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ASCT+B Validation Reports for Mouth (2025-07-23)

Table of contents

Invalid terms

These are the reports related to issues in the terms found in the ASCT+B table. We validate only CL, UBERON and PCL terms.

Terms not found

This report provides a list of terms not found neither in UBERON nor in CL. Please remove these terms from the ASCT+B table - disconsider this message if a term was recently added to the ontology.

  • No issues found.

Typos or punctuation mistakes

This report provides a general quality check of the terms used in the ASCT+B table. Typos, font case (upper case), punctuation mistakes in IDs: two colons, spaces, underscore instead of a colon.

  • No issues found.

Different labels

This report provides a list of terms having different names/labels found in the ontology and related to the one found in the ASCT+B table. Make sure to add the term's name/label in the column AS/N/LABEL or CT/N/LABEL. If the SME wants to give another name/label, please use the column AS/N or CT/N. N is the number in the column.

If the term's name/label and the name/label given by SME are too different, please make sure the term ID and its name/label are matching in OLS.

If the name/label in the ontology contains obsolete, please look into OLS, clicking on the term ID, for its replacement.

  1. The term UBERON:0004923 has a different name/label in the source ontology in the following 1 row 15. The name/label in the ASCT+B table is mucosa of the lip and the one in the ontology is organ component layer. For reference, the given name/label by SMEs is mucosa of the lip. Please correct it in the columns AS/N/LABEL or CT/N/LABEL in the ASCT+B table.

Blank ontology ID

This report provides a list of blank spreadsheet cells that often mean no ontology mapping found by the author. However, in some cases, a term with a synonym already exists. Please search in OLS.

You can find more information on the New CL terms or New UBERON terms reports.

  1. No term id was found for the name/label tongue in the following 1 row 12.

  2. No term id was found for the name/label basal ductal cell in the following 3 rows 18, 36, 53.

  3. No term id was found for the name/label excretory duct epithelial cell in the following 2 rows 21, 57.

  4. No term id was found for the name/label helper T in the following 3 rows 22, 40, 58.

  5. No term id was found for the name/label ionocyte in the following 3 rows 25, 43, 61.

  6. No term id was found for the name/label myoepithelial cell in the following 3 rows 28, 47, 65.

  7. No term id was found for the name/label periacinar fibroblast in the following 3 rows 29, 48, 66.

  8. No term id was found for the name/label periductal fibroblast in the following 3 rows 31, 50, 68.

  9. No term id was found for the name/label serous acinar cell in the following 1 row 32.

  10. No term id was found for the name/label tuft cell in the following 2 rows 35, 72.

  11. No term id was found for the name/label demilune acinar cell in the following 2 rows 37, 54.

  12. No term id was found for the name/label mucous acinar cell in the following 2 rows 46, 64.

  13. No term id was found for the name/label seromucosal acinar cell in the following 2 rows 51, 69.

Blank ontology ID missing parent

This report provides a list of CT terms with blank ontology ID without an upper term from Cell Ontology. Please, create an upper level in the ASCT+B table and add an upper term for them. Please, make sure the term without ontology ID doesn't exist in the ontology.

  1. The term basal ductal cell without ontology ID has no parent that is from the CL ontology in the following 3 rows 18, 36, 53.

  2. The term excretory duct epithelial cell without ontology ID has no parent that is from the CL ontology in the following 2 rows 21, 57.

  3. The term helper T without ontology ID has no parent that is from the CL ontology in the following 3 rows 22, 40, 58.

  4. The term ionocyte without ontology ID has no parent that is from the CL ontology in the following 3 rows 25, 43, 61.

  5. The term myoepithelial cell without ontology ID has no parent that is from the CL ontology in the following 3 rows 28, 47, 65.

  6. The term periacinar fibroblast without ontology ID has no parent that is from the CL ontology in the following 3 rows 29, 48, 66.

  7. The term periductal fibroblast without ontology ID has no parent that is from the CL ontology in the following 3 rows 31, 50, 68.

  8. The term serous acinar cell without ontology ID has no parent that is from the CL ontology in the following 1 row 32.

  9. The term tuft cell without ontology ID has no parent that is from the CL ontology in the following 2 rows 35, 72.

  10. The term demilune acinar cell without ontology ID has no parent that is from the CL ontology in the following 2 rows 37, 54.

  11. The term mucous acinar cell without ontology ID has no parent that is from the CL ontology in the following 2 rows 46, 64.

  12. The term seromucosal acinar cell without ontology ID has no parent that is from the CL ontology in the following 2 rows 51, 69.

Terms from another ontology

This report provides a list of terms from another ontologies that we do not validate. Foundational Model of Anatomy (FMA) ontology IDs are provided when an adequate term is not found in UBERON. Same case for Anatomic Ontology for Human Lung Maturation (LMHA) and Interlex IDs (ILX) from Stimulating Peripheral Activity to Relieve Conditions (SPARC). You can request cross-database request the same way a new term request. Please be sure if a term with a related synonym is already in the source ontologies CL or UBERON or PCL.

  • No issues found.

Relationship reports

These reports are other representations of the ASCT+B table. We split each row into pairs with adjacent terms, resulting in a table with two primary columns, object (o), left side and subject (s), right side. The experts' labels for the subject and object are in the columns user_slabel and user_olabel. The other columns are the subject label (s_label) and object label (o_label), the label from the source ontologies.

The report means it could not find a partonomy relationship in the source ontologies, but it doesn't mean this relationship is entirely invalid. In some cases, the pair is in the inverse order. In other cases, the relationship is missing in the source ontologies. Finally, how it was modelled in the ASCT+B table is not aligned with the ontologies sources and needs a more general discussion.

How to read a table entry

In the ASCT+B table

AS/2 AS/2/LABEL AS/2/ID AS/3 AS/3/LABEL AS/3/ID
lens lens UBERON:0000965 ciliary zonules suspensory ligament of lens UBERON:0006762

In the Relationship Report

s slabel user_slabel o olabel user_olabel
UBERON:0006762 suspensory ligament of lens ciliary zonules UBERON:0000965 lens lens

Relationship AS-AS report

This table contains terms for anatomical structures that are related to each other according to the ASCT+B table but are not related to each other in source ontologies via one of the relation types we consider valid for ASCT+B tables. Valid relationships are: part_of, e.g. corneal endothelium part_of cornea; subClassOf, e.g. left kidney subClassOf (is_a) kidney; and overlaps (has some part in), e.g. ureter overlaps kidney; connected_to, e.g. TBA. part_of and subClassOf relationships should be specific to general, e.g. left kidney (specific) to kidney (general); corneal endothelium (specific) to cornea (general). The deltaIC score is included because a high score (>50) can indicate that this order is reversed, e.g. TBA.

s slabel user_slabel o olabel user_olabel row_number deltaIC
2 UBERON:0004923 organ component layer mucosa of the lip UBERON:0003729 mouth mucosa mouth mucosa 15 23.2312

Relationship CT-CT report

In the case of the CT-CT relationship, for each couple of terms, we verify for sub class of, part of and overlaps in the source ontologies. The deltaIC score is included because a high score (>50) can indicate that this order is reversed, e.g. TBA.

  • No issues found.

Relationship CT-AS report

In the case of the AS-CT relationship, for each couple of terms, we verify for connected to and has part in the source ontologies.

s slabel user_slabel o olabel user_olabel row_number deltaIC
0 CL:0000115 endothelial cell endothelial cell UBERON:0001832 sublingual gland sublingual gland 39 24.1883
1 CL:0000115 endothelial cell endothelial cell UBERON:0001736 submandibular gland submandibular gland 56 24.1883
3 CL:0000115 endothelial cell endothelial cell UBERON:0001831 parotid gland parotid gland 20 20.9702
4 CL:0000192 smooth muscle cell smooth muscle cell UBERON:0001832 sublingual gland sublingual gland 52 15.0794
5 CL:0000192 smooth muscle cell smooth muscle cell UBERON:0001736 submandibular gland submandibular gland 70 15.0794
6 CL:0000451 dendritic cell dendritic cell UBERON:0001832 sublingual gland sublingual gland 38 12.5368
7 CL:0000451 dendritic cell dendritic cell UBERON:0001736 submandibular gland submandibular gland 55 12.5368
8 CL:0000235 macrophage macrophage UBERON:0001736 submandibular gland submandibular gland 62 12.1597
9 CL:0000235 macrophage macrophage UBERON:0001832 sublingual gland sublingual gland 44 12.1597
10 CL:0000192 smooth muscle cell smooth muscle cell UBERON:0001831 parotid gland parotid gland 33 11.8613
11 CL:0000451 dendritic cell dendritic cell UBERON:0001831 parotid gland parotid gland 19 9.31877
12 CL:0000235 macrophage macrophage UBERON:0001831 parotid gland parotid gland 26 8.94161
13 CL:0000669 pericyte pericyte UBERON:0001832 sublingual gland sublingual gland 49 6.37699
14 CL:0000669 pericyte pericyte UBERON:0001736 submandibular gland submandibular gland 67 6.37699
15 CL:0000097 mast cell mast cell UBERON:0001832 sublingual gland sublingual gland 45 5.11633
16 CL:0000097 mast cell mast cell UBERON:0001736 submandibular gland submandibular gland 63 5.11633
17 CL:0000136 adipocyte adipocyte UBERON:0001831 parotid gland parotid gland 17 5.02121
18 CL:0000669 pericyte pericyte UBERON:0001831 parotid gland parotid gland 30 3.15892
19 CL:0000097 mast cell mast cell UBERON:0001831 parotid gland parotid gland 27 1.89825
20 CL:0000987 IgA plasma cell IgA secreting plasma cell UBERON:0001831 parotid gland parotid gland 23 nan
21 CL:4052048 intercalated cell of salivary gland intercalated duct epithelial cell UBERON:0001831 parotid gland parotid gland 24 nan
22 CL:4052049 striated cell of salivary gland striated duct epithelial cell UBERON:0001831 parotid gland parotid gland 34 nan
23 CL:0000987 IgA plasma cell IgA secreting plasma cell UBERON:0001832 sublingual gland sublingual gland 41 nan
24 CL:4052048 intercalated cell of salivary gland intercalated duct epithelial cell UBERON:0001832 sublingual gland sublingual gland 42 nan
25 CL:0000987 IgA plasma cell IgA secreting plasma cell UBERON:0001736 submandibular gland submandibular gland 59 nan
26 CL:4052048 intercalated cell of salivary gland intercalated duct epithelial cell UBERON:0001736 submandibular gland submandibular gland 60 nan
27 CL:4052049 striated cell of salivary gland striated duct epithelial cell UBERON:0001736 submandibular gland submandibular gland 71 nan

New CL terms

Report

New UBERON terms

Report

Informative reports (valid relationships)

Indirect relationship

Report

Relationship AS has part CT

Report