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Sample GSM2227495 Query DataSets for GSM2227495
Status Public on Aug 10, 2017
Title Genomic DNA from 293T-TET2
Sample type genomic
Source name 293T-TET2
Organism Homo sapiens
Characteristics cell line: 293T
gender: Female
tissue: Kidney
developmental stage: Embryo
transduced with: TET2
Treatment protocol 293T cells were transduced genes of interest by using lentivirus vector system. Transduced cells were purified by antibiotics
Growth protocol 293T cells were provided from RIKEN Bioresource Center (BRC) and were cultured in Dulbecco's modified Eagle's medium (DMEM) (Wako), supplemented with 10% FBS and penicillin/streptomycin (100 U/ml, 100 µg/ml) (Life Technologies) on Poly-D-lysine courted dish (Becton Dickinson).
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified using NucleoSpin Tissue (Macherey-Nagel) according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450k Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Description TET2 transduced
Data processing Signal intensities were measured by GenomeStudio software v2010.3. Color balance adjustment, quantile normalization and M-value calculation were done by lumi, a bioconductor package.
Submission date Jul 07, 2016
Last update date Aug 10, 2017
Contact name Takahiro Suzuki
Phone 81-45-503-9222
Organization name RIKEN
Department Center for Integrative Medical Sciences
Lab Laboratory for Cellular Function Conversion Technologies
Street address 1-7-22 Suehiro-cho, Tsurumi-ku
City Yokohama
State/province Kanagawa
ZIP/Postal code 230-0045
Country Japan
Platform ID GPL13534
Series (1)
GSE60316 RUNX1-Mediated Binding Site Directed DNA Demethylation is a Novel Mechanism of Hematopoietic Gene Activation.

Data table header descriptions
VALUE M-value (log2 intensity of methylated probe/ intensity of unmethylated probe)

Data table
cg00000029 1.768834221
cg00000108 3.70775529
cg00000109 2.53095902
cg00000165 3.076279835
cg00000236 2.534030187
cg00000289 1.466342023
cg00000292 3.107532294
cg00000321 1.380062965
cg00000363 2.772880311
cg00000622 -4.432494844
cg00000658 2.418774379
cg00000714 -0.856969083
cg00000721 3.00664056
cg00000734 -3.011217698
cg00000769 -3.897116862
cg00000807 2.759576615
cg00000884 1.586428208
cg00000905 -1.576746488
cg00000924 0.140742533
cg00000948 3.023899533

Total number of rows: 485577

Table truncated, full table size 11066 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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