Changes between Version 4 and Version 5 of SOPs/integrateExpressionIP
- Timestamp:
- 09/06/17 12:38:54 (7 years ago)
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SOPs/integrateExpressionIP
v4 v5 78 78 '''Method 3'''. Use the GSEA tool from the Broad Institute. Use the raw array data and genes bound as the gene data set to look for enrichment [http://www.broadinstitute.org/gsea/index.jsp GSEA] 79 79 80 '''Method 4'''. For visualization, draw a scatterplot on log2 gene expression levels with WT and KO on X and Y axis, highlight the bound genes on top of all genes. This can be achieved with simple R codes. In th is example, the two text files each has three columns, with geneID, WT and KO as header.80 '''Method 4'''. For visualization, draw a scatterplot on log2 gene expression levels with WT and KO on X and Y axis, highlight the bound genes on top of all genes. This can be achieved with simple R codes. In the example below, the two text files each has three columns, with geneID, WT and KO as header. 81 81 82 82 {{{
