GenomeSpace portal 11-13-2014d1029

2015-01-13

GenomeSpace portal 11-13-2014d1029
Genome Space portal
Frictionless connection of bioinformatics tools

paper on the platform

Michael M. Reich, John Liefeld, Marco Ocana, Donkeung Jang, James Robinson, Peter Carr, Barbara Hill, Thorin Tabor, Helga Thorvaldsdottir, Aviv Regev, Jill P. Mesirov. GenomeSpace: An environment for frictionless bioinformatics. abstract. In: Proceedings of the 105th Annual Meeting of the American Association for Cancer Research; 2014 Apr 5-9; San Diego, CA. Philadelphia (PA): AACR; Cancer Res 2014;74(19 Suppl):Abstract nr 5331. doi:10.1158/1538-7445.AM2014-5331

some ways that you can analyze data with genomespace (recipes)

http://www.genomespace.org/support/guides/recipes
Find subnetworks of differentially expressed genes and identify biological functions
Find differentially expressed genes in RNA-Seq data
Preprocess and quality check RNA-Seq data
Identify and visualize expressed transcripts in RNA-Seq data
Identify and annotate coding variants from whole exome sequencing (WES) data (summary only)
Identify biological functions for genes in copy number variation (CNV) regions
Identify an up- or down-regulated pathway from expression data

It looks like there are some nice videos and presentations