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Sample GSM4291218 Query DataSets for GSM4291218
Status Public on Aug 04, 2020
Title wild type MAMLD1 HA rep4
Sample type SRA
 
Source name U5_wild type MAMLD1 HA
Organism Homo sapiens
Characteristics cell line background: U5
cell type: human neural stem cell line
genotype/variation: wild type MAMLD1 overexpression
antibody: rabbit anti-HA antibody
Extracted molecule genomic DNA
Extraction protocol genomic DNA bound to targeted proteins was extracted as described here: dx.doi.org/10.17504/protocols.io.ufeetje
DNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy OTHER
Library source genomic
Library selection other
Instrument model Illumina HiSeq 2500
 
Description genomic DNA isolated using anti-HA antibody in wild type MAMLD1 (HA tagged)-expressing cells
Data processing library strategy: Cut & Run
Sequencing was performed using an Illumina HiSeq 2500 in Rapid Run mode and employed a paired-end, 50 base read length (PE50) sequencing strategy.
Raw reads were aligned to the UCSC hg19 assembly using bowtie2 and peaks were called using SEACR
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include called peaks for each Sample using SEACR.
 
Submission date Jan 30, 2020
Last update date Aug 12, 2020
Contact name Sonali Arora
E-mail(s) sarora@fredhutch.org
Organization name FHCRC
Street address 1100 Fairview Ave N,
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platform ID GPL16791
Series (2)
GSE137040 Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis
GSE144581 Comparison of tumor-associated YAP1 fusions identifies a recurrent set of functions critical for oncogenesis [Cut&Run ChIP-seq]
Relations
BioSample SAMN13950444
SRA SRX7654239

Supplementary file Size Download File type/resource
GSM4291218_new_wtMAMLD1_2_HA.peaks.stringent.bed.gz 1.4 Mb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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