mammalian-phenotype-ontology
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Published
20 hours ago •
mgijax
mgijax
Align abnormal morphology of anatomical entity EQs with HPO
There are matching MP-HPO terms where only the HPO term has an EQ, but the MP term of the pair does not have any. See uPheno issue: https://github.com/obophenotype/upheno/issues/898#issuecomment-1306126334 .
I have created the table below with 37 of these pairs. After your review, I can add these EQs to the appropriate MP terms in one go. There are two patterns used for these in HPO:
- abnormalMorphologyOfAnatomicalEntity
- abnormalMorphologyOfPartOfAnatomicalEntity
| pattern | HP EQ | MP ID | MP LABEL | HP ID | HP LABEL |
|---|---|---|---|---|---|
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'arch of aorta') and ('has modifier' some abnormal)) | MP:0004113 | abnormal aortic arch morphology | HP:0012303 | Abnormal aortic arch morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'cortex of kidney') and ('has modifier' some abnormal)) | MP:0000521 | abnormal kidney cortex morphology | HP:0011035 | Abnormal renal cortex morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'fused sacrum') and ('has modifier' some abnormal)) | MP:0010113 | abnormal sacrum morphology | HP:0005107 | Abnormal sacrum morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'heart left ventricle') and ('has modifier' some abnormal)) | MP:0003921 | abnormal heart left ventricle morphology | HP:0001711 | Abnormal left ventricle morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'heart right ventricle') and ('has modifier' some abnormal)) | MP:0003920 | abnormal heart right ventricle morphology | HP:0001707 | Abnormal right ventricle morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'interatrial septum') and ('has modifier' some abnormal)) | MP:0000282 | abnormal interatrial septum morphology | HP:0011994 | Abnormal atrial septum morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'internal ear') and ('has modifier' some abnormal)) | MP:0000026 | abnormal inner ear morphology | HP:0011390 | Morphological abnormality of the inner ear |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'interventricular septum') and ('has modifier' some abnormal)) | MP:0000281 | abnormal interventricular septum morphology | HP:0010438 | Abnormal ventricular septum morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'left cardiac atrium') and ('has modifier' some abnormal)) | MP:0003923 | abnormal heart left atrium morphology | HP:0025579 | Abnormal left atrium morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'metatarsal bone') and ('has modifier' some abnormal)) | MP:0003072 | abnormal metatarsal bone morphology | HP:0001832 | Abnormal metatarsal morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'postcranial axial skeleton') and ('has modifier' some abnormal)) | MP:0002114 | abnormal axial skeleton morphology | HP:0009121 | Abnormal axial skeleton morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'pulmonary vein') and ('has modifier' some abnormal)) | MP:0002726 | abnormal pulmonary vein morphology | HP:0030968 | Abnormal pulmonary vein morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'right cardiac atrium') and ('has modifier' some abnormal)) | MP:0003922 | abnormal heart right atrium morphology | HP:0025580 | Abnormal right atrium morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some 'trabecular network of bone') and ('has modifier' some abnormal)) | MP:0000130 | abnormal trabecular bone morphology | HP:0100671 | Abnormal trabecular bone morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some liver) and ('has modifier' some abnormal)) | MP:0000598 | abnormal liver morphology | HP:0410042 | Abnormal liver morphology |
| abnormalMorphologyOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of' some vein) and ('has modifier' some abnormal)) | MP:0002725 | abnormal vein morphology | HP:0002624 | Abnormal venous morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'aortic valve') and ('has modifier' some abnormal)) | MP:0002747 | abnormal aortic valve morphology | HP:0001646 | Abnormal aortic valve morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'appendicular skeleton') and ('has modifier' some abnormal)) | MP:0009250 | abnormal appendicular skeleton morphology | HP:0011844 | Abnormal appendicular skeleton morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'bony vertebral centrum') and ('has modifier' some abnormal)) | MP:0000141 | abnormal vertebral body morphology | HP:0003312 | Abnormal form of the vertebral bodies |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'cerebral hemisphere white matter') and ('has modifier' some abnormal)) | MP:0008026 | abnormal brain white matter morphology | HP:0002500 | Abnormal cerebral white matter morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'clavicle bone') and ('has modifier' some abnormal)) | MP:0005298 | abnormal clavicle morphology | HP:0000889 | Abnormal clavicle morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'common carotid artery plus branches') and ('has modifier' some abnormal)) | MP:0004181 | abnormal carotid artery morphology | HP:0005344 | Abnormal carotid artery morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'coronary artery') and ('has modifier' some abnormal)) | MP:0004111 | abnormal coronary artery morphology | HP:0006704 | Abnormal coronary artery morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'facial skeleton') and ('has modifier' some abnormal)) | MP:0005274 | abnormal viscerocranium morphology | HP:0011821 | Abnormality of facial skeleton |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'mitral valve') and ('has modifier' some abnormal)) | MP:0000286 | abnormal mitral valve morphology | HP:0001633 | Abnormal mitral valve morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'pulmonary artery') and ('has modifier' some abnormal)) | MP:0000484 | abnormal pulmonary artery morphology | HP:0030966 | Abnormal pulmonary artery morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'pulmonary valve') and ('has modifier' some abnormal)) | MP:0002748 | abnormal pulmonary valve morphology | HP:0001641 | Abnormal pulmonary valve morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'secondary palate') and ('has modifier' some abnormal)) | MP:0003755 | abnormal palate morphology | HP:0000174 | Abnormal palate morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some 'tricuspid valve') and ('has modifier' some abnormal)) | MP:0002624 | abnormal tricuspid valve morphology | HP:0001702 | Abnormal tricuspid valve morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some aorta) and ('has modifier' some abnormal)) | MP:0000272 | abnormal aorta morphology | HP:0001679 | Abnormal aortic morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some brain) and ('has modifier' some abnormal)) | MP:0002152 | abnormal brain morphology | HP:0012443 | Abnormality of brain morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some bronchus) and ('has modifier' some abnormal)) | MP:0002264 | abnormal bronchus morphology | HP:0025426 | Abnormal bronchus morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some ear) and ('has modifier' some abnormal)) | MP:0002102 | abnormal ear morphology | HP:0031703 | Abnormal ear morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some heart) and ('has modifier' some abnormal)) | MP:0000266 | abnormal heart morphology | HP:0001627 | Abnormal heart morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some skull) and ('has modifier' some abnormal)) | MP:0000438 | abnormal cranium morphology | HP:0000929 | Abnormal skull morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some sternum) and ('has modifier' some abnormal)) | MP:0000157 | abnormal sternum morphology | HP:0000766 | Abnormal sternum morphology |
| abnormalMorphologyOfPartOfAnatomicalEntity | 'has part' some (morphology and ('characteristic of part of' some vertebra) and ('has modifier' some abnormal)) | MP:0000137 | abnormal vertebrae morphology | HP:0003468 | Abnormal vertebral morphology |
