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| Status |
Public on Oct 03, 2023 |
| Title |
HEK293T_ADAR1KO_1 |
| Sample type |
SRA |
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| Source name |
HEK293T
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| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293T
treatment: untreated
genotype: ADAR1 knockout
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol Reagent.
The library was constructed using KAPA HyperPrep RNA-seq Kit (Kapa Biosystems, KK8540).
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
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| Description |
ADAR1_rawcount.txt
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| Data processing |
Basecalls performed using illumina RTA v2.
Reads were mapped using STAR v2.4.2a with the reference genome hg19 for human (paremeters: --outFilterMultimapNmax 10 --outFilterMultimapScoreRange 1 --outFilterScoreMin 10).
The expression of known genes (measured in Transcripts Per Kilobase Million, TPM) was quantified using RSEM v1.2.21.
Assembly: hg19
Supplementary files format and content: Matrix table with TPM for every gene and every sample
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| Submission date |
Mar 10, 2022 |
| Last update date |
Oct 03, 2023 |
| Contact name |
Shibin Hu |
| E-mail(s) |
shibinhu88@gmail.com
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| Organization name |
Stanford University
|
| Department |
Genetics
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| Lab |
Jin Billy Li
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| Street address |
240 pasteur drive, 4300
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platform ID |
GPL21697 |
| Series (1) |
| GSE198386 |
ADAR1 utilizes independent mechanisms to suppress MDA5 and PKR activation by cellular double-stranded RNA |
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| Relations |
| BioSample |
SAMN26566057 |
| SRA |
SRX14432475 |
| 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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