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| Status |
Public on Dec 01, 2019 |
| Title |
S108 F1 OVER BIRTH |
| Sample type |
SRA |
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| Source name |
F1 OVER BIRTH
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| Organism |
Ovis aries |
| Characteristics |
breed: Western White-faced
maternal nutrition: over
time: BIRTH
tissue: longissimus dorsi
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| Extracted molecule |
total RNA |
| Extraction protocol |
Longissimus dorsi tissue samples were collected from a subset of male fetuses at day 90 (n = 11, CON = 4, OVER = 3, RES = 4), day 135 (n =10, CON = 3, OVER = 3, RES = 4) and lambs at birth (n = 11, CON = 4, OVER = 4, RES = 3) and stored at -80°C until RNA-seq analyses. RNA was isolated as described in Reed et al. (2014). Briefly, tissue was homogenized in 1 mL Qiazol using a Qiagen Tissuelyser (Qiagen, Valencia, CA) and RNA was extracted using a Qiagen Mini Kit according to the manufacturer protocol (Qiagen). A Turbo DNA Free kit (Ambion, Foster City, CA) was used to remove genomic DNA. RNA quality was determined using a Bioanalyzer analysis system (Agilent Technologies, Santa Clara, CA).
A total of 50 ng of RNA (RNA integrity number of 8 or above) from each animal was used to prepare sequencing libraries following Illumina’s TruSeq stranded mRNA Sample Preparation Guide for library preparation protocol.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Description |
S108-F1-OD1_S7
108F1_OVER_birth
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| Data processing |
Quality control (QC) was performed using Sickle to eliminate sequences that were ≤ 35 bp in length and had a Phred score ≤ 35. Paired ends reads of 150 base pairs and a Q score of ³ 30 were used for analysis.
Genome_build: Ovis Aries V.4.0
Supplementary_files_format_and_content: Excel file with raw counts by sample and gene
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| Submission date |
Dec 23, 2018 |
| Last update date |
Dec 01, 2019 |
| Contact name |
Kriste E Govoni |
| E-mail(s) |
kristen.govoni@uconn.edu
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| Phone |
860-486-2480
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| Organization name |
University of Connecticut
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| Department |
Animal Science
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| Street address |
3636 Horsebarn Road Ext., Unit 4040
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| City |
Storrs |
| State/province |
CT |
| ZIP/Postal code |
06269-4040 |
| Country |
USA |
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| Platform ID |
GPL22509 |
| Series (1) |
| GSE124327 |
Poor maternal nutrition during gestation alters prenatal muscle growth and development in offspring |
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| Relations |
| BioSample |
SAMN10641298 |
| SRA |
SRX5177919 |
| 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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