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 Sorex trowbridgii Peromyscus maniculatus Ovis aries Lasiopodomys mandarinus Cuniculus paca Mustela altaica Pteropus giganteus Tragelaphus angasii Scalopus aquaticus Phyllostomus hastatus Sorex caecutiens Lagenorhynchus obliquidens Notamacropus agilis Callospermophilus lateralis Mus minutoides Rhinopoma hardwickii Propithecus tattersalli Meriones libycus Tupaia longipes Rhinolophus alcyone Pongo pygmaeus Cryptomys hottentotus Hemicentetes semispinosus Megaptera novaeangliae Chrysocyon brachyurus Choloepus didactylus Canis latrans Propithecus diadema Saccopteryx bilineata Nanger granti Macroscelides proboscideus Atelerix albiventris Ochotona hyperborea Myotis brandtii Balaenoptera musculus Myotis thysanodes Muntiacus vaginalis Cervus elaphus Loxodonta africana Myotis lucifugus Hapalemur griseus Delphinus delphis Tragelaphus eurycerus Sylvilagus floridanus Amblysomus hottentotus Nycticeius humeralis Ceratotherium simum simum Microgale drouhardi Tragelaphus imberbis Hydrochoerus hydrochaeris Marmota monax Enhydra lutris Ursus americanus Bos taurus 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 Cephalorhynchus hectori hectori Microgale cowani Clethrionomys gapperi Sylvilagus audubonii 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 Sus scrofa domesticus Ctenomys steinbachi Phocoena phocoena Suricata suricatta Eulemur flavifrons Phodopus roborovskii Hystrix cristata Balaenoptera borealis Napaeozapus insignis Cervus canadensis Crocuta crocuta Neogale vison Phyllostomus discolor Vulpes vulpes Eulemur fulvus Galea musteloides Antidorcas marsupialis Marmota flaviventris Cheirogaleus medius 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 Mustela frenata Crocidura cyanea Echinops telfairi Eulemur fulvus collaris Hippotragus equinus Neurotrichus gibbsii Sciurus carolinensis Ctenomys opimus Blarina brevicauda Elephas maximus Tupaia belangeri 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 Physeter catodon 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 Tragelaphus strepsiceros Tadarida brasiliensis 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 Eulemur mongoz Diceros bicornis Chlorocebus sabaeus Odobenus rosmarus divergens Didelphis virginiana Macropus giganteus Smutsia temminckii Rhombomys opimus Eulemur rubriventer Desmodus rotundus Suncus murinus 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 Tamias amoenus Varecia rubra Odocoileus virginianus Lemur catta Apodemus sylvaticus Cavia porcellus Pteropus vampyrus Paraechinus hypomelas Nanger soemmerringii Pteropus poliocephalus Microtus ochrogaster Paraechinus aethiopicus Sorex palustris Alticola semicanus Zalophus californianus Vicugna pacos Ornithorhynchus anatinus Xanthonycticebus pygmaeus Cricetulus longicaudatus Plecotus auritus Litocranius walleri Orientallactaga sibirica Otolemur crassicaudatus Panthera leo Arvicanthis niloticus Carollia perspicillata Eptesicus fuscus Pteropus rodricensis 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 Mops pumilus Gorilla gorilla Osphranter robustus Hylomys suillus Panthera tigris Tamiasciurus douglasii Sarcophilus harrisii Myotis myotis Propithecus coquereli Mesoplodon bidens Phascolarctos cinereus Asellia tridens Fukomys damarensis Didelphis marsupialis Microgale thomasi Apodemus uralensis Equus grevyi Mustela putorius furo Aplodontia rufa Tachyglossus aculeatus Sorex isodon Peromyscus polionotus Antrozous pallidus Hippotragus niger Tamias striatus Balaena mysticetus Macaca mulatta Nanger dama Condylura cristata Meriones rex Hipposideros ruber

PROVIDER: GSE223748 | GEO | 2023/08/05

REPOSITORIES: GEO