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Series GSE173330 Query DataSets for GSE173330
Status Public on Apr 27, 2021
Title Methylation clocks for age estimation in toothed whales and dolphins
Platform organisms Homo sapiens; Mus musculus; Rattus norvegicus
Sample organisms Delphinus delphis; Orcinus orca; Tursiops truncatus; Phocoena phocoena; Delphinapterus leucas; Globicephala macrorhynchus; Steno bredanensis; Lagenorhynchus obliquidens; Cephalorhynchus commersonii
Experiment type Methylation profiling by genome tiling array
Summary An Infinium microarray platform (GPL28271, HorvathMammalMethylChip40) was used to generate DNA methylation data from several tissues (skin, blood) in toothed whales and dolphins.
Tissues: skin and blood.
 
Overall design N=545 tissue samples from 9 different toothed whale species were profiled on the mammalian methylation array platform (GPL28271). N= 238 skin tissue. The remaining samples come from blood (N=283), blubber (N=5), heart (2), kidney (2), liver (2), lung (2), lymphnode (2), muscle (2), pancreas (2), spleen (3), testis (1), thyroid (1). We profiled samples from the following 9 different toothed whale species whose Latin names are as follows: Cephalorhynchus commersonii (Commerson's dolphin), Delphinapterus leucas (Beluga), Delphinus delphis (Common dolphin), Globicephala macrorhynchus (Short-finned pilot whale), Lagenorhynchus obliquidens (Pacific white-sided dolphin), Orcinus orca (Killer whale), Phocoena phocoena (Harbor porpoise), Steno bredanensis (Rough-tooth dolphin), Tursiops truncatus (Bottlenose dolphin). Genome annotations of the array can be downloaded from https://github.com/shorvath/MammalianMethylationConsortium
 
Contributor(s) Horvath S, Robeck TR
Citation(s) 34059764, 37563227
Submission date Apr 26, 2021
Last update date Sep 21, 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
 
Platforms (1)
GPL28271 Illumina HorvathMammalianMethylChip40 BeadChip
Samples (545)
GSM5265435 Sample1.Killer whale.202897220022_R01C01
GSM5265436 Sample2.Killer whale.202897220022_R02C01
GSM5265437 Sample3.Killer whale.202897220022_R03C01
Relations
BioProject PRJNA725202

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE173330_Explanation_of_characteristics.txt.gz 457 b (ftp)(http) TXT
GSE173330_RAW.tar 408.1 Mb (http)(custom) TAR (of IDAT)
Processed data included within Sample table
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