NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM7015914 Query DataSets for GSM7015914
Status Public on Aug 05, 2023
Title 205477000002_R02C01
Sample type genomic
 
Source name 205477000002_R02C01
Organism Mus musculus
Characteristics age: 0.580859225
confidenceinageestimate: 100
specieslatinname: Mus musculus
tissue: Skin
female: 1
ageinweeks: 30.286
predictfemalebasedonall: 1
predictedfemale: 1
predicttissuebasedonall: Skin
predictedtissue: Skin
tissuecolor: green
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 0.466213508
cg00001209 0.84875902
cg00001364 0.874141166
cg00001582 0.061908664
cg00002920 0.240507667
cg00003994 0.04304858
cg00004555 0.058956937
cg00005112 0.432935252
cg00005271 0.972083739
cg00006213 0.878612715
cg00008998 0.511686417
cg00009248 0.904610245
cg00009319 0.41155242
cg00010445 0.711375818
cg00010903 0.584743582
cg00010926 0.894797669
cg00010977 0.93608133
cg00012521 0.604799389
cg00012879 0.595350958
cg00013189 0.034394845

Total number of rows: 37554

Table truncated, full table size 839 Kbytes.




Supplementary file Size Download File type/resource
GSM7015914_205477000002_R02C01_Grn.idat.gz 384.0 Kb (ftp)(http) IDAT
GSM7015914_205477000002_R02C01_Red.idat.gz 385.7 Kb (ftp)(http) IDAT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap