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| Status |
Public on Feb 28, 2014 |
| Title |
36_FAT_post-puberty |
| Sample type |
SRA |
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| Source name |
Fat
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| Organism |
Bos taurus |
| Characteristics |
developmental stage: POST-puberty
tissue: Fat
breed: Brangus (3/8 Brahman x 5/8 Angus)
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| Treatment protocol |
Duplicate 10 g samples of each tissue were ground in liquid nitrogen with mortar and pestle.
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| Growth protocol |
All tissues were collected within 15 min postmortem, snap-frozen in liquid nitrogen, and then stored at -80° C until processing.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was purified using a Trizol protocol (Invitrogen, Carlsbad, CA).
mRNA was purified, fragmented, and converted to cDNA. Adapters were ligated to the ends of double-stranded cDNA and PCR amplified to create libraries. These procedures were executed with the TruSeq RNA Sample Preparation kit of Illumina (San Diego, CA).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Data processing |
Filtering for quality by NGS Quality Control tool using CLC Genomics Workbench (CLC Bio, Aarhus, Denmark).
RNA-Seq analysis using CLC Genomics Workbench Ver. 6.0
Genome_build: Annotated UMD3.1 bovine reference genome (http://www.ncbi.nlm.nih.gov/genome/?term=bos+taurus)
Supplementary_files_format_and_content: .csv containing Ensembl ID, Gene name, chromosome, gene start (bp), gene end (bp), average unique reads, RPKM means.
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| Submission date |
Feb 27, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Angela Cánovas |
| E-mail(s) |
acanovas@uoguelph.ca
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| Organization name |
University of Guelph
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| Department |
Animal Biosciences
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| Lab |
Cánovas Lab
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| Street address |
50 Stone Road East
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| City |
Guelph |
| State/province |
ON |
| ZIP/Postal code |
N1G 2W1 |
| Country |
Canada |
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| Platform ID |
GPL15749 |
| Series (1) |
| GSE55435 |
Multi-Tissue Omics Analyses Reveals Molecular Regulatory Networks for Puberty in Composite Beef Cattle |
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| Relations |
| BioSample |
SAMN02666494 |
| SRA |
SRX477527 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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