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 Macroscelides proboscideus Myotis brandtii Atelerix albiventris Ochotona hyperborea Balaenoptera musculus Muntiacus vaginalis Myotis thysanodes Cervus elaphus Loxodonta africana Myotis lucifugus Hapalemur griseus Delphinus delphis Sylvilagus floridanus Tragelaphus eurycerus Amblysomus hottentotus Nycticeius humeralis Ceratotherium simum simum Microgale drouhardi Tragelaphus imberbis Hydrochoerus hydrochaeris Marmota monax Enhydra lutris Bos taurus 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 Cricetomys gambianus Sorex vagrans 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 Notamacropus eugenii Myotis evotis Aepyceros melampus Sorex tundrensis Peromyscus eremicus Papio hamadryas Heterocephalus glaber Gazella leptoceros Sorex cinereus Myotis vivesi Suncus varilla Cabassous unicinctus 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 Galea musteloides Vulpes vulpes Eulemur fulvus Antidorcas marsupialis 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 Sciurus carolinensis Ctenomys opimus Blarina brevicauda Tupaia belangeri Elephas maximus Tursiops truncatus Martes americana Eozapus setchuanus Sorex minutissimus Meriones unguiculatus Orcinus orca Cricetulus griseus Glaucomys sabrinus Nycticebus coucang Nannospalax galili 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 Rhinolophus ferrumequinum Addax nasomaculatus Rattus norvegicus Rhabdomys pumilio Ictidomys tridecemlineatus Gerbillus cheesmani Puma concolor Homo sapiens Dasypus novemcinctus Mirza zaza Sylvilagus brasiliensis Alexandromys oeconomus Scapanus orarius Myotis nattereri Peromyscus leucopus Microtus guentheri Equus caballus Macropus fuliginosus 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 Acomys cahirinus Tragelaphus oryx Neomys fodiens Alexandromys mongolicus Phodopus campbelli Alexandromys maximowiczii Galea musteloides leucoblephara Chaetophractus villosus Callospermophilus saturatus Diceros bicornis Chlorocebus sabaeus Eulemur mongoz Odobenus rosmarus divergens Didelphis virginiana 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 Lemur catta Apodemus sylvaticus Pteropus vampyrus Cavia porcellus Paraechinus hypomelas Nanger soemmerringii Sorex palustris Pteropus poliocephalus Microtus ochrogaster Paraechinus aethiopicus Alticola semicanus Zalophus californianus 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 Bathyergus janetta Elephantulus myurus Gerbillus nanus Caenolestes fuliginosus Lynx rufus Nyctalus noctula Osphranter robustus Mops pumilus Gorilla gorilla Hylomys suillus Ornithorhynchus anatinus Panthera tigris Tamiasciurus douglasii Myotis myotis Propithecus coquereli Sarcophilus harrisii Phascolarctos cinereus Mesoplodon bidens Fukomys damarensis Asellia tridens Didelphis marsupialis Microgale thomasi Apodemus uralensis Mustela putorius furo Equus grevyi Aplodontia rufa Tachyglossus aculeatus Sorex isodon Antrozous pallidus Peromyscus polionotus Sagmatias obliquidens Hippotragus niger Tamias striatus Balaena mysticetus Macaca mulatta Condylura cristata Meriones rex Hipposideros ruber Nanger dama

PROVIDER: GSE223748 | GEO | 2023/08/05

REPOSITORIES: GEO