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Series GSE144581 Query DataSets for GSE144581
Status Public on Aug 04, 2020
Title Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis [Cut&Run ChIP-seq]
Organism Homo sapiens
Experiment type Other
Summary Several different YAP1 gene fusions have been identified in various human cancers. We performed Cut and Run Chip sequencing on human neural stem cells overexpressing either YAP1-MAMLD1, YAP1-FAM118B, YAP1-TFE3, wild type YAP1, wild type MAMLD1, wild type FAM118B, wild type TFE3, or S127/397A-YAP1 (all HA tagged at the N'terminus)
Overall design U5 human neural stem cells were transduced with pLJM1-"transgene"-PGK-Puro. 48 hrs post transduction, positive clones were selected by 72 hrs of Puromycin selection. Cells were lysed and gDNA was extracted for Cut and Run experiments 48 hrs after Puromycin selection. Used antibodies: rabbit anti-HA, mouse anti-TEAD4, rabbit Igg, mouse Igg

***Please note that no processed data was provided for the 'wild type FAM118B HA rep1' and 'wild type MAMLD1 HA rep3' samples as no peaks detected using the SEACR package. The experiment was carried out twice, which generated inconsistent results both times (i.e. one replicate gives a million peaks, other gives much lesser, or zero peaks). However, all four samples are submitted and included in the records for users who may try to analyze the data.
Contributor(s) Szulzewsky F, Holland EC, Arora S
Citation(s) 32675324
Submission date Jan 30, 2020
Last update date Aug 12, 2020
Contact name Sonali Arora
Organization name FHCRC
Street address 1100 Fairview Ave N,
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (45)
GSM4291175 wild type YAP1 HA rep1
GSM4291176 wild type YAP1 HA rep2
GSM4291177 wild type YAP1 rbIgg
This SubSeries is part of SuperSeries:
GSE137040 Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis
BioProject PRJNA604071
SRA SRP246236

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
GSE144581_RAW.tar 4.2 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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