|
| Status |
Public on Aug 23, 2017 |
| Title |
CUTLL GSI 2 [genes] |
| Sample type |
SRA |
| |
|
| Source name |
CUTLL GSI
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: CUTLL1
cell type: T-ALL cell line containing a t(7;9) rearrangement and aberrant NOTCH1 activation
passage: <20
treatment: mig_highDBZ
|
| Treatment protocol |
Cells transduced with ICN1 and R1984A were maintained in the presence of gamma-secretase inhibitor GSI ((S)-2-[2-(3,5-difluorophenyl)-acetylamino]-N-((S)-5-methyl-6-oxo-6,7-dihydro-5H-dibenzo[b,d]azepin-7-yl)-propionamide, DBZ) at the concentration of 1µM.
|
| Growth protocol |
Human T-LL cell line CUTLL1 cells were maintained in RPMI1640 medium complement with 10% fetal bovine serum, 1X Penicillin-Streptomycin-Glutamine (PSG).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with RNAeasy kit,
and after ribosomal RNA depletion, stranded RNA libraries were prepared following the instruction of Truseq library preparation guide (Illunima # 15031048). Quality control was assessed by BioA analysis (Agilent Technologies) prior to library construction and again prior to sequencing
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
genes_10495_rpkm.txt
lncRNA_12606.txt
|
| Data processing |
Sequence reads were aligned to the hg19 genome using TopHat or Trinity
Coding gene expression levels were called using Cufflinks
Genome_build: hg19
Supplementary_files_format_and_content: [genes_10495_rpkm.txt] gene expression RPKM table processed with Cufflinks
|
| |
|
| Submission date |
Aug 28, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Chongzhi Zang |
| Organization name |
University of Virginia
|
| Street address |
P. O. Box 800717
|
| City |
Charlottesville |
| State/province |
VA |
| ZIP/Postal code |
22908 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE72482 |
Sequence dependency and regulatory function of dimeric NOTCH1/RBPJ complexes on coding and non-coding transcription in T-lymphoblastic leukemia |
|
| Relations |
| Reanalyzed by |
GSM1863148 |
| BioSample |
SAMN04017356 |
| SRA |
SRX1167132 |
