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ERX3585407: Illumina HiSeq 2500 sequencing; CAGE-Sequencing of tissues from Benz 2616
1 ILLUMINA (Illumina HiSeq 2500) run: 5.3M spots, 158.3M bases, 89.6Mb downloads

Design: CAGE-sequencing of TSSs single end experiment using 5' CAP trapping on an Illumina HiSeq2500
Submitted by: The Roslin Institute
Study: CAGE-Sequencing of tissues from Benz 2616
show Abstracthide Abstract
To provide a global characterisation of transcription start sites in the Rambouillet genome. CAGE-Seq libraries were generated by the Edinburgh Clinical Research Facility. 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, emily.clark@roslin.ed.ac.uk, bmurdoch@uidaho.edu and faang@iastate.edu to enquire. The full guidelines can be found at http://www.faang.org/data-share-principle.
Sample: spinal cord - cervical
SAMEA104494994 • ERS4023762 • All experiments • All runs
Organism: Ovis aries
Library:
Name: Benz2616_SC
Instrument: Illumina HiSeq 2500
Strategy: OTHER
Source: TRANSCRIPTOMIC
Selection: CAGE
Layout: SINGLE
Construction protocol: ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/ROSLIN_SOP_CAGE-library-preparation_20190903.pdf
Experiment attributes: (show all 19 attributes...) (hide...)
assay type: CAGE-seq
sample storage: frozen, -70 freezer
sample storage processing: cryopreservation in liquid nitrogen (dead tissue)
sampling to preparation interval: 24 months
extraction protocol: ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/USD (show full text...)(hide...)
ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/USDA_SOP_RNA_Extraction_From_Tissue_20180626.pdf
library preparation location: Edinburgh Clinical Research Facility, Western Gene (show full text...)(hide...)
Edinburgh Clinical Research Facility, Western General Hospital, Crewe Rd S, Edinburgh EH4 2XU
library preparation location longitude: -3.234704 decimal degrees
library preparation location latitude: 55.962343 decimal degrees
sequencing location: Centre for Genomic Research, Biosciences Building, (show full text...)(hide...)
Centre for Genomic Research, Biosciences Building, Crown Street Liverpool, United Kingdom, L69 7ZB
sequencing location longitude: -2.963117 decimal degrees
sequencing location latitude: 53.407030 decimal degrees
sequencing date: 2019-01-16 YYYY-MM-DD
experiment target: TSS
cage protocol: ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/ROS (show full text...)(hide...)
ftp://ftp.faang.ebi.ac.uk/ftp/protocols/assays/ROSLIN_SOP_CAGE-library-preparation_20190903.pdf
sequencing primer provider: Integrated DNA Technologies
restrict enzyme target sequence: CAGCAG
rna purity - 260:280 ratio: 2.1
rna purity - 260:230 ratio: 2.08
rna integrity number: 6.2
Runs: 1 run, 5.3M spots, 158.3M bases, 89.6Mb
Run# of Spots# of BasesSizePublished
ERR35895205,250,502158.3M89.6Mb2019-10-22

ID:
9241952

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