|
| Status |
Public on Jan 17, 2024 |
| Title |
RNA seq rep2 |
| Sample type |
SRA |
| |
|
| Source name |
HEK293 T-Rex
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293 Flp-In T-Rex cells
|
| Growth protocol |
HEK293 Flp-In T-Rex cells were cultured in DMEM high glucose medium supplemented with 10% FBS (Sigma-Aldrich F0804), 2mM L-glutamine (Sigma-Aldrich, G7513) and 1% penicillin-streptomycin (Sigma-Aldrich, P4333). Cells were kept at 37 °C in 5% CO2 incubator. All cell lines were routinely checked for mycoplasma contamination by PCR.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested from HEK293T cells using Trizol reagent. TruSeq stranded Total RNA (Gold), Illumina was used for the construction of sequencing libraries.
Libraries were prepared according to Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
Adapter trimming, quality control (trim_galore (Version 0.6.4) --stringency 3 -q 30 --paired)
Ribosome read removal (Bowtie2, Version 2.4.2)
Genome alignment (STAR, Version 2.6.0b, default parameters)
Genome_build: GRCH38
Supplementary_files_format_and_content: HEK293_RNAseq_chaperome_expression_RPKM.xlsx (excel). Chaperone genes RPKM in HEK293
|
| |
|
| Submission date |
Dec 20, 2021 |
| Last update date |
Jan 17, 2024 |
| Contact name |
Andrés Manuel Herrero-Ruiz |
| E-mail(s) |
ah2192@cam.ac.uk
|
| Organization name |
MRC-University of Cambridge
|
| Department |
MRC Toxicology Unit
|
| Lab |
Ritwick Sawarkar's Laboratory
|
| Street address |
Gleeson Building, Tennis Court Road
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 1QR |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL21290 |
| Series (2) |
| GSE191244 |
HSP70 binds RNA and regulates transcription by RNA Polymerase III [RNA-seq] |
| GSE191245 |
HSP70 binds to specific non-coding RNA and regulates human RNA polymerase III |
|
| Relations |
| BioSample |
SAMN24224833 |
| SRA |
SRX13453827 |
