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ERX12234901: Rabbits transcriptomic data from single cells isolated from the caecum epithelium
1 ILLUMINA (Illumina NovaSeq 6000) run: 154.6M spots, 17.9G bases, 5.4Gb downloads

Design: NovaSeq 6000 paired end sequencing
Submitted by: INRAE
Study: Single cell transcriptomics of the rabbit caecum epithelium
show Abstracthide Abstract
Transcriptomic data from single cells isolated from the caecum epithelium from 25-day old rabbits exclusively suckling (milk group) or suckling and ingesting solid food (milk+solid group). The aim of this protocol was to use single cell transcriptomics to identify how the ingestion of solid food alters gene expression in each cell type of the caecum epithelium in suckling rabbits. This protocol is part of the project METABOWEAN (Gut microbiota-derived metabolites: natural products to promote epithelial barrier maturation at the suckling-to-weaning transition) funded by the French National Research Agency (ANR-21-CE20-0048).Data producers reserve the right to make the first publication of a global analysis of this data. Any use of this dataset must comply with the FAANG data sharing principles. The dataset is published under the CC BY SA 4.0 (Creative Commons) license. If you are unsure if you are allowed to publish on this dataset, please contact martin.beaumont@inrae.fr, nathalie.vialaneix@inrae.fr or faang@iastate.edu to enquire. The full guidelines can be found at http://www.faang.org/data-share-principle”.
Sample: epithelium, caecum, Rabbit 2, post-natal day 24
SAMEA115397186 • ERS18417767 • All experiments • All runs
Library:
Name: MAGICs2-Epith-L2_SI-TT-H8-SI-TT-H8
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC SINGLE CELL
Selection: PCR
Layout: PAIRED
Construction protocol: https://support.illumina.com/content/dam/illumina-support/documents/documentation/system_documentation/novaseq/novaseq-6000-denature-dilute-libraries-guide-1000000106351-03.pdf
Experiment attributes: (show all 26 attributes...) (hide...)
project: FAANG
assay type: scRNA-seq
sample storage: fresh
sample storage processing: fresh
sampling to preparation interval: 4.0 hours
experimental protocol: https://api.faang.org/files/protocols/samples/INRA (show full text...)(hide...)
https://api.faang.org/files/protocols/samples/INRAE_SOP_METABOWEAN_20240228.pdf
extraction protocol: https://api.faang.org/files/protocols/samples/INRA (show full text...)(hide...)
https://api.faang.org/files/protocols/samples/INRAE_SOP_METABOWEAN_20240228.pdf
library preparation location: Plateau GeT-Santé, INSERM Rangueil – UMR 1297 (I2M (show full text...)(hide...)
Plateau GeT-Santé, INSERM Rangueil – UMR 1297 (I2MC), BP 84255 31432 TOULOUSE Cedex 4, France
library preparation location longitude: 1.4996292543061 decimal degrees
library preparation location latitude: 43.527420877489 decimal degrees
library preparation date: 2022-10-25 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: 1.4996292543061 decimal degrees
sequencing location latitude: 43.527420877489 decimal degrees
sequencing date: 2024-01-15 YYYY-MM-DD
experiment target: polyA RNA
library construction: 10X v3
primer: oligo-dT
amplification method: PCR
amplification cycles: 12.0
end bias: 3 prime tag
library strand: first (antisense)
spike in: none
library generation protocol: https://api.faang.org/files/protocols/samples/INRA (show full text...)(hide...)
https://api.faang.org/files/protocols/samples/INRAE_SOP_METABOWEAN_20240228.pdf
sequencing protocol: https://api.faang.org/files/protocols/samples/INRA (show full text...)(hide...)
https://api.faang.org/files/protocols/samples/INRAE_SOP_METABOWEAN_20240228.pdf
read strand: antisense
Runs: 1 run, 154.6M spots, 17.9G bases, 5.4Gb
Run# of Spots# of BasesSizePublished
ERR12862090154,622,77017.9G5.4Gb2024-07-24

ID:
34073723

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