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Sample GSM1228308 Query DataSets for GSM1228308
Status Public on Sep 23, 2013
Title KL-1 CD 50ug 2 KLF71
Sample type SRA
 
Source name K562 cells
Organism Homo sapiens
Characteristics cell line: K562 cells
target loci: KL-1 CD 50ug 2
Treatment protocol Cells were transfected (by nucleofection or lipofectamine) with plasmids encoding TALE-TET1 fusions
Growth protocol K562, HeLa and 293 cells were grown under standard growth conditions
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated using the Qiagen Blood Mini kit and bisulfite treated. Bisulfite converted genomic DNA was PCR amplified with locus-specific primers.
Libraries were prepared using standard illumina multiplex library prep protocols. Adapters were added either by PCR or by ligation
 
Library strategy Bisulfite-Seq
Library source genomic
Library selection RANDOM
Instrument model Illumina MiSeq
 
Description 062513_MM553_analysis.csv
Data processing sequence reads were mapped using BSMAP v2.74 with default parameters
CPG counts determined by BSMAP were summarized and output to Excel files
Genome_build: hg19 or RHOXF2 reference sequence
Supplementary_files_format_and_content: processed data files are csv files summarizing the total number of methylated and unmethylated Cs in each sample
 
Submission date Sep 11, 2013
Last update date May 15, 2019
Contact name Morgan Lee Maeder
E-mail(s) morganlmaeder@gmail.com
Organization name Mass General Hospital
Street address 149 13th St
City Charlestown
State/province MA
ZIP/Postal code 02129
Country USA
 
Platform ID GPL15520
Series (1)
GSE50761 Targeted DNA demethylation using TALE-TET1 fusion proteins
Relations
BioSample SAMN02353454
SRA SRX348027

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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