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[TERM REQUEST] cell types #40

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seger opened this issue Jan 16, 2021 · 3 comments
Open

[TERM REQUEST] cell types #40

seger opened this issue Jan 16, 2021 · 3 comments
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seger commented Jan 16, 2021 •
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Cell types from single cells studies.

Term name XAO ID synonym to add syn (abbrev) is_a part_of PMID xref Xenbase ref comments
skeletal myocyte XAO:0004476 skeletal muscle cell somite 31097661 CL:0000188 XB-ART-55960
smooth muscle myocyte XAO:0004477 smooth muscle cell somite 31097661 CL:0000192 XB-ART-55960
lymphoid endothelial cell somite 31097661 XB-ART-55960 need to check article data / ask Julien if these where cd7 +ve or -ve
endothelial cell CL:0000115
vascular endothelial cell vascular endothelium, somite 31097661 XB-ART-55960
dermomyotome cell dermomyotome, somite 31097661 XB-ART-55960
skeletal muscle satellite cell XAO:0005043 satellite cell somite 31097661 XB-ART-55960
posterior notochord cell posterior notochord 31097661 XB-ART-55960
anterior notochord cell anterior notochord 31097661 XB-ART-55960
sclerotomal mesenchyme cell sclerotomal mesenchyme 31097661 XB-ART-55960
myotome cell
myotome cell of trunk somite myotome cell trunk somite, myotome
myotome cell of tail somite myotome cell tail somite, myotome 31097661 XB-ART-55960
myotome cell of head somite myotome cell myotome of head somite
syndetome cell ? 31097661 XB-ART-55960
syndetome cell of trunk somite syndetome cell trunk somite, syndetome
syndetome cell of tail somite syndetome cell
syndetome cell of head somite syndetome cell
sclerotome cell somite 31097661 XB-ART-55960
sclerotome cell of trunk somite sclerotome cell
sclerotome cell of tail somite sclerotome cell
sclerotome cell of head somite sclerotome cell
small secretory cell skin cell skin 31097661 XB-ART-55960
epidermis cell skin cell skin 31097661
laminin-rich epidermis cell skin cell skin 31097661
melanocyte skin cell skin 31097661
melanocyte precursor cell skin cell skin 31097661
melanocyte stem cell skin cell skin 31097661
goblet cell skin cell skin 31097661
alpha ionocyte skin cell skin 31097661
beta ionocyte skin cell skin 31097661
floor plate cell ? spinal cord 31097661
spinal progenitor cell stem cell spinal cord 31097661
oligodendrocyte neuron spinal cord 31097661
vulernale motor neuron cell neuron spinal cord 31097661
motor neuron (leptin +ve) neuron spinal cord 31097661
motor neuron neuron spinal cord 31097661
interneuron 1 neuron spinal cord 31097661
interneuron 2 neuron spinal cord 31097661
interneuron 3 neuron spinal cord 31097661
interneuron 4 neuron spinal cord 31097661
dopaminergic neuron neuron spinal cord 31097661
differentiating neuron neuron spinal cord 31097661
lymphoid 1 (Gata2 -, Gata3+) immune system cell immune system 31097661
lymphoid 2 (Cxcr6+) immune system cell immune system 31097661
lymphoid 3 immune system cell immune system 31097661
lymphoid 4 (Gata2+, Gata3-) immune system cell immune system 31097661
lymphoid 5 (CD19+) immune system cell immune system 31097661
myeloid 1 immune system cell immune system 31097661
myeloid 2 immune system cell immune system 31097661
erythrocyte 1 red blood cell blood 31097661
erythrocyte 2 red blood cell blood 31097661
erythrocyte 3 red blood cell blood 31097661
erythrocyte 4 red blood cell blood 31097661
mesodermal cell undifferentiated mesoderm mesoderm, primary germ layer
endodermal cell undifferentiated endoderm endoderm, primary germ layer
ectodermal cell undifferentiated ectoderm ectoderm, primary germ layer
@seger seger self-assigned this Jan 16, 2021
@seger seger changed the title Term requests - cell types [TERM REQUEST] cell types Jan 16, 2021
seger added a commit that referenced this issue Jan 16, 2021
@seger
Classify new cell types, ref #40.
50219ab
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seger commented Jan 17, 2021 •
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Bolded terms were already in XAO.

  • skeletal myocyte (XAO:0004476)
  • smooth muscle myocyte (XAO:0004477)
  • lymphoid endothelial cell
  • endothelial cell (XAO:0004149)
  • vascular endothelial cell
  • dermomyotome cell
  • skeletal muscle satellite cell (XAO:0005043)
  • posterior notochord cell
  • anterior notochord cell
  • sclerotomal mesenchyme cell
  • myotome cell
  • myotome cell of trunk somite
  • myotome cell of tail somite
  • myotome cell of head somite
  • syndetome cell
  • syndetome cell of trunk somite
  • syndetome cell of tail somite
  • syndetome cell of head somite
  • sclerotome cell
  • sclerotome cell of trunk somite
  • sclerotome cell of tail somite
  • sclerotome cell of head somite
  • small secretory cell (XAO:0005234)
  • epidermis cell (XAO:0004621)
  • laminin-rich epidermis cell
  • melanocyte
  • melanocyte precursor cell
  • melanocyte stem cell
  • goblet cell (XAO:0004392)
  • alpha ionocyte (XAO:0005232)
  • beta ionocyte (XAO:0005233)
  • floor plate cell
  • spinal progenitor cell
  • oligodendrocyte (XAO:0005133)
  • vulernale motor neuron cell
  • motor neuron (leptin +ve)
  • motor neuron (XAO:0004217)
  • interneuron 1
  • interneuron 2
  • interneuron 3
  • interneuron 4
  • dopaminergic neuron
  • differentiating neuron
  • lymphoid cell 1
  • lymphoid cell 2
  • lymphoid cell 3
  • lymphoid cell 4
  • lymphoid cell 5
  • myeloid cell 1
  • myeloid cell 2
  • erythrocyte 1
  • erythrocyte 2
  • erythrocyte 3
  • erythrocyte 4
  • mesodermal cell (XAO:0003255)
  • endodermal cell (XAO:0003248)
  • ectodermal cell (XAO:0003245)

Grouping terms added by EJS:

  • immune system cell
  • red blood cell
  • skin cell

@malcolmfisher103
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HI Erik,

Thanks for making a start on this. We were planning to review these in the next couple of weeks to see if we could classify any of the expression based subtypes or find appropriate existing synonymous terms. If possible can we pause creating new terms until after our review?

Thanks,

Malcolm

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seger commented Jan 21, 2021

@malcolmfisher103 No problem!

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