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Sample GSM7015809 Query DataSets for GSM7015809
Status Public on Aug 05, 2023
Title 205307780052_R05C01
Sample type genomic
 
Source name 205307780052_R05C01
Organism Mus musculus
Characteristics age: 0.16438435
confidenceinageestimate: 100
specieslatinname: Mus musculus
tissue: Blood
female: 0
ageinweeks: 8.571
predictfemalebasedonall: 0
predictedfemale: 0
predicttissuebasedonall: Blood
predictedtissue: Blood
tissuecolor: turquoise
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted
Label Cy5 and Cy3
Label protocol standard Illumina protocol
 
Hybridization protocol standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Data processing Following data collection, the SeSaMe normalization method was used to define beta values for each probe (W. Zhou et al 2018. PMID: 30085201). If a CpG does not map to a given species, it takes a value of 0.5. The mammalian array design is similar to the Illumina Infinium 450K array but it contains fewer up to 37492 CpGs. Additional material on the mappability of CpGs can be found on the Github page https://github.com/shorvath/MammalianMethylationConsortium/ A vignette on using the mammal methylation array with SeSAMe is available from https://bioconductor.org/packages/release/bioc/vignettes/sesame/inst/doc/mammal.html.
 
Submission date Jan 31, 2023
Last update date Aug 05, 2023
Contact name Steve Horvath
E-mail(s) shorvath@altoslabs.com
Organization name University of California, Los Angeles
Department Human Genetics
Lab Horvath
Street address 695 Charles E. Young Drive South, Box 708822
City Los Angeles
State/province CA
ZIP/Postal code 90095-7088
Country USA
 
Platform ID GPL28271
Series (1)
GSE224140 N87.Dataset

Data table header descriptions
ID_REF
VALUE normalized (Sesame) Beta values

Data table
ID_REF VALUE
cg00000165 0.472434114
cg00001209 0.936848759
cg00001364 0.856877528
cg00001582 0.06281021
cg00002920 0.108620636
cg00003994 0.047984478
cg00004555 0.177070859
cg00005112 0.867512251
cg00005271 0.975292491
cg00006213 0.935262197
cg00008998 0.504253117
cg00009248 0.912278261
cg00009319 0.378933331
cg00010445 0.903102357
cg00010903 0.567634424
cg00010926 0.93887279
cg00010977 0.952179038
cg00012521 0.543217667
cg00012879 0.456206181
cg00013189 0.017455806

Total number of rows: 37554

Table truncated, full table size 840 Kbytes.




Supplementary file Size Download File type/resource
GSM7015809_205307780052_R05C01_Grn.idat.gz 384.9 Kb (ftp)(http) IDAT
GSM7015809_205307780052_R05C01_Red.idat.gz 384.3 Kb (ftp)(http) IDAT
Processed data included within Sample table

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