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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jun 16, 2024 |
| Title |
NAFLD patient, NAFLD activity score 4-7, fibrosis stage 4, biological replication 4 |
| Sample type |
SRA |
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| Source name |
Liver
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| Organism |
Homo sapiens |
| Characteristics |
tissue: Liver
Sex: Male
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| Treatment protocol |
Vehicle (HyClone DPBS, Cytiva, Germany) or tirzepatide (109.5 nmol/kg, CPC, Hanzhou, China) dissolved in vehicle was administered via subcutaneous injection to ad libitum-fed STZ+HFD mice 1-2 hours prior to the onset of the dark cycle every 2 days for 10 to 11 weeks.
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| Growth protocol |
Mice were housed in climate-controlled, specific pathogen-free barrier facilities under a 12 h light-dark cycle and provided diet and water ad libitum. They were fed standard chow diet (SCD) (Teklad Global 18% Protein Rodent Diet 2018; Harlan Teklad, WI, USA), 18% fat or HFD (Research Diet (New Brunswick, NJ, USA) D12492, 60% fat) from 8 weeks of age.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using a RNeasy Mini kit (Qiagen, Hilden, Germany; 74104) in keeping with the manufacturer’s instructions.
The RNA sequencing library was prepared using a NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (New England BioLabs, Ipswitch, MA, USA; E7760).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
rawcount_allsamples_human.txt
Human_NAFLD_26
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| Data processing |
Raw RNA-sequencing data obtained from mouse were mapped to mouse genome build mm10 (GRCm38) and those from human mapped to human genome build 38 (GRCh38) using STAR (version 020201).
Count matrices were generated using RSEM (v1.3.1)
Assembly: mm10, human genome build 38 (GRCh38)
Supplementary files format and content: tab-delimited text files include raw expected count generated by RNA-seq for each sample
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| Submission date |
Oct 25, 2023 |
| Last update date |
Jun 16, 2024 |
| Contact name |
Byung-Kwan Jeong |
| E-mail(s) |
goodididid@gmail.com
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| Organization name |
Asan Medical Center
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| Department |
Pathology
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| Street address |
88, Olympic-ro 43-gil
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| City |
Songpa-Gu |
| State/province |
Seoul |
| ZIP/Postal code |
05505 |
| Country |
South Korea |
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| Platform ID |
GPL24676 |
| Series (2) |
| GSE246221 |
A Mouse Model for Metabolic Dysfunction-associated Steatotic Liver Disease and Hepatocellular Carcinoma [RNA-seq] |
| GSE246223 |
A Mouse Model for Metabolic Dysfunction-associated Steatotic Liver Disease and Hepatocellular Carcinoma |
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| Relations |
| BioSample |
SAMN37984285 |
| SRA |
SRX22224827 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
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