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| Status |
Public on Aug 18, 2021 |
| Title |
liver, HFD, 6447 |
| Sample type |
SRA |
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| Source name |
liver
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| Organism |
Mus musculus |
| Characteristics |
genetic background: Creld2 WT/WT
treatment: HFD
tissue: liver
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the Nucleospin RNA II kit (Macherey & Nagel) according to the manufacturer’s instructions
According to the manufacturer´s instructions in the Tru-Seq RNA library preparation kit v2, 10 ng of RNA was converted into cDNA libraries
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
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| Description |
Dietary in vivo model for non-alcoholic fatty liver induction
High-fat diet
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| Data processing |
base calling and de-multipexing using CASAVA version 1.8
Alignment with TopHat2 v2.0.11 and SAMtools version 1.4 using the default parameters
Quantification with Partek Genomics Suite V6.6
reads mapped to each transcript against the RefSeq Hg19 annotation download on May 2015
Normalization using DeSeq2
Genome_build: hg19
Supplementary_files_format_and_content: Comma separated file includes DeSeq2 rlog counts for each Sample.
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| Submission date |
Jan 06, 2020 |
| Last update date |
Aug 18, 2021 |
| Contact name |
Elvira Mass |
| E-mail(s) |
[email protected]
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| Organization name |
LIMES
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| Street address |
Carl-Troll str
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| City |
Bonn |
| ZIP/Postal code |
53115 |
| Country |
Germany |
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| Platform ID |
GPL18480 |
| Series (1) |
| GSE143185 |
Creld2 function during unfolded protein response is essential for liver metabolism homeostasis |
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| Relations |
| BioSample |
SAMN13740195 |
| SRA |
SRX7506285 |
| 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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