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Sample GSM2202657 Query DataSets for GSM2202657
Status Public on Jun 16, 2016
Title 2_002OGWU_U87_Input
Sample type SRA
Source name U-87 MG glioma cancer cells overexpressing sGCβ1, input
Organism Homo sapiens
Characteristics originating cell line: U-87 MG
tissue derivation: malignant glioma
cell type: glioma cancer cell line overexpressing sGC-beta1
chip antibody: none
Treatment protocol None
Growth protocol U87 cells were grown in Eagle's Minimum Essential Medium supplemented with 10% FBS.
Extracted molecule genomic DNA
Extraction protocol Lysates were clarified from sonicated nuclei and chromatins were isolated with anti-sGCβ1 antibody (Sigma G4405).
The ChIP DNA was processed into a standard Illumina ChIP-Seq library.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
Description Input sample
Data processing The 75-nt sequence reads generated by Illumina sequencing (using NextSeq 500) are mapped to the hg19 genome using the BWA algorithm with default settings.
Only reads that pass Illumina’s purity filter, align with no more than 2 mismatches, and map uniquely to the genome are used in the subsequent analysis.
Intervals (= Peaks) were determined using the MACS peak finding algorithm.
The resulting histograms (genomic "signal maps") were stored in bigWig files.
Genome_build: hg19 (GRCh37)
Supplementary_files_format_and_content: 002OGWU_GUCY1B3_intervals_pvalues.xlsx: Excel file includes intervals.
Submission date Jun 15, 2016
Last update date May 15, 2019
Contact name haijie xiao
Phone 2029945607
Organization name george washington University
Department Biochemistry
Lab Murad
Street address 2300 eye street
City washington
State/province DC
ZIP/Postal code 20037
Country USA
Platform ID GPL18573
Series (1)
GSE83419 ChIP-seq analysis of Guanylate Cyclase Soluble Subunit Beta-3 (GUCY1B3 or sGCβ1) binding to chromatin DNA
BioSample SAMN05255145
SRA SRX1849500

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data not applicable for this record

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