|
| Status |
Public on Jul 25, 2023 |
| Title |
Bulk RNAseq AKT+NICD ICC rep4 |
| Sample type |
SRA |
| |
|
| Source name |
liver
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL6
gender: Male
age: 2 months
model: human AKT+NICD ICC
|
| Treatment protocol |
University of Pittsburgh animal protocol
|
| Growth protocol |
Regular chow diet
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol protocol
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Bulk RNAseq AKT+NICD ICC rep4
|
| Data processing |
Low-quality reads and adapter sequences were filtered out by tool Trimmomatic (version 0.38)
Reads were aligned to mouse reference mm10 by STAR aligner (version 2.6.1a)
Gene count quantification by STAR aligner (option: --quantMode GeneCounts) (version 2.6.1a)
Assembly: mm10
|
| |
|
| Submission date |
Apr 08, 2022 |
| Last update date |
Jul 25, 2023 |
| Contact name |
Shuchang Liu |
| E-mail(s) |
shl96@pitt.edu
|
| Organization name |
University of Pittsburgh
|
| Street address |
203 Lothrop Street
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15261 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE200471 |
NOTCH-YAP1/TEAD-DNMT1 axis drives hepatocyte reprogramming into intrahepatic cholangiocarcinoma [bulk RNA-Seq] |
| GSE200472 |
NOTCH-YAP1/TEAD-DNMT1 axis drives hepatocyte reprogramming into intrahepatic cholangiocarcinoma |
|
| Relations |
| BioSample |
SAMN27465325 |
| SRA |
SRX14786507 |
