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      The references are divided into 5 groups (Ectoderm, Endoderm, Mesoderm, pre-organogenesis and extraembryonic tissues) and two species (Homo sapiens and Mus musculus). Gene expression matrix and marker genes for each cell type in each dataset are used to establish the pre-trained model. The sub_sct_meta containing expression matrix and metadata, the marker genes list of each cell type and the pretrained model for each group can be downloaded here.


Ectoderm

Human

FilenameDownload
h.ecto.pretrained_model.rda Download
ectoH_sub_sct_meta.rda Download
ectoH_marker_list.rda Download

Mouse

FilenameDownload
m.ecto.pretrained_model.rda Download
ectoM_sub_sct_meta.rda Download
ectoM_marker_list.rda Download

Endoderm

Human

FilenameDownload
h.endo.pretrained_model.rda Download
endoH_sub_sct_meta.rda Download
endoH_marker_list.rda Download

Mouse

FilenameDownload
m.endo.pretrained_model.rda Download
endoM_sub_sct_meta.rda Download
endoM_marker_list.rda Download

Mesoderm

Human

FilenameDownload
h.meso.pretrained_model.rda Download
mesoH_sub_sct_meta.rda Download
mesoH_marker_list.rda Download

Mouse

FilenameDownload
m.meso.pretrained_model.rda Download
mesoM_sub_sct_meta.rda Download
mesoM_marker_list.rda Download

pre-organogenesis

Human

FilenameDownload
h.pre.pretrained_model.rda Download
preH_sub_sct_meta.rda Download
preH_marker_list.rda Download

Mouse

FilenameDownload
m.pre.pretrained_model.rda Download
preM_sub_sct_meta.rda Download
preM_marker_list.rda Download

extra-embryonic tissues

Human

FilenameDownload
h.exe.pretrained_model.rda Download
exeH_sub_sct_meta.rda Download
exeH_marker_list.rda Download

Mouse

FilenameDownload
m.exe.pretrained_model.rda Download
exeM_sub_sct_meta.rda Download
exeM_marker_list.rda Download

Links to the rawdata of each article


Human

NumberArticlesLinks
012016_Cell_Manno Link
022018_Nature_Zhong Link
032013_Nat Struct Mol Biol_Yan Link
042019_Nature_Zhou Link
052019_PLoS Biol_Hu Link
062016_Cell_Petropoulos Link
072015_Development_Blakeley Link
082021_Nature_Tyser Link
092021_Nat Neurosci_Eze Link
102022_Science_Tabula Link
112019_PLoS Biol_Hochane Link
122019_Science_Stewart Link
132021_Cell_Corbett Link
142020_Nature_Han Link
152021_Cell Stem Cell_Wang Link
162018_Nat Cell Biol_Gao Link
172021_Nature_Elmentaite Link
182019_Cell Rep_Cui Link
192019_Development_GarcĂ­a Link
202018_Nature_Tormo Link
212022_Science_Suo Link
222020_Science_Park Link
232021_Science_Reynolds Link
242021_Nature_Jardine Link
252019_Nature_Popescu Link
262021_Cell_Yu Link

Mouse

FilenameDownload
012017_Cell Rep_Mohammed Link
022019_Nature_Nowotschin Link
032019_Cell Rep_Cheng Link
042016_Nature_Scialdone Link
052019_Nature_Sala Link
062022_Nat Genet_Qiu Link
072018_Genome Biol_Dong Link
082019_Nature_Cao Link
092016_Cell_Manno Link
102021_Nature_Manno Link
112018_Cell_Zeisel Link
122019_Nature_Soysa Link
132021_Nat Commun_Miao Link
142017_Development_Adam Link
152018_Nature_Tabula Link
162018_Cell_Han Link
172020_Cell Stem Cell_Joost Link
182019_Neuron_Clark Link
192018_Nature_Montoro Link
202020_Nat Commun_Han Link
212017_Elife_Posfai Link
222020_Cell_Lotto Link
232020_Elife_Marsh Link
242020_Science_Park Link