SAMN30747294
External Id
James Ellis, Molecular Genetics, University of Toronto
INSDC center name
2023-09-01T00:00:00Z
INSDC first public
2023-09-01T02:26:50.667Z
INSDC last update
SRS15052058
INSDC secondary accession
live
INSDC status
Generic
NCBI submission model
Generic.1.0
NCBI submission package
SRS15052058
SRA accession
human tissue
cell line
missing
collection_date
RNA-seq libraries were prepared for each time-points and seady-state sample using the QuantSeq 3’ mRNA-Seq Library Prep Kit FWD for Illumina (Lexogen) automated on the NGS WorkStation (Agilent) at The Centre for Applied Genomics (TCAG) according to the manufacturer’s instructions. PCR cycle numbers were determined using the PCR Add-on Kit for Illumina (Lexogen). All steady-state samples were processed with 250 ng of total RNA input. To minimize variability between time-points within a batch, RNA samples were processed with the same total RNA input with a minimum of 100 ng of total RNA used. Each sample was spiked-in with ERCC RNA Spike-In Control Mix 1 (Ambion) according to the manufacturer’s instructions prior to the start of library preparation. Library quality and quantity were measured at TCAG prior to sequencing with Bioanalyzer (Agilent) and KAPA qPCR (Roche). Sequencing was also performed at TCAG on the Illumina HiSeq 2500 with single-end 100bp read length yielding 40 to 50 million reads.
extract_protocol
NA
extraction protocol
wild type
genotype
missing
geo_loc_name
Homo sapiens
http://purl.obolibrary.org/obo/NCBITaxon_9606
organism
A
sequencing batch
UHRR
source_name
RATE-seq UHRR rep2
title
NA
treatment
NA
treatment protocol