RT Journal Article
SR Electronic
T1 Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 014209
DO 10.1101/014209
A1 Kaur Alasoo
A1 Fernando Martinez Estrada
A1 Christine Hale
A1 Siamon Gordon
A1 Fiona Powrie
A1 Gordon Dougan
A1 Subhankar Mukhopadhyay
A1 Daniel Gaffney
YR 2015
UL http://biorxiv.org/content/early/2015/02/06/014209.abstract
AB Macrophages differentiated from human induced pluripotent stem cells (IPSDMs) are a potentially valuable new tool for linking genotype to phenotype in functional studies. However, at a genome-wide level these cells have remained largely uncharacterised. Here, we compared the transcriptomes of naïve and lipopolysaccharide (LPS) stimulated monocyte-derived macrophages (MDMs) and IPSDMs using RNA-Seq. The IPSDM and MDM transcriptomes were broadly similar and exhibited a highly conserved response to LPS. However, there were also significant differences in the expression of genes associated with antigen presentation and tissue remodelling. Furthermore, genes coding for multiple chemokine involved in neutrophil recruitment were more highly expressed in IPSDMs upon LPS stimulation. Additionally, analysing individual transcript expression identified hundreds of genes undergoing alternative promoter and 3′ untranslated region usage following LPS treatment representing a previously under-appreciated level of regulation in the LPS response.