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Sample GSM2398357 Query DataSets for GSM2398357
Status Public on Aug 10, 2017
Title Genomic DNA from 293T-TET3
Sample type genomic
Source name 293T-TET3
Organism Homo sapiens
Characteristics cell li ne: 293T
gender: Female
tissue: Kidney
developmental stage: Embryo
transduced with: TET3
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 TET3 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 Nov 21, 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 2.038382529
cg00000108 3.33117091
cg00000109 2.039175572
cg00000165 2.596828231
cg00000236 1.695060275
cg00000289 0.662811521
cg00000292 2.752268192
cg00000321 1.248765921
cg00000363 2.991846864
cg00000622 -4.75865197
cg00000658 1.837389759
cg00000714 -0.684413559
cg00000721 2.876874417
cg00000734 -2.768316591
cg00000769 -3.842805848
cg00000807 2.046301787
cg00000884 1.136448172
cg00000905 -1.22789384
cg00000924 0.24218127
cg00000948 2.204991702

Total number of rows: 485577

Table truncated, full table size 11067 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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