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Sample GSM4216678 Query DataSets for GSM4216678
Status Public on Dec 07, 2020
Title PUFA 16 High diet
Sample type SRA
 
Source name uterine endometrial tissue
Organism Bos taurus
Characteristics treatment: pufa
diet: High diet
Treatment protocol Heifers were offered a concentrate-based diet supplemented (n-3 PUFA; n=32) or not (Control; n=28) with an n-3 PUFA-enriched product for 30 days prior to insemination. Following insemination, animals were allocated, within treatment, to one of two post insemination diets, either remaining on their existing high plane of nutrition (Control + High (n = 14); n-3 PUFA + High (n = 15)), or fed a low plane of nutrition diet (Control + Low (n = 14); n-3 PUFA + Low (n = 17)).
Growth protocol Estrous cycles in normal nulliparous crossbred beef heifers (n=60) were synchronized in reproductively. Heifers were offered a concentrate-based diet supplemented (n-3 PUFA; n=32) or not (Control; n=28) with an n-3 PUFA-enriched product for 30 days prior to insemination. Following insemination, animals were allocated, within treatment, to one of two post insemination diets, either remaining on their existing high plane of nutrition (Control + High (n = 14); n-3 PUFA + High (n = 15)), or fed a low plane of nutrition diet (Control + Low (n = 14); n-3 PUFA + Low (n = 17)).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from frozen uterine endometrial tissue by homogenisation using the Qiagen Rneasy RNA isolation kit.
Single-end mRNA-seq libraries were constructed using the Illumina Truseq sample prep kit.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description PUFA-supplemented, high diet post-insemination
JE6-194
Data processing Basecalls performed using CASAVA version 1.4
Input reads were then aligned to the bovine reference genome (UMD3.1) using TopHat (v2.0.9).
HTSeq (v0.5.4p5) was employed to calculate the number of sequence reads overlapping all protein-coding genes from the ENSEMBL v74 annotation of the bovine genome.
Genome_build: UMD 3.1
Supplementary_files_format_and_content: Tab delimited txt file of merged gene read counts
 
Submission date Dec 12, 2019
Last update date Dec 07, 2020
Contact name Kate Keogh
Organization name Teagasc Grange
Department Animal and Bioscience Department
Street address Dunsany
City Co. Meath
ZIP/Postal code 0000
Country Ireland
 
Platform ID GPL15749
Series (1)
GSE141937 Effect of dietary n-3 PUFA supplementation and post-insemination plane of nutrition on global gene expression patterns in bovine uterine endometrial tissue
Relations
BioSample SAMN13549375
SRA SRX7354729

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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