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ERX4906654: Illumina NovaSeq 6000 paired end sequencing; Pig, chicken, goat, cattle transcriptome and gene expression atlas by the FAANG pilot project FR-AgENCODE
3 ILLUMINA (Illumina NovaSeq 6000) runs: 87.6M spots, 26.3G bases, 7.9Gb downloads

Design: mRNA-Seq transcriptomic experiment on an Illumina Novaseq 6012
Submitted by: INRAE Ile de France Jouy en Josas - Antony
Study: Pig, chicken, goat, cattle transcriptome and gene expression atlas by the FAANG pilot project FR-AgENCODE
PRJEB42490 • ERP126355 • All experiments • All runs
show Abstracthide Abstract
RNA sequencing of pig, chicken, goat, cattle tissues for transcriptome annotation and expression analysis. Tissue specific RNA-seq data was generated to support annotation of coding and non-coding genes and to measure tissue specific expression. 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 elisabetta.giuffra@inrae.fr, sylvain.foissac@inrae.fr and faang@iastate.edu to enquire. The full guidelines can be found at http://www.faang.org/data-share-principle”.
Sample: lung parenchyma
SAMEA103992660 • ERS5715987 • All experiments • All runs
Organism: Gallus gallus
Library:
Name: GGA-lung-2561_CCAAGTCT-TCATCCTT
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: PolyA
Layout: PAIRED
Construction protocol: https://data.faang.org/api/fire_api/samples/INRA_SOP_FRAGENCODE_mRNA-seq_library_preparation_20210111.pdf
Experiment attributes: (show all 25 attributes...) (hide...)
project: FAANG
assay type: RNA-seq of total RNA
sample storage: frozen, -70 freezer
sample storage processing: cryopreservation in liquid nitrogen (dead tissue)
sampling to preparation interval: 276.0 weeks
experimental protocol: https://data.faang.org/api/fire_api/samples/INRA_S (show full text...)(hide...)
https://data.faang.org/api/fire_api/samples/INRA_SOP_FRAGENCODE_mRNA-seq_library_preparation_20210111.pdf
extraction protocol: https://data.faang.org/api/fire_api/experiments/IN (show full text...)(hide...)
https://data.faang.org/api/fire_api/experiments/INRA_SOP_FRAGENCODE_RNA_extraction_20210111.pdf
library preparation location: GeT-PlaGe, 24 Chemin de Borde Rouge, 31326 Castane (show full text...)(hide...)
GeT-PlaGe, 24 Chemin de Borde Rouge, 31326 Castanet-Tolosan France
library preparation location longitude: 1.50072 decimal degrees
library preparation location latitude: 43.5279 decimal degrees
library preparation date: 2020-10-21 YYYY-MM-DD
sequencing location: GeT-PlaGe, 24 Chemin de Borde Rouge, 31326 Castane (show full text...)(hide...)
GeT-PlaGe, 24 Chemin de Borde Rouge, 31326 Castanet-Tolosan France
sequencing location longitude: 1.50072 decimal degrees
sequencing location latitude: 43.5279 decimal degrees
sequencing date: 2020-11-17 YYYY-MM-DD
experiment target: RNA
rna preparation 3 adapter ligation protocol: https://data.faang.org/api/fire_api/samples/INRA_S (show full text...)(hide...)
https://data.faang.org/api/fire_api/samples/INRA_SOP_FRAGENCODE_mRNA-seq_library_preparation_20210111.pdf
rna preparation 5 adapter ligation protocol: https://data.faang.org/api/fire_api/samples/INRA_S (show full text...)(hide...)
https://data.faang.org/api/fire_api/samples/INRA_SOP_FRAGENCODE_mRNA-seq_library_preparation_20210111.pdf
library generation pcr product isolation protocol: https://data.faang.org/api/fire_api/samples/INRA_S (show full text...)(hide...)
https://data.faang.org/api/fire_api/samples/INRA_SOP_FRAGENCODE_mRNA-seq_library_preparation_20210111.pdf
preparation reverse transcription protocol: https://data.faang.org/api/fire_api/samples/INRA_S (show full text...)(hide...)
https://data.faang.org/api/fire_api/samples/INRA_SOP_FRAGENCODE_mRNA-seq_library_preparation_20210111.pdf
library generation protocol: https://data.faang.org/api/fire_api/samples/INRA_S (show full text...)(hide...)
https://data.faang.org/api/fire_api/samples/INRA_SOP_FRAGENCODE_mRNA-seq_library_preparation_20210111.pdf
read strand: mate 2 sense
rna purity 260-280 ratio: 2.19
rna purity 260-230 ratio: 2.25
rna integrity number: 8.4
Runs: 3 runs, 87.6M spots, 26.3G bases, 7.9Gb
Run# of Spots# of BasesSizePublished
ERR510105729,127,6658.7G2.6Gb2021-01-31
ERR510105829,173,2158.8G2.6Gb2021-01-31
ERR510105929,328,2558.8G2.7Gb2021-01-31

ID:
13081807

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