NextSeq 500 sequencing; GSM1945263: WT1.Pam3Cys.T0; Mus musculus; RNA-Seq

WT1.Pam3Cys.T0

Two 96-well plates per genotype wild type and Myd88 knockout,  4 hour time series in 0.5 hr increments Overall design: Myd88 BMDM transcriptional profiling to complement TF-seq data

Simultaneous pathway activity inference and global gene expression analysis using RNA-sequencing [myd88]

Submitted by Gene Expression Omnibus on 07-MAY-2016

RLT lysis, 50% SPRI purification, Turbo DNase, MaximaRT, SAv purification 25% (final 12.5% RNA lysate), Random hexamer 2nd strand cDNA, 2ng ds_cDNA tagmented for 12 minutes and run for 15 cycles PCR according to Nextera manufactures protocol Modified SCRB-Seq, Soumillon, M., Cacchiarelli, D., Semrau, S., Oudenaarden, A. van & Mikkelsen, T. S. Characterization of directed differentiation by high-throughput single-cell RNA-Seq. bioRxiv 003236 (2014). doi:10.1101/003236; Modified Nextera protocol to PCR enrichonly  the 3' end of mRNA transcripts and create digital gene expression libraries for Illumina sequencing.

Simultaneous pathway activity inference and global gene expression analysis using RNA-sequencing [myd88]

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