GSM1300242: Naïve 2, 17M; Rattus norvegicus; RNA-Seq - SRA

SRX403916: GSM1300242: Naïve 2, 17M; Rattus norvegicus; RNA-Seq
1 ILLUMINA (Illumina Genome Analyzer IIx) run: 10.9M spots, 370M bases, 360.1Mb downloads

Submitted by: NCBI (GEO)

Study: Whole genome transcription profiling of the L5 spinal nerve transection model of neuropathic pain in the rat, at different sequencing depths (RNA-Seq)

PRJNA232819 • SRP034868 • All experiments • All runs

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Poly(A) enriched RNA derived from the L5 DRG 7 days following L5-SNT and from naïve L5-DRG tissue was subjected to RNA-seq analysis at different sequencing depths Overall design: 6 biological replicates (3 case – SNT subjected L5-DRG tissue, 3 control – naïve L5-DRG tissue). Each biological replicate was divided B46into 3 technical replicates; each of the technical replicates for a given sample was sequenced to a depth of 17M, 25M or 50M reads. Reads were single stranded and 34bps in length. Multiplexing was used in order to generate the read depths of different sizes. The gene expression values and fold changes in expression between naive and SNT samples were compared to those generated by a microarray experiment carried out on further technical replicates of the same samples, details in the manuscript (submitted - under revision).

Sample: Naïve 2, 17M

SAMN02566814 • SRS523632 • All experiments • All runs

Organism: Rattus norvegicus

Library:

Instrument: Illumina Genome Analyzer IIx

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Construction protocol: Extraction performed using miRNEasy kit (QIAGEN). RNA concentration measured using the NanoDrop 1000 Spectrophotometer (Thermo Scientific, Wilmington, DE, USA cDNA libraries were prepared using the TruSeqTM RNA Sample Preparation Kit (Illumina), low throughput protocol. 200 ng of total RNA were subjected to poly(A) enrichment using poly(T)-attached magnetic beads. Poly(A)-enriched RNA was subsequently used for reverse transcription and library preparation according to Illumina's instructions

Experiment attributes:

GEO Accession: GSM1300242

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 10.9M spots, 370M bases, 360.1Mb

Run	# of Spots	# of Bases	Size	Published
SRR1067736	10,883,085	370M	360.1Mb	2015-07-22

ID:: 579344

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