Analysis of cutaneous MRGPRD free nerve endings and C-LTMRs transcriptomes by RNA-sequencing

The skin is the largest sensory organ that is densely innervated by highly specialized sensory neurons allowing the detection of a wide range of stimulations including light touch, temperature, itch and pain. Our knowledge of the sets of genes instructing the functional specialization of sensory neurons is just emerging. In a previous study, we have identified a new Gαi inhibitory interacting protein (GINIP) that marks two distinct subsets of skin-innervating sensory neurons conveying noxious and pleasant touch: the MRGPRD-expressing C-fibers specialized in noxious touch and the TH(+)/TAFA4(+)/V-GLUT3(+) C-Low Threshold MechanoReceptors (C-LTMRs), part of neurons processing pleasant touch. In the recent study published by Reynders et al. (2015), we took advantage of GINIP(mCherry) mouse model in combination with Isolectin B4 (IB4) cell surface labeling and fluorescence activated cell sorting (FACS). We successfully purified MRGPRD(+), C-LTMRs and a heterogeneous population of sensory neurons and subjected their RNA contents RNA-deep sequencing (RNA-seq). The subsequent RNA-seq experiment led to the generation of unique sets of data representative of pure transcriptome profiles of each subset. As a result of this pioneering approach, we established the combinatorial expression of the sets of genes that could dictate the functional specializations of MRGPRD(+) neurons and C-LTMRs. Herein we provide details regarding the experimental design, the quality controls and statistical analysis of the data deposited at Gene Expression Omnibus under the accession number GSE64091.