The GSEA software was downloaded from www.broadinstitute.org/gsea/index.jsp. The input data for the GSEA were the following: (i) a complete table of gene expression in get file format, (ii) cld files indicating sample grouping, and (iii) a catalog of functional gene sets from Molecular Signature Database corresponding to hallmarks of cancer (MSigDB version 3.0; 30 September 2010 release; www.broad.mit.edu/gsea/msigdb/msigdb_index.html); a total of 50 curated gene sets were included in the analysis. Default parameters were used to compare Sema4C versus mock cells lines, in reference to the hallmark signature database. Inclusion gene set size was set between 15 and 500, and the genes were permutated 1000 times (www.broad.mit.edu/gsea/) (57, 58).

Note: The content above has been extracted from a research article, so it may not display correctly.



Q&A
Please log in to submit your questions online.
Your question will be posted on the Bio-101 website. We will send your questions to the authors of this protocol and Bio-protocol community members who are experienced with this method. you will be informed using the email address associated with your Bio-protocol account.



We use cookies on this site to enhance your user experience. By using our website, you are agreeing to allow the storage of cookies on your computer.