TY - JOUR T1 - Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription JF - bioRxiv DO - 10.1101/014209 SP - 014209 AU - Kaur Alasoo AU - Fernando Martinez Estrada AU - Christine Hale AU - Siamon Gordon AU - Fiona Powrie AU - Gordon Dougan AU - Subhankar Mukhopadhyay AU - Daniel Gaffney Y1 - 2015/01/01 UR - http://biorxiv.org/content/early/2015/02/06/014209.abstract N2 - 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. ER -