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Sample GSM2192720 Query DataSets for GSM2192720
Status Public on Dec 26, 2020
Title Spt16-TAP IP_Normal Growth_Replicate1
Sample type SRA
Source name Log-phase cells in the 1X YEP with 2% dextrose
Organism Saccharomyces cerevisiae
Characteristics antibody: ANTI-IgG Sepharose (GE Healthcare product code:17-0969-01, lot number: 10055839)
strain: Spt16-TAP
nutrient status: normal
Treatment protocol Cells were fixed with 1% formaldehyde for 30 min. and quenched with 0.125M Glycine
Growth protocol Spt16-TAP strain was grown up to A600~0.8 in YEP medium at 30°C
Extracted molecule genomic DNA
Extraction protocol IP, Input and mock DNA samples were processed according to Illumina standard protocol for ChIP-seq
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer II
Data processing Reads with phred score < 20 on 80% of the bases were filtered out with FASTX toolkit V0.0.13
Reads aligned to yeast genome using Bowtie 0.12.8 allowing unique alignments with 3 mismatches and taking the best stratum.
Reads are extended to ChIP fragment size (170bp)
Read coverage at each position in the genome is scaled to 1 million and normalized to total number of reads in the library.
Coverage at each base is bundled as .bedGraph files.
Genome_build: sacCer3
Supplementary_files_format_and_content: BEDGRAPH
Submission date Jun 07, 2016
Last update date Dec 27, 2020
Contact name Ashutosh Shukla
Organization name CSIR-Centre for Cellular and Molecular Biology
Street address Habsiguda X Road
City Hyderabad
State/province Telangana
ZIP/Postal code 500007
Country India
Platform ID GPL9377
Series (1)
GSE83086 Genome-wide profiling of histone chaperone FACT in Saccharomyces cerevisiae
BioSample SAMN05213608
SRA SRX1829036

Supplementary file Size Download File type/resource
GSM2192720_Active_1.bedGraph.gz 74.8 Mb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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