|
| Status |
Public on Feb 04, 2021 |
| Title |
Hudep2_ABEmax_RNA_seq_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Hudep2_ABEmax_RNA_seq_rep1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Hudep2/ABE
|
| Treatment protocol |
NA
|
| Growth protocol |
NA
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was extracted from 1 million HUDEP-2 cells, using the RNeasy Mini Kit (Qiagen).
The TruSeq Stranded mRNA Library Prep Kit (Illumina) was used to enrich for polyA+ RNA and to create libraries for HiSeq2000 sequencing (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
RNA-seq
|
| Data processing |
Gene expression profiles were quantified using Kallisto (v0.43.1) on hg19 Ensembl v75 cDNA annotation.
Gene expression correlation was calculated based on TPM values.
Genome_build: hg19
Supplementary_files_format_and_content: tsv
|
| |
|
| Submission date |
Sep 01, 2020 |
| Last update date |
Feb 04, 2021 |
| Contact name |
Yong Cheng |
| E-mail(s) |
Yong.Cheng@stjude.org
|
| Organization name |
St. Jude Children’s Research Hospital
|
| Department |
Department of Hematology
|
| Lab |
Yong Cheng Lab
|
| Street address |
262 Danny Thomas Place
|
| City |
Memphis |
| State/province |
Tennessee |
| ZIP/Postal code |
38018 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE157309 |
Single-nucleotide–level mapping of DNA regulatory elements that control fetal hemoglobin expression (RNA-Seq) |
| GSE157311 |
Single-nucleotide–level mapping of DNA regulatory elements that control fetal hemoglobin expression |
|
| Relations |
| BioSample |
SAMN15961580 |
| SRA |
SRX9055439 |
