|
| Status |
Public on Dec 14, 2022 |
| Title |
Flox#2 rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Flox/Flox_islets
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
genotype/variation: Flox/Flox
age: 1yr
tissue: islets
|
| Extracted molecule |
total RNA |
| Extraction protocol |
islets were isolated after collagenase digestion and density gradient purification and then hand picked for purity, flash frozen in liquid nitrogen, and RNA was harvested using column purification.Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
1yTead1F_F-6582_S2_L001
1yTead1F_F-6582_S2_L001
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm10 whole genome using default parameters in CLC genomics workbench 12
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using default dettings in CLC genomics workbench 12
Genome_build: mm10
Supplementary_files_format_and_content: microsoft Excel files include RPKM values for each Sample
|
| |
|
| Submission date |
Oct 21, 2019 |
| Last update date |
Dec 14, 2022 |
| Contact name |
Vijay K. Yechoor |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Pittsburgh
|
| Lab |
Yechoor lab
|
| Street address |
200 Lothrop Street, BST 1058W
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15213 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
|
| Relations |
| BioSample |
SAMN13067584 |
| SRA |
SRX7027777 |
