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NCBI to Hold a Two-day Genomics Hackathon in January

From January 5th to 7th, NCBI will host a genomics hackathon focusing on advanced bioinformatics analysis of next generation sequencing data. This event is for students, postdocs and investigators already engaged in the use of pipelines for genomic analyses from next generation sequencing data. Working groups of 5-6 individuals will be formed for DNA-Seq/multiomics, RNA-Seq, metagenomics and Epigenomics. These groups will build pipelines to analyze large datasets within a cloud infrastructure.



8th Annual Young Investigator Symposium on Genomics and Bioinformatics

8th Annual Young Investigators Symposium and Poster Session on Genomics and Bioinformatics
October 30, 2014
9AM to 5PM
Mountcastle Auditorium, PCTB

Invited Speakers:

Piero Carninci, Ph.D.
Director, Division of Genomic Technologies
RIKEN Center for Life Science Technologies

Andrew McCallion, Ph.D.
Associate Professor
McKusick-Nathans Institute of Genetic Medicine
Department of Molecular and Comparative Pathobiology
Johns Hopkins University
School of Medicine

4th Annual Workshop - Practical Genomics: From Biology to Biostatistics

The Practical Genomics Workshop is offered annually by the Center for Computational Genomics at the Johns Hopkins University School of Medicine.  Designed for biologists, it introduces students to programming, analysis techniques, and statistics using a hands-on approach.

This year's workshop will be held August 18-20, 2014 in the Department of Embryology at the Carnegie Institution for Science in Baltimore, Maryland.

Analysis of DNA Methylation Data

Thanks for your comment about the analysis of DNA methylation data! 

The Library doesn’t offer the type of tool that you are looking for.  However, the JHMI Deep Sequencing & Microarray Core Facility offers data analysis and bioinformatics consultation, as well as software that is likely to meet your needs. 

DNA methylation analysis of Infinium Platforms

This is more of a specific request, but is very helpful for people working on DNA methylation using the infinium platform (which there are many indivisual users as well as public databases). It will be good to have a tool wherein one can upload dataset(s) and view it a genome viewer (along annotated genes, promoters, other regulatory elements). We did this for our own use, but a limitation is that it is not easily expandable to large datasets.


Thanks so much for suggesting the Global Proteome Machine!  I've added this resource to the "Proteomics" page under "Tools."  It's now listed in the "Proteomics Portals" box.

Search engine for proteomics data

I would suggest including a website or a direct server for using the Global Proteome Machine search engine. or more specifically

The site allows users to enter mass spectra data obtained from proteomics experiments and it is a free search engine using the X!Tandem or P3 algorithms for search data. The engine requires the file be converted into mzXML, mgf, dta or pkl files, which can be performed in one of the tools already posted on the site i.e. 'Seattle Proteomics Tools".

Vendors of Reagents and Biologicals

Should the portal include vendors of reagents and biologicals?  An example of a preotomics-related vendor might be the PSI Biology: Materials Repository.



The Daily Scan blog from Genome Web looks like it would be a good addition to the portal.  For that matter, the whole Genome Web site looks relevant. 

Please recommend any blogs that you follow regularly.  There could be a special section of the portal for these.

Rob Wright


Thanks to everyone who stopped by our poster at the Young Investigators Symposium on Genomics and Bioinformatics!  We look forward to getting your feedback on the portal.

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