|
Status |
Public on Aug 23, 2017 |
Title |
CUTLL ICN1 2 [lncRNA] |
Sample type |
SRA |
|
|
Source name |
CUTLL ICN1
|
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: highDBZ_ICN
|
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 |
ncRNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
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 lncRNA expression levels were identified using Trinity Genome_build: hg19 Supplementary_files_format_and_content: [lncRNA_12606.txt] lncRNA expression RPKM table processed with Trinity
|
|
|
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 |
Reanalysis of |
GSM1863096 |
BioSample |
SAMN04017500 |
SRA |
SRX1167288 |