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Series GSE143145 Query DataSets for GSE143145
Status Public on Aug 20, 2020
Title TENET 2.0: Identification of key transcriptional regulators and enhancers in lung adenocarcinoma
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary To better understand the transcriptional regulators involved in the development of lung cancer, we used H3K27ac and open chromatin data to define enhancer regions which may be affected by differential transcriptional regulator activity. Additionally, we performed siRNA knockdown of key transcriptional regulators identified by our study followed by RNA-seq to identify potential downstream target genes of these regulators
Overall design ChIP-seq for active H3K27ac histone marks and ATAC-seq for regions of open chromatin in alveolar epithelial cells, along with RNA-seq in A549 lung adenocarcinoma cells after siRNA knockdown of transcriptional regulators FOXM1 and MYBL2
Contributor(s) Mullen DJ, Yan C, Kang DS, Zhou B, Borok Z, Marconett CN, Farnham PJ, Offringa IA, Rhie SK
Citation(s) 32925947
Submission date Jan 06, 2020
Last update date Nov 19, 2020
Contact name Daniel James Mullen
Organization name University of Southern California
Department Biochemistry and Molecular Medicine, Surgery
Lab Offringa
Street address 1441 Eastlake Ave., Room NTT 6420
City Los Angeles
State/province CA
ZIP/Postal code 90089
Country USA
Platforms (3)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (22)
GSM4250941 Donor 1 D0 H3K27ac ChIP-seq
GSM4250942 Donor 1 D4 H3K27ac ChIP-seq
GSM4250943 Donor 1 D6 H3K27ac ChIP-seq
BioProject PRJNA599095
SRA SRP239534

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

Supplementary file Size Download File type/resource
GSE143145_RAW.tar 1.2 Gb (http)(custom) TAR (of BW, NARROWPEAK, TXT)
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Raw data are available in SRA
Processed data provided as supplementary file

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