![](/coreweb/template1/pix/main_left_bg.gif) |
![](/coreweb/template1/pix/pixel.gif) |
GEO help: Mouse over screen elements for information. |
|
Status |
Public on Dec 01, 2019 |
Title |
S21 F1 OVER DAY 135 |
Sample type |
SRA |
|
|
Source name |
F1 OVER DAY 135
|
Organism |
Ovis aries |
Characteristics |
breed: Western White-faced maternal nutrition: over time: DAY 135 tissue: longissimus dorsi
|
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.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NextSeq 500 |
|
|
Description |
S21-F1-O135_S7 21F1_OVER_day135
|
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
|
|
|
Submission date |
Dec 23, 2018 |
Last update date |
Dec 01, 2019 |
Contact name |
Kriste E Govoni |
E-mail(s) |
kristen.govoni@uconn.edu
|
Phone |
860-486-2480
|
Organization name |
University of Connecticut
|
Department |
Animal Science
|
Street address |
3636 Horsebarn Road Ext., Unit 4040
|
City |
Storrs |
State/province |
CT |
ZIP/Postal code |
06269-4040 |
Country |
USA |
|
|
Platform ID |
GPL22509 |
Series (1) |
GSE124327 |
Poor maternal nutrition during gestation alters prenatal muscle growth and development in offspring |
|
Relations |
BioSample |
SAMN10641326 |
SRA |
SRX5177901 |
Supplementary data files not provided |
SRA Run Selector![Help](/coreweb/images/long_help4.gif) |
Raw data are available in SRA |
Processed data are available on Series record |
|
|
|
|
![](/coreweb/template1/pix/main_right_bg.gif) |