WebClick the Start Analysis tab at the top of the screen, click the Upload tab on the left of the screen and paste the list of genes into the box labeled Step 1: Enter Gene List. In Step 2: Select Identifiers choose UCSC_GENE_ID from the list, and mark Gene List in Step 3: List Type, then click Submit List in Step 4. WebCufflinks can detect sequence-specific bias and correct for it in abundance estimation. By default, Cufflinks will uniformly divide each multi-mapped read to all of the positions it maps to. the inferred fragment length and fragment bias, if bias correction is enabled. FDR-adjusted p-values (q-values) are calculated.

Assemble transcriptome from aligned reads - MATLAB cufflinks

http://compbio.mit.edu/cummeRbund/manual_2_0.html http://www.genecodes.com/analyses/differential-expression images of piper mclean

An analysis of 67 RNA-seq datasets from various tissues at ... - PubMed

WebBrain RNA-Seq [137] An RNA-Seq transcriptome and splicing database of glia, neurons, … WebCufflinks (Version in GenePattern public repository: 2.0.2) Cufflinks assembles transcripts, estimates their abundances, and tests for differential expression and regulation in RNA-seq samples. It accepts aligned RNA-seq reads and assembles the alignments into a parsimonious set of transcripts. images of piper rockelle