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Sample GSM1958048 Query DataSets for GSM1958048
Status Public on Dec 16, 2015
Title IgG CHIP-seq control in MutuI
Sample type SRA
 
Source name MutuI cell line
Organism Homo sapiens
Characteristics cell line: MutuI
cell type: EBV positive B-cells
chip antibody: IgG
chip antibody vendor: Santa Cruz Biotechnology
chip antibody cat. #: sc-2027
chip antibody lot #: C2712
Treatment protocol Cells were maintained and isolated in logarihmic growth phase for ChIP-assays
Growth protocol EBV positive B-cell (Mutu I, LCL) were grown in RPMI with 10% FBS and Glutamax
Extracted molecule genomic DNA
Extraction protocol ChIP-Seq protocol is as described previously (Lu et al, 2010 Virology journal 7, 262).
Library was constructed using the TruSeq ChIP Sample Prep kit (Illumina) according to manufacturers instructions
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer II
 
Description WST_Mutu_IGG
Data processing All chip-seq files were generated by Illumina GA II and base calling was done with CASAVA 1.5
Chip-seq files were aligned to human genome hg19 using bowtie using "-v 2 -m 1 -best -strata" option on unique reads
Peak calling was done with homer (v1.0) software
Genome_build: hg19
Supplementary_files_format_and_content: Prosessed files contains Homer peak calling output
 
Submission date Nov 30, 2015
Last update date May 15, 2019
Contact name Priyankara J Wickramasinghe
E-mail(s) priyaw@wistar.org
Phone 2154956837
Organization name The Wistar Institute
Department Bioinformatics
Lab Genomics
Street address 3601 Spruce Street
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL9115
Series (2)
GSE75503 Combinatorial Control of RBP-jk and EBF1 Chromosome Occupancy induced by viral co-activator EBNA2 [ChIP-seq]
GSE75504 Combinatorial Control of RBP-jk and EBF1 Chromosome Occupancy induced by viral co-activator EBNA2
Relations
BioSample SAMN04301883
SRA SRX1456202

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

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