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Sample GSM1471623 Query DataSets for GSM1471623
Status Public on Aug 10, 2017
Title Genomic DNA from 293T-mock
Sample type genomic
Source name 293T-mock
Organism Homo sapiens
Characteristics cell line: 293T
gender: Female
tissue: Kidney
developmental stage: Embryo
transduced with: mock lentivirus vector
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 mock lentivirus vector 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 Aug 11, 2014
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 1.63244738
cg00000108 3.716561757
cg00000109 2.221984043
cg00000165 2.901194758
cg00000236 2.608601072
cg00000289 1.099524982
cg00000292 3.152327321
cg00000321 0.415253919
cg00000363 2.471482322
cg00000622 -4.823714745
cg00000658 1.87890621
cg00000714 -0.752333983
cg00000721 3.206275298
cg00000734 -3.135323798
cg00000769 -3.936491713
cg00000807 2.258879733
cg00000884 0.616826968
cg00000905 -1.209373617
cg00000924 -0.041435416
cg00000948 3.026954508

Total number of rows: 485577

Table truncated, full table size 11062 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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