|
| Status |
Public on Sep 08, 2023 |
| Title |
N63.Dataset [204551090028_R03C01] |
| Sample type |
genomic |
| |
|
| Source name |
204551090028_R03C01
|
| Organism |
Mus musculus |
| Characteristics |
age: 2.208333333
confidenceinageestimate: 100
tissue: Liver
female: 1
specieslatinname: Mus musculus
agedetailed: 26.5m
age.unit: m
tissuecolor: brown
predictedfemale: 1
predictedtissue: Liver
ake.duohumanmouse.pantissue.clock.ageacceleration: 0.245859094
amin.elasticepi.agetraf.pantissue.clock.ageacceleration: 0.113053449
amin.interventionclock.pantissue.clock.ageacceleration: 0.271497439
crclock.pantissue.clock.ageacceleration: 0.768493697
dnamagedevelopmentfinal.pantissue.clock.ageacceleration: -0.024147169
dnamagefinal.pantissue.clock.ageacceleration: 0.169559162
dnamageinterventionfinal.pantissue.clock.ageacceleration: 0.42920119
lifespanuberclock.pantissue.clock.ageacceleration: 0.340103725
progeriaclock.pantissue.clock.ageacceleration: 0.709769759
universalclock2.pantissue.clock.ageacceleration: 0.704945954
universalclock3.pantissue.clock.ageacceleration: 0.943797625
yamanakaclock.pantissue.clock.ageacceleration: 0.456189399
ake.duohumanmouse.pantissue.clock.epiage: 2.344073918
amin.elasticepi.agetraf.pantissue.clock.epiage: 2.332170696
amin.interventionclock.pantissue.clock.epiage: 2.285587727
crclock.pantissue.clock.epiage: 2.598956286
dnamagedevelopmentfinal.pantissue.clock.epiage: 2.177686
dnamagefinal.pantissue.clock.epiage: 2.324216168
dnamageinterventionfinal.pantissue.clock.epiage: 2.552591424
lifespanuberclock.pantissue.clock.epiage: 2.454917797
progeriaclock.pantissue.clock.epiage: 2.531783984
universalclock2.pantissue.clock.epiage: 2.745055198
universalclock3.pantissue.clock.epiage: 2.998966013
yamanakaclock.pantissue.clock.epiage: 2.403506136
tissues: Adipose / Aorta / Astrocyte / Blood / BoneMarrow / Brain / BrainTumor / Cerebellum / Cortex / Crypts / DifferentiatedBloodCells / Ear / ES / Fibroblast / Gut / Heart / Heart.Atrium / Heart.Teratoma / Heart.Ventricle / HematopoieticStem.Progenitor.LSK / HematopoieticStemCells / Hippocampus / Hypothalamus / iPSC / Kidney / Liver / Lung / MacrophageBoneMarrow / MacrophagePeritoneal / Muscle / Pancreas / Pituitary / Placenta / Retina / Serum / Skin / Spleen / Striatum / SVZ / Tail / Villi / WholeBrain
female.maturity..days.: 42
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Illumina protocol
|
| Label |
Cy5
|
| Label protocol |
Illumina protocol
|
| |
|
| Hybridization protocol |
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 |
Jun 05, 2023 |
| Last update date |
Jan 16, 2024 |
| 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) |
| GSE234154 |
Increased hyaluronan by naked mole-rat HAS2 extends healthspan in mice |
|
