Difference between revisions of "20.109(S17):Analyze RNA-seq data (Day7)"
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==Protocols== | ==Protocols== | ||
| + | [[Media: 20.109_RNAseq_Analysis_Day7.pdf| Analysis of RNA-Seq data]] by Amanda Kedaigle, Prof. Ernest Fraenkel & Prof. Leona Samson.<br> | ||
<font color='red'>'''Erratum:'''</font color> On page 4, <code>pheatmap (sampleDists, labels_row=filenames)</code> should be replaced by <code>pheatmap(sampleDists, labels_row=rownames(colData(dds)))</code>.<br> | <font color='red'>'''Erratum:'''</font color> On page 4, <code>pheatmap (sampleDists, labels_row=filenames)</code> should be replaced by <code>pheatmap(sampleDists, labels_row=rownames(colData(dds)))</code>.<br> | ||
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==Navigation links== | ==Navigation links== | ||
Next day: [[20.109(S17):Journal Club II (Day8)| Journal club II]] | Next day: [[20.109(S17):Journal Club II (Day8)| Journal club II]] | ||
Previous day: [[20.109(S17):Practice data analysis methods (Day6)| Practice data analysis methods]] | Previous day: [[20.109(S17):Practice data analysis methods (Day6)| Practice data analysis methods]] | ||
Latest revision as of 15:16, 4 April 2017
Introduction
Today you will analyze the RNA-seq data gathered from untreated DLD-1 and BRCA2- cells and etoposide treated DLD-1 and BRCA2- cells. Following RNA purification, the samples were submitted to the BioMicro Center for Illumina sequencing. Illumina sequencing technology, or sequencing by synthesis (SBS), is used for massively parallel sequencing with a proprietary method that detects single bases as they are incorporated into growing DNA strands.
Protocols
Analysis of RNA-Seq data by Amanda Kedaigle, Prof. Ernest Fraenkel & Prof. Leona Samson.
Erratum: On page 4, pheatmap (sampleDists, labels_row=filenames) should be replaced by pheatmap(sampleDists, labels_row=rownames(colData(dds))).
Next day: Journal club II
Previous day: Practice data analysis methods