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56 series

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Accession	Title	Series type(s)	Organism(s)	Samples	Supplementary	Contact	Release date
Filter			Ciona intestinalis
GSE195869	Comparative analysis of genome-scale, base-resolution DNA methylation profiles across 580 animal species	Methylation profiling by high throughput sequencing	Abronia anzuetoi Acanthosaura Acanthurus triostegus Accipiter gentilis Accipiter nisus Acinonyx Acomys Acryllium vulturinum Agapornis Agapornis canus Agapornis lilianae Agapornis personatus Agapornis taranta Ailurus fulgens Alectis ciliaris Alitta succinea Amandava subflava Amazona Amazona agilis Amblyglyphidodon leucogaster Ambystoma Ambystoma andersoni Ambystoma mexicanum Ammodytes dubius Ammodytes hexapterus Ammotragus Anas platyrhynchos Anoplopoma fimbria Antidorcas Antilope Aonyx cinereus Aotidae Apodemus flavicollis Apodemus sylvaticus Apostichopus parvimensis Aptenodytes patagonicus Aquila heliaca Ara Ara ararauna Ardea Ariopsis felis Ascidiella aspersa Asio otus Astrochelys radiata Astrochelys yniphora Athene noctua Atherinomorus vaigiensis Axis axis Balearica pavonina Bathymaster signatus Batoidea Bison bonasus Boa constrictor Bodianus diana Boltenia echinata Boltenia ovifera Bos Boselaphus tragocamelus Bothriechis schlegelii Botryllus schlosseri Brachylophus Branchiostoma floridae Bubalus Bubo bubo Buteo Buteo buteo Buteo lagopus Bycanistes bucinator Cacatua alba Caiman yacare Callithrix jacchus Callocephalon fimbriatum Callorhinchus milii Caloenas nicobarica Calyptocephallela gayi Camelus dromedarius Camelus ferus Canis aureus Canis lupus Canis lupus familiaris Canis lupus lycaon Cantherhines pardalis Capra Capra aegagrus Capreolus capreolus Capricornis Capromyidae Capromys pilorides Carcharias taurus Cariamidae Carollia perspicillata Castoridae Casuarius casuarius Caviidae Cebinae Centropomus robalito Centropristis striata Centropyge heraldi Cephalopholis miniata Cercopithecus Cervidae Cervus elaphus Cervus nippon Chaetodon lineolatus Chaetodon lunula Chamaeleo calyptratus Chamaeleonidae Charadriidae Chauna torquata Cheilodipterus quinquelineatus Cheilopogon californicus Chelydra serpentina Chiroxiphia pareola Chloris chloris Chloropsis Choerodon fasciatus Chromis punctipinnis Chrysopelea Ciconia ciconia Ciconiidae Ciona intestinalis Circus aeruginosus Circus cyaneus Cirrhilabrus lineatus Cirrhilabrus roseafascia Clavelina picta Clupea harengus Coccothraustes Coliiformes Colobus guereza Colobus polykomos Columba livia Columbidae Connochaetes Copsychus malabaricus Coracias cyanogaster Coracias garrulus Coris caudimacula Coris gaimard Cornufer guentheri Coronella austriaca Correlophus ciliatus Corucia zebrata Corvus Corvus corax Corvus corone Corvus frugilegus Coryphaenoides acrolepis Coturnix coturnix Coturnix delegorguei Cricetinae Cricetomyinae Cricetus Crocodylia Crotalus Cryptacanthodes maculatus Ctenochaetus striatus Cucumaria frondosa Cuora mccordi Cuora mouhotii Cyanoliseus patagonus Cyanoloxia brissonii Cyclopsitta diophthalma Cyclopterus lumpus Cyclura Cyclura cornuta Cygnus cygnus Cygnus melancoryphus Cynictis Cynomys Cynoscion regalis Cyprinus carpio Dama dama Danio rerio Dascyllus aruanus Dasypodidae Dendrocygna viduata Dinemellia Diodon hystrix Dolichotis Dolichotis patagonum Doryteuthis pealeii Dracaena guianensis Dromaius novaehollandiae Ducula bicolor Duttaphrynus melanostictus Echinarachnius parma Ecsenius Ecteinascidia turbinata Elephas maximus indicus Eliomys quercinus Elops affinis Embiotoca jacksoni Emydidae Equus Equus asinus asinus Equus zebra Erethizon Erinaceidae Erpeton Erythrura Esox lucius Eudyptes chrysocome Eumyias panayensis Eunectes Euplectes Euplectes orix Eurypygidae Falco cherrug Falco peregrinus Falco tinnunculus Felis catus Felis silvestris Fistularia commersonii Folivora Fromia Fromia indica Furcifer pardalis Gadus chalcogrammus Gadus morhua Galeocerdo cuvier Gallicolumba Gallus Gallus gallus Garrulus glandarius Gekkonidae Geochelone Geoemyda spengleri Geopelia placida Geronticus eremita Giraffa giraffa Glis glis Glyptocephalus cynoglossus Glyptocephalus zachirus Graptemys Grus japonensis Grus paradisea Gymnothorax moringa Gypaetus Haemulon flavolineatum Haliaeetus albicilla Haliaeetus leucocephalus Halichoeres trimaculatus Halocynthia pyriformis Heleophrynidae Heloderma Hemilepidotus jordani Hemisphaeriodon Hemitragus Hemitripterus americanus Heterocephalus Hippoglossina oblonga Hippoglossoides elassodon Hippoglossoides platessoides Hippotragus Hippotragus equinus Histrio histrio Holothuria Holothuria atra Holothuria cinerascens Homarus americanus Hoplobatrachus tigerinus Hydrochoerus hydrochaeris Hypanus americanus Hypselecara coryphaenoides Hystricidae Iguanidae Illex illecebrosus Incilius alvarius Irena puella Jacanidae Jaculus Kobus Kobus leche Labroides bicolor Laemanctus Lagostomus maximus Lama glama Lampropeltis Lamprotornis chalcurus Leiocephalus Lemur Leontocebus fuscicollis Leontopithecus Leontopithecus chrysomelas Lepas anatifera Lepidopsetta polyxystra Leptailurus Leptoclinus maculatus Leptoptilos crumenifer Lepus europaeus Lepus timidus Lethenteron camtschaticum Lethrinus atkinsoni Leucoraja erinaceus Leucoraja ocellata Lissemys punctata Loligo vulgaris Lonchura oryzivora Lophius piscatorius Loriculus galgulus Loweina rara Loweina terminata Lumpenus lampretaeformis Lutjanus mahogoni Lutjanus quinquelineatus Lutra lutra Lynx lynx Lyrurus tetrix Lytechinus variegatus Macaca Macaca silenus Macaca sylvanus Macropodidae Macropus Macroscelidea Macroscelides proboscideus Magallana gigas Malacochersus Marmota Martes foina Meles meles Melopsittacus Merops apiaster Merops bullockoides Milvus milvus Mimus polyglottos Molgula citrina Monacanthidae Morone saxatilis Mullus surmuletus Mungos mungo Muntiacus Mus musculus Musophaga Musophagidae Mustela Mustela putorius Mustelidae Mustelus canis Mya arenaria Myocastor coypus Myoxocephalus octodecemspinosus Myzopsetta ferruginea Naja Nanger dama Nardoa novaecaledoniae Nasua Natrix tessellata Nectariniidae Negaprion brevirostris Neoniphon sammara Neurergus Notamacropus parma Notamacropus rufogriseus Nothobranchius furzeri Nyctereutes Nymphicus hollandicus Octopus vulgaris Onuxodon fowleri Ophioderma panamensis Ophiopteris papillosa Ophiothrix spiculata Oplurus Oryctolagus cuniculus Osteoglossum bicirrhosum Ostorhinchus aureus Ostorhinchus moluccensis Ostorhinchus rueppellii Ostrea edulis Otaria Ovis aries Ovis orientalis Oxycercichthys veliferus Oxycheilinus digramma Oxylebius pictus Pachyuromys Panthera leo Panthera onca Panthera pardus Panthera tigris Papio Papio hamadryas Paracanthurus hepatus Paracirrhites forsteri Paralichthys dentatus Parapercis xanthozona Paroedura picta Parupeneus spilurus Parus major Passer domesticus Patiria miniata Pelecanus Pelecanus crispus Penaeus Perdix perdix Petauridae Petaurus breviceps Phalacrocorax carbo Phascolarctos cinereus Phasianus colchicus Philomachus Phloeomys Phocidae Phodopus campbelli Phoenicopteriformes Photoblepharon palpebratum Phyllopteryx taeniolatus Picus viridis Pisaster brevispinus Pisaster giganteus Pithecia pithecia Pitta moluccensis Platax teira Plegadis falcinellus Pleoticus muelleri Pleurogrammus monopterygius Ploceus cucullatus Podothecus accipenserinus Pogona barbata Pollachius virens Polychrus marmoratus Polypedates otilophus Pomacentrus coelestis Pomatomus saltator Pongo Potamochoerus porcus Prionotus carolinus Pristigenys alta Probosciger aterrimus Procyon lotor Psammomys obesus Psarisomus dalhousiae Pseudanthias Pseudanthias ventralis Pseudobalistes fuscus Pseudomonacanthus peroni Psittacus Pterocaesio marri Pteropus Ptilinopus Ptilinopus pulchellus Puma concolor Pycnonotus barbatus Python molurus Python regius Pythonidae Pytilia melba Rangifer tarandus Rattus norvegicus Rattus rattus Recurvirostra avosetta Rhabdamia gracilis Rhacophorus reinwardtii Rhea americana Rhinecanthus aculeatus Rhinocerotidae Rhinogobiops nicholsii Rhinoptera bonasus Rhyticeros narcondami Riftia pachyptila Rollulus Rupicapra rupicapra Saccoglossus kowalevskii Saguinus Saguinus imperator Saguinus mystax Saguinus oedipus Saimiriinae Salmo salar Salmo trutta Salvelinus alpinus Salvelinus umbla Sarcophilus Sauromalus Scandentia Scincidae Sciurus vulgaris Scolopsis bilineata Scophthalmus aquosus Scopus umbretta Scyliorhinus retifer Sebastes atrovirens Sebastes borealis Sebastes caurinus Sebastes chrysomelas Sebastes constellatus Sebastes hopkinsi Sebastes miniatus Sebastes mystinus Sebastes norvegicus Sebastes ovalis Sebastes paucispinis Sebastes semicinctus Sebastolobus alascanus Semicossyphus pulcher Serinus Shinisaurus crocodilurus Spatula querquedula Spermophilus Spheniscus humboldti Sphoeroides maculatus Spinus spinus Squalus acanthias Stenotomus chrysops Stichopus chloronotus Strigiformes Strix aluco Strix uralensis Strongylocentrotus droebachiensis Strongylocentrotus purpuratus Struthio camelus Sturnus vulgaris Styela montereyensis Sufflamen chrysopterum Suricata Sus scrofa Sus scrofa domesticus Sylvia atricapilla Tamias Tamiops Tapirus Taurotragus Tayassuidae Terrapene Testudinidae Testudo hermanni Testudo kleinmanni Tetrao urogallus Tetrastes bonasia Theloderma Theropithecus gelada Thunnus albacares Thyonella gemmata Tiliqua rugosa Tiliqua scincoides Tinca tinca Tockus alboterminatus Tockus deckeni Tockus flavirostris Tockus nasutus Trachemys Trachemys scripta elegans Trachemys scripta scripta Trachyphonus erythrocephalus Tragelaphus angasii Tragelaphus spekii Tragulus javanicus Triglops scepticus Tringa totanus Trioceros jacksonii Tupaia Upupa epops Uraeginthus bengalus Uromastyx Uromastyx ocellata Urophycis tenuis Ursus Ursus arctos Vanellus armatus Varanus Varanus exanthematicus Varanus gouldii Varecia Vermilingua Vicugna Vicugna pacos Vidua paradisaea Vipera ammodytes Vipera berus Vulpes vulpes Xenagama wilmsi Xiphias gladius Yangochiroptera Yinpterochiroptera Zamenis longissimus Zaprora silenus Zenopsis conchifer Zoarces americanus Zosteropidae	3023	BED SRA Run Selector	Christoph Bock	Jun 18, 2022
GSE110588	Single cell and pooled embryo RNA-seq of of early Ciona embryos	Expression profiling by high throughput sequencing	Ciona intestinalis	105	TXT SRA Run Selector	Nicholas Treen	Jul 06, 2018
GSE54746	Collier/OLF/EBF-dependent transcriptional dynamics control muscle specification from cardiopharyngeal progenitors	Expression profiling by array	Ciona intestinalis	73	CEL	Lionel Christiaen	Jul 17, 2014
GSE45575	Gene Expression on Profiles of Early Ciona intestinalis Embryos	Expression profiling by array	Ciona intestinalis	56	TXT	Yutaka Satou	Oct 29, 2013
GSE17976	ChIP-chip analysis of the Ciona intestinalis embryo	Genome binding/occupancy profiling by genome tiling array	Ciona intestinalis	39	TXT	Atsushi Kubo	Mar 09, 2010
GSE6308	Life cycle of Ciona intestinalis	Expression profiling by array	Ciona intestinalis	36		Sorin Vasile Sabau	Jun 20, 2007
GSE19824	Genome-wide evolutionary analysis of eukaryotic DNA methylation	Expression profiling by high throughput sequencing Methylation profiling by high throughput sequencing Genome binding/occupancy profiling by high throughput sequencing	Apis mellifera Bombyx mori Chlorella variabilis Ciona intestinalis Coprinopsis cinerea Drosophila melanogaster Laccaria bicolor Nematostella vectensis Oryza sativa Phycomyces blakesleeanus Physcomitrium patens Postia placenta Selaginella moellendorffii Tetraodon nigroviridis Tribolium castaneum Uncinocarpus reesii Volvox carteri	33	GFF TXT SRA Run Selector	Toshiro Nishimura	Apr 15, 2010
GSE24941	Transcriptome analysis of Ciona intestinalis to identify genes expressed in the adult organs.	Expression profiling by array	Ciona intestinalis	33	TXT	Mayuko Hamada	Oct 27, 2010
GSE169088	3D genomics across the tree of life reveals condensin II as a determinant of architecture type	Other	Acropora millepora Aedes aegypti Agaricus bisporus Aplysia californica Arachis hypogaea Branchiostoma lanceolatum Caenorhabditis elegans Chiloscyllium punctatum Ciona intestinalis Clonorchis sinensis Cristatella mucedo Culex quinquefasciatus Drosophila melanogaster Gallus gallus Homo sapiens Hypsibius dujardini Lethenteron camtschaticum Muntiacus muntjak Muntiacus reevesi Notamacropus eugenii Pleurobrachia bachei Pygocentrus nattereri Python bivittatus Saccharomyces cerevisiae Strongylocentrotus purpuratus Triticum aestivum Xenopus laevis	32	BEDPE FASTA HIC VCF WIG SRA Run Selector	Olga Dudchenko	Apr 23, 2021
GSE45548	Gene expression profiles of individual blastomeres of early Ciona embryos	Expression profiling by array	Ciona intestinalis	29	TXT	Yutaka Satou	Oct 29, 2013
GSE45500	Gene expression profiles of unfertilized eggs of Ciona intestinalis	Expression profiling by array	Ciona intestinalis	27	TXT	Yutaka Satou	Oct 29, 2013
GSE31902	Expression of time series data of spawning with light/dark conditions for mature adult Ciona intestinalis	Expression profiling by array	Ciona intestinalis	24	TXT	Takeshi Kawashima	Nov 01, 2011
GSE131155	Comprehensive single cell transcriptome lineages of a proto-vertebrate	Expression profiling by high throughput sequencing	Ciona intestinalis	23	H5 SRA Run Selector	Chen Cao	Jul 08, 2019
GSE42267	Expression profiling of Ciona intestinalis neurula and mid-tailbud stage embryos expressing altered forms of the transcription factor Ci-Tbx2/3 in the notochord	Expression profiling by array	Ciona intestinalis	17	CEL	Anna Di Gregorio	Apr 27, 2013
GSE21152	Conservation and divergence of methylation patterning in plants and animals	Methylation profiling by high throughput sequencing	Apis mellifera Arabidopsis thaliana Chlamydomonas reinhardtii Ciona intestinalis Danio rerio Mus musculus Oryza sativa Populus trichocarpa	14	TXT SRA Run Selector	matteo Pellegrini	Apr 09, 2010
GSE38313	Transcriptional analysis of fluorescence-activated sorted Mesp-GFP-labeled B7.5 founder trunk ventral cell lineage cells from Ciona intestinalis	Expression profiling by array	Ciona intestinalis	14	CEL TXT	Bradley J Davidson	Jun 05, 2012
GSE95333	The Ciona notochord transcriptome reveals a core set of broadly conserved notochord effector genes	Expression profiling by high throughput sequencing	Ciona intestinalis	12	TXT SRA Run Selector	Michael Veeman	Sep 19, 2017
GSE244713	Gene expression changes in injured myocardium of Ciona intestinalis	Expression profiling by array	Ciona intestinalis	12	CEL CHP	Jeremy Barth	Feb 06, 2024
GSE46751	Expression profiling of Ciona intestinalis initial tailbud stage embryos expressing mutant forms of the transcription factor Ci-XBP1 in the notochord.	Expression profiling by array	Ciona intestinalis	9	CEL	Anna Di Gregorio	Jan 20, 2022
GSE33498	Gene expression of ovary and neural complex in adult Ciona intestinalis	Expression profiling by array	Ciona intestinalis	8	TXT	Takeshi Kawashima	Nov 05, 2011