Genome, health bio-Informatics #bioinfo
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NCGR, Simbiot join forces to create new solutions for handling genomic data - News-Medical.net

NCGR, Simbiot join forces to create new solutions for handling genomic data - News-Medical.net | Genome, health bio-Informatics #bioinfo | Scoop.it
NCGR, Simbiot join forces to create new solutions for handling genomic data News-Medical.net On Tuesday, the National Center for Genome Resources and Simbiot announced a strategic partnership to create new solutions for handling 'big data' in the...
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NCGR and Simbiot Inc announce global, strategic partnership - IT Business Net

NCGR and Simbiot Inc announce global, strategic partnership IT Business Net The two groups are joining forces to launch Lumenogix NGS, a software platform that offers researchers unprecedented knowledge mining and control over their own...
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Which 'omics' assembly tools are currently the most popular?

Which 'omics' assembly tools are currently the most popular? | Genome, health bio-Informatics #bioinfo | Scoop.it
I recently organized an online poll to find out which tools for genome,
transcriptome, and metagenome assembly are currently the most popular with
researchers. After a week or so of collecting results, I ended up with 116
responses.

Via Mel Melendrez-Vallard
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eXamine: Exploring annotated modules in networks

Background:
Biological networks have a growing importance for the interpretation of high-throughput “omics” data.

Via Mel Melendrez-Vallard
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Nilofer Jiwani's curator insight, July 8, 2014 5:09 PM

I like it. I think this has potential to be useful. May be we can brain-storm ...

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Global Bioinformatics Market 2013 - 2020 by Big Market Research

Global Bioinformatics Market  2013 - 2020 by Big Market Research | Genome, health bio-Informatics #bioinfo | Scoop.it
Press Release issued Jul 7, 2014: The market is expected to reach a value of $12.8 billion by 2020, with a CAGR of 21.2% during 2014-2020.

Via Prachi Tambat
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inPHAP: Interactive visualization of genotype and phased haplotype data

Background:
To understand individual genomes it is necessary to look at the variations that lead to changes in phenotype and possibly to disease.

Via Mel Melendrez-Vallard
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The Open Medicine Institute Launches Novel Bioinformatics-Healthcare ... - Virtual-Strategy Magazine (press release)

The Open Medicine Institute Launches Novel Bioinformatics-Healthcare ... - Virtual-Strategy Magazine (press release) | Genome, health bio-Informatics #bioinfo | Scoop.it
The Open Medicine Institute Launches Novel Bioinformatics-Healthcare ...
Virtual-Strategy Magazine (press release)
MT.
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Ewan's Blog: bioinformatician at large: Scaling up bioinformatics training online

Ewan's Blog: bioinformatician at large: Scaling up bioinformatics training online | Genome, health bio-Informatics #bioinfo | Scoop.it
Scaling bioinformatics training online. Blog post on @emblebi's train online portal http://t.co/xYXxAp4vUl
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Bioinformatics Market Outlook to 2015

Bioinformatics merchandising eyeshot so 2015: qrH http://t.co/h4jSRUTbLL
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OMI Rolls Out Updated Informatics Platform for Integrating Clinical, Genomic, Other Data Types | BioInform | Informatics | GenomeWeb

OMI Rolls Out Updated Informatics Platform for Integrating Clinical, Genomic, Other Data Types | BioInform | Informatics | GenomeWeb | Genome, health bio-Informatics #bioinfo | Scoop.it
  (#bioinformatics OMI Rolls Out Updated Informatics Platform for Integrating Clinical, Genomic, Other Data Types http://t.co/GVLRYJwBML)
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A History of Bioinformatics (in the Year 2039)

C. Titus Brown http://video.open-bio.org/video/1/a-history-of-bioinformatics-in-the-year-2039.
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Home | PACBB'14 | International Conference on Practical Applications of Computational Biology & Bioinformatics

Home | PACBB'14 | International Conference on Practical Applications of Computational Biology & Bioinformatics | Genome, health bio-Informatics #bioinfo | Scoop.it

7th International Conference on Practical Applications of Computational Biology & Bioinformatics, Organized by BISITE Reseach Group of University of Salamanca; 22nd-25th May, 2013, Salamanca (Spain) (RT @SINGgroup: PACBB'14 (

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Australian Bioinformatics Conference (ABiC) - Melbourne Submit your abstract now!

Australian Bioinformatics Conference (ABiC) - Melbourne Submit your abstract now! | Genome, health bio-Informatics #bioinfo | Scoop.it
Registrations and abstract submissions are now open for the inaugural Australian Bioinformatics Conference (ABiC)! ABiC 2014 will be held on Sat 11th & Sun 12th October at the Royal Children’s ...
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Appistry Launches NGS Pipeline Creation Challenge - Bio-IT World

Appistry Launches NGS Pipeline Creation Challenge - Bio-IT World | Genome, health bio-Informatics #bioinfo | Scoop.it
Appistry Launches NGS Pipeline Creation Challenge Bio-IT World To enter, teams are invited to complete a simple application form and write a 500 word abstract detailing how the pipeline will make an impact on clinical research and precision...
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Cloud-Enabled App streamlines research for chemists. - ThomasNet News (press release)

Cloud-Enabled App streamlines research for chemists.
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GRC Assembly Workshop at Genome Informatics

GRC Assembly Workshop at Genome Informatics | Genome, health bio-Informatics #bioinfo | Scoop.it
The Genome Reference Consortium (GRC) utilizes an assembly model for the human  (and mouse) reference genome assemblies that allows for the representation of different sequence paths for loci where allelic diversity is needed (PLoS Biol. 2011 Jul:9(7):e1001091). In the ideal case, these alternate paths would only be present in regions where haplotypes are not easily reconstructed from a reference haplotype using a set of defined edits. In practice, however, some alternate alleles are added becuase they add sequence not represented in the primary assembly that will likely improve the utility of the assembly as an alignment substrate.
While this model may better represent population diversity, most commonly used analysis tools were not developed to use this type of assembly model. The focus of this workshop is to bring together a range of software developers to discuss approaches for utilizing the full assembly in a diverse range of analysis tools (from alignment to variant calling). Its goal is the development of practical ideas that will allow adoption of the full reference assembly in the short term, as well as longer term goals for the types of data structures and tools needed to analyze a eukaryotic pan-reference genome.
Specific topics:

Alignment/Mapping tools for using the full assembly: distinguishing allelic duplication from paralogous duplication.
Representing alignment data in BAM files
Variant calling
Representing variant calls in VCF (or other formats)
Reporting results to users in biological friendly ways
Relationship to parallel interests in the Global Alliance for Genomics and Health (GA4GH) Data Working Group


Workshop chairs: Deanna Church (Personalis) and Richard Durbin (The Wellcome Trust Sanger Institute)
 
Confirmed Speakers:


Chen-Shan (Jason) Chin (Pacific Biosciences)
Aaron Quinlan (University of Virginia)
Michael Schatz (Cold Spring Harbor Laboratory)
Gabor Marth (USTAR Center for Genetic Discovery)
Bronwen Aken (EBI)
Paul Kitts (NCBI)
Valerie Schneider (NCBI)



Workshop sponsored by Personalis.

Via Mel Melendrez-Vallard
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inPHAP: Interactive visualization of genotype and phased haplotype data

Background:
To understand individual genomes it is necessary to look at the variations that lead to changes in phenotype and possibly to disease.

Via Mel Melendrez-Vallard, SeqComplete
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Lilly, Novartis and Pfizer join with Broad Institute for bioinformatics challenge - FierceBiotech IT

Lilly, Novartis and Pfizer join with Broad Institute for bioinformatics challenge - FierceBiotech IT | Genome, health bio-Informatics #bioinfo | Scoop.it

Lilly, Novartis and Pfizer join with Broad Institute for bioinformatics challenge FierceBiotech IT Since 2013, Sage Bionetworks has worked with DREAM on the challenges, and its open bioinformatics system, Synapse, is at the heart of the latest...

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Scripps Wellderly Genome Resource Now Available to Researchers ...

“The SWGR will become more robust with time,” said Ali Torkamani, director of genome informatics at STSI and an assistant professor of integrative, structural and computational biology at The Scripps Research Institute.
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Google Genomics — Google Developers

Google Genomics — Google Developers | Genome, health bio-Informatics #bioinfo | Scoop.it
Gives access to Google Genomics.

Explore genetic variation interactively.Compare entire cohorts in seconds with SQL-like queries. Compute transition/transversion ratios, genome-wide association, allelic frequency and more.


Via Chris Upton + helpers
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Chris Upton + helpers's curator insight, July 4, 2014 12:42 PM

Generally...   I hate Google...

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Golden Rules of Bioinformatics

Golden Rules of Bioinformatics.Presented as part of a full-day introductory bioinformatics course - the example data and source for the slides can be found at https://github.com/widdowquinn/Teaching-Intro-to-Bioinf...

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Notes: Bioinformatics Open Source Conference 2014 day 1 morning: Titus Brown, Genome Scale Data, OBF

Notes: Bioinformatics Open Source Conference 2014 day 1 morning: Titus Brown, Genome Scale Data, OBF | Genome, health bio-Informatics #bioinfo | Scoop.it
I'm at the 2014 Bioinformatics Open Source Conference (BOSC) in Boston. It's a great two day conference devoted to open source, science and community. Nomi Harris starts things off with an introduc...
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A Bioinformatics Pipeline for the Analyses of Viral Escape Dynamics and Host Immune Responses during an Infection. - Biomed Res Int. 2014

A Bioinformatics Pipeline for the Analyses of Viral Escape Dynamics and Host Immune Responses during an Infection. - Biomed Res Int. 2014 | Genome, health bio-Informatics #bioinfo | Scoop.it

Rapidly mutating viruses, such as hepatitis C virus (HCV) and HIV, have adopted evolutionary strategies that allow escape from the host immune response via genomic mutations. Recent advances in high-throughput sequencing are reshaping the field of immuno-virology of viral infections, as these allow fast and cheap generation of genomic data. However, due to the large volumes of data generated, a thorough understanding of the biological and immunological significance of such information is often difficult. This paper proposes a pipeline that allows visualization and statistical analysis of viral mutations that are associated with immune escape. Taking next generation sequencing data from longitudinal analysis of HCV viral genomes during a single HCV infection, along with antigen specific T-cell responses detected from the same subject, we demonstrate the applicability of these tools in the context of primary HCV infection. We provide a statistical and visual explanation of the relationship between cooccurring mutations on the viral genome and the parallel adaptive immune response against HCV.


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News in Bioinformatics

News in Bioinformatics | Genome, health bio-Informatics #bioinfo | Scoop.it
News in Bioinformatics, by Rajdeep Poddar: updated automatically with a curated selection of articles, blog posts, videos and photos. (News in Bioinformatics is out!
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