Presentation on NCBI’s genome browser at Rocky Mountain Genomics Hackcon


On June 18, 2019, NCBI’s Sanjida Rangwala will demonstrate the rich data visualization capabilities of NCBI’s genome browser at a conference that is part of the Rocky Mountain Genomics Hackcon.  As mentioned in a previous post, NCBI staff will also participate in an NCBI-style Hackathon  as part of the larger event.  The genome browser presentation and demonstration will show you how to create visuals that provide insights and show connections among genes, transcripts, variation,  epigenomics and GWAS data from NCBI sources. You will also see  how you can upload your own data and embed NCBI viewers on your own pages.

Florida (USF) Biological Data Science “IronHack” February 25-27, 2019


From February 25-27, 2019, NCBI will help with a Data Science hackathon at USF in Tampa Florida!

The hackathon will focus on the genomics of Iron-linked Rare Diseases as well as large scale RNA-Seq indexing and analysis. This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects are available to other non-scientific developers, mathematicians, or librarians.

The event is open to anyone selected for the hackathon and willing to travel to Tampa.

Working groups of five to six individuals will be formed into five to eight teams. These teams will build or expand on pipelines and tools to analyze large datasets within a cloud infrastructure. Example subjects for such hackathons include:

  • Integrative pipelines to analyze large scale RNA-Seq experiments
  • Visualization tools for mapping phenotypes to genotypes
  • Rapid clinical diagnostics tools
  • Structural variant mining with single molecule sequencing data

Please see the application form for more details and additional projects.  The project list will continue to evolve and will be updated on the application form.

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Apply now to join the Seattle Biological Data Science FHackathon February 4-6, 2019


From February 4-6, 2019, the NCBI will help with a data science hackathon at the Fred Hutchinson Cancer Research Center in Seattle. To apply, complete this form (approximately 10 minutes to complete). Initial applications are due Friday, January 11th by 11 pm ET.

The hackathon will focus on genomics as well as general data science. This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects are available to other non-scientific developers, mathematicians, or librarians.

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NIH Data Science Collaborative Hackathon April 16 – 18, 2018


The NCBI will assist with a data science hackathon to take place on the NIH Campus in Bethesda, Maryland, from April 16-18, 2018.

The hackathon will focus on tools for advanced analysis of biomedical datasets including text, images, next generation sequencing data, proteomics, and metadata. Many individuals who attend these events have already engaged in the use of large datasets or in the development of informatics tools, code, or pipelines; however, researchers who are in the earlier stages of their data science journey, including students and postdocs are also encouraged to apply. Some projects are available to other non-scientific developers, mathematicians, or librarians.

The event is open to anyone selected for the hackathon and willing to travel to Bethesda, Maryland.

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North Carolina Research Triangle Hackathon March 12-14, 2018


The UNC Curriculum in Bioinformatics and Computational Biology and NCBI will host a data science hackathon from March 12-14, 2018 on the campus of the University of North Carolina at Chapel Hill. Projects addressed during the hackathon will involve general bioinformatics and genomic analyses in addition to text, image, and sequence processing.

This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects may involve other non-scientific developers, mathematicians, or librarians.

To be considered for the event, you must apply and be able to travel to the UNC campus in Chapel Hill (see details below).  Applications are due Monday, February 12th, 2017 by 11:59 pm ET.

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5 NCBI articles in 2018 Nucleic Acids Research database issue


The 2018 Nucleic Acids Research database issue features several papers from NCBI staff that cover the status and future of databases including CCDS, ClinVar, GenBank and RefSeq. These papers are also available on PubMed. To read an article, click on the PMID number listed below.

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NIH Data Hackathon on campus – January 22-24, 2018


From January 22-24, 2018, the NCBI will help with a data science hackathon on the NIH campus in Bethesda, MD. The hackathon will focus on general data science analyses, including text, image and sequence processing. This event is for researchers, including students and postdocs, who have already engaged in the use of large datasets or in the development of pipelines for analyses from high-throughput experiments. Some projects are available to other non-scientific developers, mathematicians, or librarians.

The event is open to anyone selected for the hackathon and willing to travel to the NIH campus (see below).  Applications are due Friday, December 22nd, 2017 by 9 pm EST.

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Applications open for the August 2017 NCBI-NLM Bioinformatics Hackathon


From August 14th – 16th, the NCBI, with involvement from several NIH institutes, will host a Biomedical Data Science hackathon at the National Library of Medicine on the NIH campus. The hackathon will primarily focus on medical informatics, advanced bioinformatics analysis of next generation sequencing data and metadata. To apply for this event, complete this application (approximately 10 minutes to complete). Applications are due Tuesday, July 11, 2017 by 4 PM ET.

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