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ERX2659422: Illumina HiSeq 2500 paired end sequencing; Multi-tissue transcriptome associated with feed efficiency in Nellore cattle
1 ILLUMINA (Illumina HiSeq 2500) run: 13.3M spots, 2.6G bases, 896.9Mb downloads

Design: 100 bp paired-end RNAseq of poliA selected RNA on an Illumina HiSeq2500
Submitted by: UNIVERSITY OF S*O PAULO
Study: Multi-tissue transcriptome associated with feed efficiency in Nellore cattle
show Abstracthide Abstract
RNAseq of five tissues from young Nellore bulls, defined as high and low feed efficient by the measure of residual feed intake, were obteined in order do uncover biological functions and regulatory genes associated to this trait. This study is part of the FAANG project, promoting rapid prepublication of data to support the research community. These data are released under Fort Lauderdale principles, as confirmed in the Toronto Statement (Toronto International Data Release Workshop. Birney et al. 2009. Pre-publication data sharing. Nature 461:168-170). Any use of this dataset must abide by the FAANG data sharing principles. Data producers reserve the right to make the first publication of a global analysis of this data. If you are unsure if you are allowed to publish on this dataset, please contact FAANG consortium to enquire. The full guidelines can be found at http://www.faang.org/data-share-principle.
Sample: hypothalamus from Nellore bull
SAMEA4862058 • ERS2711857 • All experiments • All runs
Organism: Bos indicus
Library:
Name: lib01
Instrument: Illumina HiSeq 2500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: PolyA
Layout: PAIRED
Construction protocol: TruSeq Stranded mRNA LT Sample Prep
Experiment attributes: (show all 24 attributes...) (hide...)
assay type: RNA-seq of coding RNA
sample storage: frozen, -70 freezer
sample storage processing: cryopreservation in liquid nitrogen (dead tissue)
sampling to preparation interval: 39 months
experimental protocol: https://support.illumina.com/content/dam/illumina- (show full text...)(hide...)
https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/samplepreps_truseq/truseqstrandedmrna/truseq-stranded-mrna-sample-prep-guide-15031047-e.pdf
extraction protocol: https://www.qiagen.com/se/resources/resourcedetail (show full text...)(hide...)
https://www.qiagen.com/se/resources/resourcedetail?id=14e7cf6e-521a-4cf7-8cbc-bf9f6fa33e24
library preparation location: Centro de Genomica Funcional ESALQ-USP Piracicaba (show full text...)(hide...)
Centro de Genomica Funcional ESALQ-USP Piracicaba Brazil
library preparation location longitude: -22.71 decimal degrees
library preparation location latitude: -47.63 decimal degrees
library preparation date: 2016-12-14 YYYY-MM-DD
sequencing location: Functional Genomic applied to Agriculture ESALQ-US (show full text...)(hide...)
Functional Genomic applied to Agriculture ESALQ-USP Piracicaba Brazil
sequencing location longitude: -22.71 decimal degrees
sequencing location latitude: -47.63 decimal degrees
sequencing date: 2016-12-21 YYYY-MM-DD
experiment target: polyA RNA
rna preparation 3' adapter ligation protocol: https://support.illumina.com/content/dam/illumina- (show full text...)(hide...)
https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/samplepreps_truseq/truseqstrandedmrna/truseq-stranded-mrna-sample-prep-guide-15031047-e.pdf
rna preparation 5' adapter ligation protocol: https://support.illumina.com/content/dam/illumina- (show full text...)(hide...)
https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/samplepreps_truseq/truseqstrandedmrna/truseq-stranded-mrna-sample-prep-guide-15031047-e.pdf
library generation pcr product isolation protocol: https://support.illumina.com/content/dam/illumina- (show full text...)(hide...)
https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/samplepreps_truseq/truseqstrandedmrna/truseq-stranded-mrna-sample-prep-guide-15031047-e.pdf
preparation reverse transcription protocol: https://support.illumina.com/content/dam/illumina- (show full text...)(hide...)
https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/samplepreps_truseq/truseqstrandedmrna/truseq-stranded-mrna-sample-prep-guide-15031047-e.pdf
library generation protocol: https://support.illumina.com/content/dam/illumina- (show full text...)(hide...)
https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/samplepreps_truseq/truseqstrandedmrna/truseq-stranded-mrna-sample-prep-guide-15031047-e.pdf
read strand: mate 1 sense
rna purity - 260:280 ratio: 2.1
rna purity - 260:230 ratio: not collected
rna integrity number: 8.9
Runs: 1 run, 13.3M spots, 2.6G bases, 896.9Mb
Run# of Spots# of BasesSizePublished
ERR264293213,274,6862.6G896.9Mb2018-07-04

ID:
5871024

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