This track represents the RNA signal based on stranded-specific RNA-seq and smallRNA-seq datasets. The data were generated by the EMC Group at McGill based on a uniform processing pipeline. These datasets were used in all downstream analysis pipelines by members of the EMC Group at McGill.
Tissues samples in TRIzol (Invitrogen) were disrupted using a POLYTRON machine. Total RNA from cells and tissues were extracted using miRNeasy kit (including a DNaseI treatment step) and quality assessed by Agilent 2100 BioAnalyzer (Agilent Technologies).
Libraries for RNA-seq and smallRNA-seq were prepared according to the Illumina TruSeq protocols (with the Gold option for RNA-seq samples). Size selection (130bp-170bp) of smallRNA-seq libraries was performed using 3% gel cassettes (Sage Science). Libraries qualities were assessed by Agilent 2100 BioAnalyzer (Agilent Technologies).
Samples were indexed and sequenced in an Illumina HiSeq 2000 (100 bp paired-end and 50 bp single-end reads for RNA-seq and smallRNA-seq respectively).
Data were generated and processed in the Epigenomic Mapping Centre (EMC) and Epigenomic Data Coordination Centre (EDCC) of McGill University and the Genome Quebec Innovation Centre (Montreal,QC, Canada). Both EMC and EDCC belong to the Canadian Epigenetics, Environment and Health Research Consortium (CEEHRC) associated with IHEC. Funding was obtained from the Canadian Institutes of Health Research (CIHR) in partnership with Genome British Columbia and Genome Quebec. For inquiries, please contact us at the following address: info (at) epigenomesportal.ca