Mammalian Methylation Consortium

ABSTRACT: The Mammalian Methylation Consortium aimed to characterize the relationship between cytosine methylation levels and a) species characteristics such as maximum lifespan and b) individual sample characteristics such as age, sex, tissue type. Both supervised machine learning approaches and unsupervised machine learning approaches were applied to the data as described in the citations. To facilitate comparative analyses across species, the mammalian methylation consortium applied a single measurement platform (the mammalian methylation array, GPL28271) to n=15216 DNA samples derived from 70 tissue types of 348 different mammalian species (331 eutherian-, 15 marsupial-, and 2 monotreme species). Most of the CpGs are located in highly conserved stretches of DNA but not all CpGs apply to all species as detailed in the description of the platform, GPL28271 and on https://github.com/shorvath/MammalianMethylationConsortium/.

ORGANISM(S): Equus asinus somalicus Sciurus niger Tupaia gracilis Delphinapterus leucas Nesogale talazaci Parascalops breweri Cavia tschudii Oryctolagus cuniculus Peromyscus maniculatus Sorex trowbridgii Lasiopodomys mandarinus Ovis aries Cuniculus paca Mustela altaica Tragelaphus angasii Scalopus aquaticus Phyllostomus hastatus Sorex caecutiens Notamacropus agilis Callospermophilus lateralis Mus minutoides Propithecus tattersalli Rhinopoma hardwickii Meriones libycus Rhinolophus alcyone Tupaia longipes Pongo pygmaeus Cryptomys hottentotus Hemicentetes semispinosus Megaptera novaeangliae Chrysocyon brachyurus Choloepus didactylus Canis latrans Propithecus diadema Saccopteryx bilineata Nanger granti Myotis brandtii Macroscelides proboscideus Atelerix albiventris Ochotona hyperborea Muntiacus vaginalis Balaenoptera musculus Myotis thysanodes Cervus elaphus Loxodonta africana Hapalemur griseus Myotis lucifugus Delphinus delphis Sylvilagus floridanus Tragelaphus eurycerus Amblysomus hottentotus Nycticeius humeralis Ceratotherium simum simum Microgale drouhardi Tragelaphus imberbis Hydrochoerus hydrochaeris Marmota monax Bos taurus Enhydra lutris Ursus americanus Apodemus agrarius Bradypus variegatus Rhynchonycteris naso Notamacropus rufogriseus Sorex hoyi Pteropus hypomelanus Tamandua mexicana Capreolus capreolus Globicephala macrorhynchus Giraffa camelopardalis Chinchilla lanigera Varecia variegata Rattus rattus Sorex vagrans Cricetomys gambianus Sus scrofa Ondatra zibethicus Galeopterus variegatus Choloepus hoffmanni Mus musculus Pipistrellus pipistrellus Oreamnos americanus Dromiciops gliroides Microgale cowani Cephalorhynchus hectori hectori Sylvilagus audubonii Clethrionomys gapperi Dipus sagitta Ochotona alpina Neophoca cinerea Myotis evotis Notamacropus eugenii Aepyceros melampus Sorex tundrensis Peromyscus eremicus Papio hamadryas Heterocephalus glaber Gazella leptoceros Sorex cinereus Myotis vivesi Cabassous unicinctus Suncus varilla Talpa occidentalis Nothocricetulus migratorius Jaculus jaculus Myodes rufocanus Phocoena phocoena Sus scrofa domesticus Ctenomys steinbachi Suricata suricatta Eulemur flavifrons Phodopus roborovskii Hystrix cristata Balaenoptera borealis Napaeozapus insignis Cervus canadensis Crocuta crocuta Neogale vison Phyllostomus discolor Antidorcas marsupialis Galea musteloides Vulpes vulpes Eulemur fulvus Cheirogaleus medius Marmota flaviventris Artibeus jamaicensis Tenrec ecaudatus Aonyx cinereus Mesocricetus auratus Eulemur sanfordi Trichechus manatus Sylvilagus bachmani Okapia johnstoni Pan troglodytes Alticola barakshin Orycteropus afer Eulemur albifrons Tamias townsendii Procavia capensis Crocidura cyanea Echinops telfairi Eulemur fulvus collaris Hippotragus equinus Neurotrichus gibbsii Ctenomys opimus Sciurus carolinensis Tupaia belangeri Blarina brevicauda Elephas maximus Tursiops truncatus Martes americana Eozapus setchuanus Sorex minutissimus Meriones unguiculatus Orcinus orca Cricetulus griseus Glaucomys sabrinus Nannospalax galili Nycticebus coucang Castor canadensis Bathyergus suillus Urocitellus columbianus Callithrix geoffroyi Canis lupus familiaris Perodicticus potto Erinaceus europaeus Dendrohyrax arboreus Elephantulus edwardii Georychus capensis Microcebus murinus Apodemus peninsulae Equus quagga Callithrix jacchus Cynopterus brachyotis Lepus californicus Nannospalax ehrenbergi Leptonycteris yerbabuenae Connochaetes taurinus albojubatus Ctenomys lewisi Eulemur rufus Molossus molossus Addax nasomaculatus Rhinolophus ferrumequinum Rattus norvegicus Rhabdomys pumilio Ictidomys tridecemlineatus Gerbillus cheesmani Homo sapiens Puma concolor Dasypus novemcinctus Mirza zaza Sylvilagus brasiliensis Alexandromys oeconomus Myotis nattereri Scapanus orarius Peromyscus leucopus Microtus guentheri Macropus fuliginosus Equus caballus Tupaia tana Rhinoceros unicornis Lycaon pictus Ochotona pallasi Setifer setosus Cavia aperea Myocastor coypus Microtus richardsoni Sylvilagus nuttallii Tadarida brasiliensis Tragelaphus strepsiceros Felis catus Eumetopias jubatus Cephalorhynchus hectori maui Tragelaphus spekii Cricetulus barabensis Alexandromys fortis Tragelaphus oryx Acomys cahirinus Neomys fodiens Alexandromys mongolicus Phodopus campbelli Alexandromys maximowiczii Galea musteloides leucoblephara Chaetophractus villosus Callospermophilus saturatus Diceros bicornis Chlorocebus sabaeus Eulemur mongoz Odobenus rosmarus divergens Macropus giganteus Smutsia temminckii Rhombomys opimus Eulemur rubriventer Desmodus rotundus Suncus murinus Physeter macrocephalus Stenocranius gregalis Eulemur macaco Eudorcas thomsonii Capra hircus Tursiops aduncus Acinonyx jubatus Ochotona dauurica Myotis yumanensis Lagenorhynchus albirostris Galago moholi Neotoma cinerea Lepus americanus Kobus megaceros Daubentonia madagascariensis Steno bredanensis Tamandua tetradactyla Erethizon dorsatum Zapus princeps Lasiopodomys brandtii Microtus pennsylvanicus Trachypithecus francoisi Cephalorhynchus commersonii Vombatus ursinus Tolypeutes matacus Ochotona rufescens Ochotona princeps Loris tardigradus Osphranter rufus Micaelamys namaquensis Hemiechinus auritus Eidolon helvum Ellobius talpinus Cyclopes didactylus Monodelphis domestica Pteropus pumilus Neogale frenata Tamias amoenus Varecia rubra Odocoileus virginianus Didelphis virginiana Lemur catta Pteropus vampyrus Apodemus sylvaticus Cavia porcellus Paraechinus hypomelas Sorex palustris Nanger soemmerringii Pteropus poliocephalus Microtus ochrogaster Paraechinus aethiopicus Alticola semicanus Zalophus californianus Ornithorhynchus anatinus Vicugna pacos Xanthonycticebus pygmaeus Cricetulus longicaudatus Plecotus auritus Litocranius walleri Orientallactaga sibirica Otolemur crassicaudatus Panthera leo Arvicanthis niloticus Carollia perspicillata Pteropus rodricensis Eptesicus fuscus Tamiasciurus hudsonicus Phoca groenlandica Rousettus aegyptiacus Phoca vitulina Eulemur coronatus Peromyscus californicus Sorex roboratus Elephantulus myurus Bathyergus janetta Gerbillus nanus Caenolestes fuliginosus Lynx rufus Nyctalus noctula Osphranter robustus Mops pumilus Gorilla gorilla Hylomys suillus Tamiasciurus douglasii Panthera tigris Myotis myotis Propithecus coquereli Sarcophilus harrisii Phascolarctos cinereus Mesoplodon bidens Didelphis marsupialis Fukomys damarensis Asellia tridens Microgale thomasi Apodemus uralensis Aplodontia rufa Mustela putorius furo Equus grevyi Tachyglossus aculeatus Sorex isodon Sagmatias obliquidens Antrozous pallidus Peromyscus polionotus Hippotragus niger Tamias striatus Balaena mysticetus Condylura cristata Meriones rex Hipposideros ruber Macaca mulatta Nanger dama

PROVIDER: GSE223748 | GEO | 2023/08/05

REPOSITORIES: GEO