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NIF Standard Ontologies (NIFSTD)
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Markram still not showing up under somatostatin neuron #166

Open memartone opened 5 years ago

memartone commented 5 years ago

Please fix before you go away.

tgbugs commented 5 years ago

This is what I get when when loading directly from https://raw.githubusercontent.com/SciCrunch/NIF-Ontology/neurons/ttl/neuron-development.ttl without modification, so I'm not sure what is wrong. I will removed the other somatostatin related neurons that may still be lingering. markram-sst

memartone commented 5 years ago

This is what I get:

'Mammalia CA1 (unionOf CA1 stratum oriens CA1 alveus) (with-axon-in CA1 stratum lacunosum moleculare) +GRM1 +PV +SS +GABA (projecting to CA1 stratum lacunosum moleculare) interneuron' 'Mammalia central amygdaloid nucleus (with-axons-in BST central amygdaloid nucleus substantia innominata parabrachial nucleus) Spiny +SOM +Neurotensin +Enkephalin +CRF +GABA A-gated anionic channel +GABA C-gated anionic channel +NMDA +AMPA +GABA projection neuron' 'Mammalia neocortex (unionOf EGL L3 L5) (with-axon-in cortical layer I) Martinotti +ilxtr:GABAReceptor +ilxtr:glutamateReceptor +SS +GABA interneuron' 'Mus musculus female left cerebral hemisphere RSPd2/3 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere RSPd6a -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISal6a -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISl5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISl6a -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp2/3 -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp2/3 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp2/3 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp2/3 Apical Dendrite Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp4 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp4 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp5 -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp6a -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp6a -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp6a -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISp6b -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISpl5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISpm5 -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female left cerebral hemisphere VISpm6a -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere RSPagl5 -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISl6a -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp2/3 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp4 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp4 Apical Dendrite Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp5 -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp5 -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp6a -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISp6b -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISpl5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus female right cerebral hemisphere VISpor5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISam4 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISl5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp2/3 -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp2/3 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp2/3 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp4 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp5 -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp5 -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp6a -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp6a -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISp6a -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male left cerebral hemisphere VISpor2/3 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere RSPd2/3 -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISl4 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISl5 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISl5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp2/3 -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp2/3 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp2/3 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp4 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp5 -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp5 -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp6a -Apical Dendrite (intersectionOf Spiny sparse) +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp6a -Apical Dendrite (intersectionOf Spiny sparse) +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp6a -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISp6a -Apical Dendrite -Spiny +Sst-IRES-Cre +Ai14(RCL-tdT) neuron (AllenCT)' 'Mus musculus male right cerebral hemisphere VISpor6a -Apical Dendrite -Spiny +Nos1-CreERT2 +Sst-IRES-FlpO +Ai65(RCFL-tdT) neuron (AllenCT)' 'Mus musculus neocortex +SS neuron (Huang2017)' 'Mus musculus neocortex +CR +SS neuron (Huang2017)' 'Mus musculus neocortex +CR-cre +SST-flp neuron (Huang2017)' 'Mus musculus neocortex +ilxtr:RGS6 +ilxtr:RGS7 +ilxtr:Zip1 +ilxtr:Znt3 +CR +Inhbb +CNP +SS +Pde2a +Adcy2 +Grin3a (intersectionOf GABAR ilxtr:LowerExpression) (intersectionOf GluR ilxtr:HigherExpression) +CR-cre +SST-flp neuron (Huang2017)' 'Mus musculus neocortex +ilxtr:Gucy1a3 +ilxtr:Gucy1b3 +Slc7a3 +CA +CST +Opn3 +NOS +OTR +Pde1a +ENK +Prkg2 +Ptn +Rln1 +SS +Syt4 +Unc5d +Spr +Trpc6 +Wnt2 +Hcrtr1 +M2 +Syt5 +Syt6 +Kcnmb4 +Gpr88 +NOS1-creER +SST-flp neuron (Huang2017)' 'Mus musculus neocortex +ilxtr:RGS6 +ilxtr:RGS7 +Pde2a +Adcy2 neuron (Huang2017)' 'Mus musculus neocortex +CR-cre +SST-flp neuron (Huang2017)' 'Mus musculus neocortex +ilxtr:RGS6 +ilxtr:RGS7 +ilxtr:Zip1 +ilxtr:Znt3 +CR +Inhbb +CNP +SS +Pde2a +Adcy2 +Grin3a (intersectionOf GABAR ilxtr:LowerExpression) (intersectionOf GluR ilxtr:HigherExpression) +CR-cre +SST-flp neuron (Huang2017)' 'Mus musculus neocortex +Inhbb +CNP +SS neuron (Huang2017)' 'Mus musculus neocortex +CR-cre +SST-flp neuron (Huang2017)' 'Mus musculus neocortex +ilxtr:RGS6 +ilxtr:RGS7 +ilxtr:Zip1 +ilxtr:Znt3 +CR +Inhbb +CNP +SS +Pde2a +Adcy2 +Grin3a (intersectionOf GABAR ilxtr:LowerExpression) (intersectionOf GluR ilxtr:HigherExpression) +CR-cre +SST-flp neuron (Huang2017)' 'Mus musculus neocortex +NOS1-creER +SST-flp neuron (Huang2017)'

memartone commented 5 years ago

From: https://raw.githubusercontent.com/SciCrunch/NIF-Ontology/neurons/ttl/neuron-development.ttl