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Sample GSM2693214 Query DataSets for GSM2693214
Status Public on Nov 08, 2017
Title HL60 BCAT1-OE -DOX_1_12weeks
Sample type genomic
 
Source name HL-60 CTRL_12weeks
Organism Homo sapiens
Characteristics cell line: HL-60
genotype/variation: CTRL
Treatment protocol Doxycyclin 10μg/ml
Growth protocol RPMI + 10% FCS (medium change every 3 days)
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified using Qiagen QiAMP Kit according to standard instructions
Label Biotin, Cy3-Streptavidin
Label protocol Standard Illumina Protocol
 
Hybridization protocol Oxidative bisulfite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human MethylationEPIC Beadchip using standard Illumina protocol
Scan protocol Gene Expression Microarrays were scanned using the Illumina iScan-Scanner according to Standard Illumina Scanning Protocol
Data processing The data were normalised for red and green channel seperately using quantile normalisation with R using function normalize.quantiles from Bioconductor package preprocessCore
 
Submission date Jul 04, 2017
Last update date Jan 23, 2018
Contact name Simon Raffel
E-mail(s) s.raffel@dkfz-heidelberg.de
Organization name German Cancer Research Center
Street address INF 280
City Heidelberg
ZIP/Postal code 69120
Country Germany
 
Platform ID GPL21145
Series (2)
GSE100783 Role of Branched Chain Amino Acid Transaminase 1 (BCAT1) in Acute Myeloid Leukemia [hydroxymethylation_HL60_BCAT1-OE_12weeks]
GSE100784 Role of Branched Chain Amino Acid Transaminase 1 (BCAT1) in Acute Myeloid Leukemia

Data table header descriptions
ID_REF
VALUE Normalised Average Beta (normalised with BMIQ)
Detection Pvalue

Data table
ID_REF VALUE Detection Pvalue
cg14817997 0.320784430399481 7.53822848216759e-06
cg26928153 0.776322547508988 3.47507318735353e-11
cg16269199 0.549578838480863 4.55256219234106e-07
cg13869341 0.741797605039109 3.77036151680665e-13
cg14008030 0.647132021385469 3.4486077874559e-12
cg12045430 0.394650539530291 1.54698000376497e-07
cg20826792 0.409542743538767 3.28254076348206e-08
cg20253340 0.474676015483813 2.60126313151175e-12
cg02404219 0.833026995762913 0.0602579493272786
cg21870274 0.83619526102838 5.37752050732015e-16
cg04098293 0.931524688065743 1.00638148905245e-11
cg16382250 0.921033693735035 8.52270384690097e-18
cg24335620 0.905185184467645 3.16565322659204e-13
cg22463138 0.806731724506423 4.77407269514225e-15
cg16162899 0.926666872031992 0.0814370915617878
cg01803908 0.968247139660878 3.18583132308108e-17
cg17149495 0.756009615384615 0.0240185236572831
cg22802167 0.872449310099113 6.12669084688108e-18
cg24669183 0.907619809443823 3.04582141575283e-13
cg17308840 0.165288014272148 0.000167282784660356

Total number of rows: 815584

Table truncated, full table size 37339 Kbytes.




Supplementary file Size Download File type/resource
GSM2693214_201465960020_R04C01_Grn.idat.gz 7.0 Mb (ftp)(http) IDAT
GSM2693214_201465960020_R04C01_Red.idat.gz 7.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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