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| Status |
Public on Dec 10, 2019 |
| Title |
Liver, Shp Hep-/- HFCF 3 |
| Sample type |
SRA |
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| Source name |
Liver
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| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
age: 5 months
genotype: Shp Hep-/-
treatment: HFCF
tissue: liver
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| Extracted molecule |
total RNA |
| Extraction protocol |
Livers were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Zymogen Research Direct-zol RNA Miniprep Plus (Cat#R2072) was used. 2 ug of total RNA was used for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using Illumina TruSeq Stranded RNA Kit wit Ribo-Zero Gold
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1000 |
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| Description |
HSKO HF 3
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| Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-quality sequence, then mapped to mm10 whole genome using CLCBio Genomics Workbench 11 with default parameters
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text file includes counts, FPKM values for each Sample
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| Submission date |
Jul 01, 2019 |
| Last update date |
Dec 10, 2019 |
| Contact name |
Yuxia Zhang |
| E-mail(s) |
[email protected]
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| Phone |
9135881749
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| Organization name |
University of Kansas Medical Center
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| Department |
Pharmacology, Toxicology, and Therapeutics
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| Street address |
3901 Rainbow Blvd, Hemenway 4001
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| City |
kansas city |
| State/province |
KS |
| ZIP/Postal code |
66160 |
| Country |
USA |
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| Platform ID |
GPL15103 |
| Series (1) |
| GSE133566 |
Shp-deletion induces dissociation of steatosis and inflammation in NASH |
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| Relations |
| BioSample |
SAMN12169335 |
| SRA |
SRX6384946 |
| 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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