PD1-Illumina short reads - SRA

SRX529548: PD1-Illumina short reads
1 ILLUMINA (Illumina Genome Analyzer) run: 46.3M spots, 1.9G bases, 770.9Mb downloads

Design: Total RNA was extracted from each tissue using Qiagen RNeasy Mini Kit (Qiagen Valencia CA, USA) per the manufacturer protocol. Aliquots were quantified using a NanoDrop spectrophotometer (NanoDrop Wilmington, USA) and checked for quality by electrophoresis using the Lonza FlashGel System FlashGel RNA Cassettes (Lonza Inc. Allendale, USA). Illumina RNA-Seq libraries were prepared using the manufacturer protocol. To reduce the highly abundant transcripts, the libraries were normalized using the normalization protocol described in (Matvienko et al. 2013). Briefly, the standard Illumina RNA-Seq libraries were denatured and re-hybridized in NaCl and TMAC buffers, and treated with Duplex Specific Nuclease (Evrogen, Moscow) (Zhulidov et al. 2004) to digest the high copy DNA species. The resulting samples were re-amplified using Illumina library primers. The libraries were sequenced using Illumina Genome Analyzer II (IGA) for 85 cycles per direction at the UC Davis Genome Center.

Submitted by: UNIVERSITY OF CALIFORNIA DAVIS

Study: Gossypium hirsutum strain:TM-1 Variation

PRJNA203021 • SRP022981 • All experiments • All runs

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The goal of our study was to create reference sequence to G. hirsutum to be used for Intraspecific SNP identification.

Sample: publication in prep.

SAMN02741429 • SRS599265 • All experiments • All runs

Organism: Gossypium hirsutum

Library:

Name: PD1-Illumina

Instrument: Illumina Genome Analyzer

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: RANDOM

Layout: SINGLE

Spot descriptor:

1 forward

Runs: 1 run, 46.3M spots, 1.9G bases, 770.9Mb

Run	# of Spots	# of Bases	Size	Published
SRR1266113	46,266,096	1.9G	770.9Mb	2015-01-01

ID:: 730040

SRA

Sequence Read Archive

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