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Series GSE102209 Query DataSets for GSE102209
Status Public on Jun 26, 2018
Title Cooperation between TLX1 and the NUP214-ABL1/STAT5 signaling in T-cell acute lymphoblastic leukemia
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary The NUP214-ABL1 fusion is a constitutively activated tyrosine kinase that is significantly associated with overexpression of the TLX1 or TLX3 transcription factors in T-cell acute lymphoblastic (T-ALL). Here we show that NUP214-ABL1 kinase cooperates with TLX1 in driving T-ALL development using a transgenic mouse model. Using ChIP-seq and ATAC-seq, we show that TLX1 and STAT5, the downstream effector of NUP214-ABL1, selectively increase the accessibility of enhancer regions, and cooperatively activate the expression of key proto-oncogenes such as MYC and BCL2. Moreover, MYC is also part of the TLX1/STAT5 complex and inhibition of both MYC and STAT5 leads to reduction of target gene expression.
 
Overall design RNA-sequencing of different conditions: wild type, NUP214-ABL1 +, TLX1 +, NUP214-ABL1+TLX1 +, NUP214-ABL1+TLX3 +. Transgenic mouse samples and ALL-SIL cell line. Xenografts of patient samples. Before and after treatment with Imatinib.
ChIPmentation sequencing with different antibodies: STAT5, TLX1, H3K4me3, H3K27ac, p300 and BRD4. Transgenic mouse with NUP214-ABL1+TLX1 +.
ATAC-sequencing for different conditions in mouse: wild type, NUP214-ABL1 +, TLX1 +, NUP214-ABL1+TLX1 +.
 
Contributor(s) Demeyer S, Vanden Bempt M, De Bock C, Cools J
Citation(s) 30107177
Submission date Aug 03, 2017
Last update date May 15, 2019
Contact name Sofie Demeyer
E-mail(s) sofie.demeyer@kuleuven.vib.be
Organization name KULeuven / VIB
Department Center for Cancer Biology
Lab Laboratory of Molecular Biology of Leukemia
Street address Herestraat 49 / bus 912
City Leuven
ZIP/Postal code 3000
Country Belgium
 
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (69)
GSM2730329 wt-1 - thymus
GSM2730330 wt-2 - thymus
GSM2730331 wt-3 - thymus
Relations
BioProject PRJNA397010
SRA SRP114758

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE102209_RAW.tar 3.4 Gb (http)(custom) TAR (of BEDGRAPH, NARROWPEAK, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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