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SAMEA13389831: CC21.15F1a_HostG

Sample data for SAMEA13389831, a HoloFood host-genomic chicken sample


Sample details
Animal
Chicken SAMEA112905268
Sample type
Host genome data icon host-genomic
API endpoint
/api/samples/SAMEA13389831 Copy API Endpoint
Sample metadata

Metadata for sample SAMEA13389831, stored in BioSamples and ENA.

 Download all as TSV

Ena Checklist metadata

Marker Measurement Units
ENA-CHECKLIST ERC000052 None
ENA-FIRST-PUBLIC 2023-03-22 None
ENA-LAST-UPDATE 2023-03-22 None
External Id SAMEA13389831 None
INSDC center alias UNIVERSITY OF COPENHAGEN None
INSDC center name UNIVERSITY OF COPENHAGEN None
INSDC first public 2023-03-22T12:22:27Z None
INSDC last update 2023-03-22T12:22:27Z None
INSDC status public None
SRA accession ERS10992327 None
Submitter Id CC21_15F1a_MAGCC_HostG None
adapters AAGTCGGAGGCCAAGCGGTCTTAGGAAGACAA;AAGTCGGATCGTAGCCATGTCGTTC None
collection date 2019-10-15 None
common name chicken None
description Chicken host genomic data from Caecum content; animal CC21.15 from cage CC21 with treatment CE None
geographic location (country and/or sea) Spain None
geographic location (latitude) 41.17 DD
geographic location (longitude) 1.1685 DD
geographic location (region and locality) El Morell; Tarragona None
host body site Caecum content None
host breed Ross None
host common name Chicken None
host diet treatment Prebiotic None
host disease status Campylobacter:+;Salmonella:-;Clostridium:- None
host scientific name Gallus gallus None
host sex male None
host storage container temperature 21 °C
host subject id CC21.15 None
host taxid 9031 None
host total mass 2540 g
library name BEMT None
library selection PCR None
nucleic acid extraction D-rex protocol None
organism Gallus gallus None
project HoloFood None
project name HoloFood Chicken - Host Genome None
reference host genome for decontamination GCF_000002315.6 None
sample storage buffer Shield None
sample storage container E-matrix 2ml None
sample storage location UCPH None
sample storage temperature -20 °C
sample volume or weight for DNA extraction 0.2 mL
scientific_name Gallus gallus None
sequencing method MGISEQ-2000 None
title CC21.15F1a_HostG None
trial length 35 day
trial timepoint 35 day

Sample metadata

Marker Measurement Units
Body site caecum content None
Experiment genomics None
Index PCR cycles 12 None
Lab Process ID LPC00302 None
Organism Chicken None
Pool MAG05-502 None
Project HoloFood None
Raw sequence name F19FTSEUET0172_MICrccR/MAG05/200310_I076_V300038545_L2_CDK153B200227006-502/V300038545_L02_502 None
Sample code CC21.15F1a None
Sequencing company BGI None
ng used for library build 380.7 None

Treatment metadata

Marker Measurement Units
Treatment code CE None
Treatment name Prebiotic None

Trial metadata

Marker Measurement Units
Trial code CC None
Trial description Trial 3 None
Trial end 2019-07-14 None
Trial start 2019-06-09 None
Nucleotide sequencing data

Sample SAMEA13389831 has nucleotide sequencing data in the European Nucleotide Archive (ENA): 2,308,755,226bp sequenced by 15,994,158 reads. View sample SAMEA13389831 in ENA

Related records in ENA

Data domain Accession Title/alias
Sample SAMEA13389831 CC21.15F1a_HostG
Reads (Run) ERR9285749 webin-reads-CC21_15F1a_MAGCC_HostG
Reads (Experiment) ERX8827862 DNBSEQ-G400 sequencing: Raw reads: CC21_15F1a_MAGCC_HostG
Project/Study PRJEB45273 HoloFood Chicken Host Genome

Analysis summaries

Documents written by HoloFood partners and collaborators relevant to Sample SAMEA13389831