workshop is focused on, but not limited to, the following themes:
    • Scalable algorithms and techniques for big data analytics in molecular biology
    • Statistical and integrative approaches to big data biology
    • Emerging Machine Learning and AI techniques for big data biology
    • High performance computing methods and software for big data biology
    • Software and hardware foundations for managing big data in biomedical informatics
    Cross-topic papers focusing on techniques for heterogeneous medical data, translational research big data and P4 medicine are especially welcome!

    This year, the workshop will feature a keynote address by Nathan Price, Professor and Associate Director of the Institute for Systems Biology.

    Thanks to the support from the NSF, the workshop will offer the travel grants for students and postdoctoral researchers from US academic institutions.

    For paper submission instructions and other details, please visit the workshop web site at:


    Paper submission: June 24, 2016
    Authors notification: July 15, 2016
    Camera-ready papers: July 29, 2016



    It's no secret that Google has broad ambitions in healthcare. But a document obtained by New Scientist reveals that the tech giant's collaboration with the UK's National Health Service goes far beyond what has been publicly announced.

    The document -- a data-sharing agreement between Google-owned artificial intelligence company DeepMind and the Royal Free NHS Trust -- gives the clearest picture yet of what the company is doing and what sensitive data it now has access to.

    The agreement gives DeepMind access to a wide range of healthcare data on the 1.6 million patients who pass through three London hospitals run by the Royal Free NHS Trust -- Barnet, Chase Farm and the Royal Free -- each year. This will include information about people who are HIV-positive, for instance, as well as details of drug overdoses and abortions. The agreement also includes access to patient data from the last five years.

    September 3, 2016, 9:00 - 17:00
    The Hague, The Netherlands
    World Forum, room: t.b.c.[...]s/w2/

    Submit an abstract for ECCB 2016 workshop -- extended deadline 18th May

    W2 -- Network Inference: New Methods and New Data


    Mammalian systems constitute over 200 cell types, each specialized to perform a distinct function, and yet all cell types share the same genome. This cell type specificity is achieved by a context-specific interpretation of the DNA sequence to produce a cell type specific transcription signature. Advances in sequencing techniques have accelerated the characterization of transcription landscapes across many normal and malignant cell types. The challenge now is to integrate these data to understand transcriptional control at a systems level. Over the years, powerful machine learning algorithms have been developed for inferring transcriptional networks from expression data, thereby revealing new aspects of complex biological systems.


    This one day SIG session will bring together experts from computational biology and machine learning to present recent advances in the development and application of gene regulatory network inference methods, as well as novel emerging single-cell and epigenomics data types suitable for network inference. The SIG will be split into two half day sessions. The first half will focus entirely on novel network inference methods, while the second half will focus on opportunities and challenges arising from new data types. Each session will feature an invited speaker and three short talks.


    The target audience is researchers working in the field of network inference or anyone who is working with large scale genome wide data. We expect typically 20 participants.


    Six talks will be selected by the organisers from submitted abstracts (max. 250 words). There will also be a 'hands-on' session with short pitches of new network inference tools or databases. Abstracts for both kinds of talks should be submitted online via the Easychair submission system:[...]f2016. The deadline for submission is 18 May 2016.
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