|
| Status |
Public on Feb 13, 2013 |
| Title |
RNA-seq_FLP143_T24 |
| Sample type |
SRA |
| |
|
| Source name |
derived from HEK293, human embryonic kidney cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: FLP143
cell line specificity: HEK293-T-Rex inducible cell line expressing ZNF143
treatment: 24h Induction with 1µg/mL ofdoxycycline
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with TRI-REAGENTM (Euromedex) following the manufacturer protocol for RNA isolation. mRNA was purified from total RNA using oligo-dT magnetic beads. RNA-seq libraries preparation was performed using illumina TruSeq RNA Sample Preparation kit according to manufacturer protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer IIx |
| |
|
| Data processing |
Basecalls performed using Illumina CASAVA version 1.7 or v1.8
RNA-seq reads were aligned to hg19 genome using TopHat v2.0.3 software
RNA-seq mRNA abundance mesurement (FPKM) was performed with Cufflinks RNA-Seq analysis tools
Genome_build: hg19
Supplementary_files_format_and_content: Tab-delimited text files include FPKM for the RNA-seq assembled transcripts (Reference Refseq Genes)
|
| |
|
| Submission date |
Jul 11, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
PHILIPPE CARBON |
| Organization name |
IBMC
|
| Department |
UPR9002 ARN du CNRS
|
| Street address |
15 rue René Descartes
|
| City |
Strasbourg |
| ZIP/Postal code |
67084 |
| Country |
France |
| |
|
| Platform ID |
GPL10999 |
| Series (1) |
| GSE39263 |
Modulation of gene expression by ZNF143, THAP11 and NOTCH1 via overlapping binding sites in mammalian cells |
|
| Relations |
| SRA |
SRX159143 |
| BioSample |
SAMN01087354 |
