|
| Status |
Public on Aug 05, 2023 |
| Title |
genomic DNA from Hoffmann's two-toed sloth Blood 204551090057_R02C01 |
| Sample type |
genomic |
| |
|
| Source name |
Blood
|
| Organism |
Choloepus hoffmanni |
| Characteristics |
age: 6.19301848
confidenceinageestimate: 95
female: 1
speciescommonname: Hoffmann's two-toed sloth
maximumlifespanyears: 45
average_adultweight: 6250
ageatsexualmaturityyears: 2.5
networktrainingset: yes
panmammalianclocktrainingset: yes
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
none provided
|
| Label |
Cy5
|
| Label protocol |
standard Affymetrix protocol
|
| |
|
| Hybridization protocol |
standard protocols from Illumina regarding Infinium arrays
|
| Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
|
| Description |
genomic DNA from Hoffmann's two-toed sloth Blood
|
| 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.
normalized (Sesame) Beta values
|
| |
|
| Submission date |
Jan 25, 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) |
|
