Bioinformatics and Functional Genomics 3rd Edition

Chapter 11: Documents

Web Document Contents
11.1 22,283 transcripts from GEO2R
11.2 R commands from GEO2R
11.3 phenotype data (pheno.txt) for R analyses
11.4 Two-way clustering of genes and samples
11.5 TopHat commands
11.6 Matrix of genes (n=8) and samples (n=14)
extra data These links provide access to 12 FASTQ files used as part of an RNA-seq workflow of Trapnell et al. This protocol is described on page 524. The FASTQ data are for two conditions (C1 and C2), three replicates (R1, R2, R3), and forward (_1) and reverse (_2) reads. At present, the NCBI website () does not link directly to these FASTQ files.
GSM794483_C1_R1_1.fq
GSM794483_C1_R1_2.fq
GSM794484_C1_R2_1.fq
GSM794484_C1_R2_2.fq
GSM794485_C1_R3_1.fq
GSM794485_C1_R3_2.fq
GSM794486_C2_R1_1.fq
GSM794486_C2_R1_2.fq
GSM794487_C2_R2_1.fq
GSM794487_C2_R2_2.fq
GSM794488_C2_R3_1.fq
GSM794488_C2_R3_2.fq