From 45ef5a1629e965b51f596c231137c87857a52633 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 13:33:56 +0200 Subject: [PATCH 01/12] Added cell type classification solves #533 --- internal-dev/iao-ext.owl | 10 ++++++++++ 1 file changed, 10 insertions(+) diff --git a/internal-dev/iao-ext.owl b/internal-dev/iao-ext.owl index 400f3d2a..313e758c 100644 --- a/internal-dev/iao-ext.owl +++ b/internal-dev/iao-ext.owl @@ -345,6 +345,16 @@ + + + + + Information entity classifying cells based on their origin + cell type classification + + + + From 7d30cde3dc33a5c890923a87567ce4379ea2a3fb Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:12:17 +0200 Subject: [PATCH 02/12] Added nox1 activity --- config/go.iris | 1 + 1 file changed, 1 insertion(+) diff --git a/config/go.iris b/config/go.iris index 9ce2a114..8a3e92a1 100644 --- a/config/go.iris +++ b/config/go.iris @@ -15,3 +15,4 @@ +D(http://purl.obolibrary.org/obo/GO_0009987):http://purl.obolibrary.org/obo/GO_1902806 regulation of cell cycle G1/S phase transition +D(http://purl.obolibrary.org/obo/GO_0009987):http://purl.obolibrary.org/obo/GO_0051493 regulation of cytoskeleton organization +D(http://purl.obolibrary.org/obo/GO_0009987):http://purl.obolibrary.org/obo/GO_0141085 regulation of inflammasome-mediated signaling pathway ++(http://purl.obolibrary.org/obo/GO_0003824):http://purl.obolibrary.org/obo/GO_0016175 superoxide-generating NAD(P)H oxidase activity From da4a79338943b31a1849f7c2e01caa58c7032de1 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:38:14 +0200 Subject: [PATCH 03/12] Added optical qualities --- config/pato.iris | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/config/pato.iris b/config/pato.iris index 3cbe14aa..4852201e 100644 --- a/config/pato.iris +++ b/config/pato.iris @@ -20,4 +20,4 @@ +(http://purl.obolibrary.org/obo/BFO_0000019):http://purl.obolibrary.org/obo/PATO_0000150 texture +(http://purl.obolibrary.org/obo/PATO_0000150):http://purl.obolibrary.org/obo/PATO_0002012 coating -:http://purl.org/spar/cito/citesAsAuthority -+(http://purl.obolibrary.org/obo/BFO_0000019):http://purl.obolibrary.org/obo/PATO_0000014 color ++(http://semanticscience.org/resource/CHEMINF_000101):http://purl.obolibrary.org/obo/PATO_0001300 optical qualities (includes color) From c7bc0a8b00b9135c796a8ee0165702fa1b7cf9f7 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:41:15 +0200 Subject: [PATCH 04/12] removed cell type --- internal-dev/iao-ext.owl | 13 ------------- 1 file changed, 13 deletions(-) diff --git a/internal-dev/iao-ext.owl b/internal-dev/iao-ext.owl index 313e758c..1715f626 100644 --- a/internal-dev/iao-ext.owl +++ b/internal-dev/iao-ext.owl @@ -343,18 +343,6 @@ biological descriptor - - - - - - - Information entity classifying cells based on their origin - cell type classification - - - - @@ -362,7 +350,6 @@ Aspect ratio X, defined as AR_x=dmin_x/max_y, doi: 10.3109/17435390.2014.930195 aspect ratio x - From 2b905008a45479265c481655fc76a475529dd0eb Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:42:32 +0200 Subject: [PATCH 05/12] Added biological qualities --- config/sio.iris | 1 + 1 file changed, 1 insertion(+) diff --git a/config/sio.iris b/config/sio.iris index baa7a55b..5f00fe69 100644 --- a/config/sio.iris +++ b/config/sio.iris @@ -4,3 +4,4 @@ +D(http://purl.bioontology.org/ontology/npo#NPO_1793):http://semanticscience.org/resource/SIO_000769 uncertainty value +D(http://purl.obolibrary.org/obo/OBI_0100026):http://semanticscience.org/resource/SIO_010055 strain +D(http://purl.bioontology.org/ontology/npo#NPO_1597):http://semanticscience.org/resource/SIO_010471 protein part ++D(http://purl.obolibrary.org/obo/BFO_0000019):http://semanticscience.org/resource/SIO_000475 biological quality From 5da45a49b48086563e1649c8c848065eac56d512 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:47:29 +0200 Subject: [PATCH 06/12] Create sio-ext.owl --- internal-dev/sio-ext.owl | 70 ++++++++++++++++++++++++++++++++++++++++ 1 file changed, 70 insertions(+) create mode 100644 internal-dev/sio-ext.owl diff --git a/internal-dev/sio-ext.owl b/internal-dev/sio-ext.owl new file mode 100644 index 00000000..57be7283 --- /dev/null +++ b/internal-dev/sio-ext.owl @@ -0,0 +1,70 @@ + + + + This file is part of the eNanoMapper ontology project (http://www.enanomapper.net/) + Egon Willighagen + Jiakang Chang + + + + + + + + + + + + + + + + + + organ quality + + + + + + + + organ type + + + + + + + + organ type + + + + + + + cell type + + From d7a52473317b287f27940ad84a09c84fcb5991d1 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:48:06 +0200 Subject: [PATCH 07/12] Added sio import for internal module --- enanomapper-dev.owl | 1 + 1 file changed, 1 insertion(+) diff --git a/enanomapper-dev.owl b/enanomapper-dev.owl index 7b1f1202..15ccbca0 100644 --- a/enanomapper-dev.owl +++ b/enanomapper-dev.owl @@ -55,6 +55,7 @@ + 11.0-SNAPSHOT From c42dbfea249c44c4c5433013510954909d43d992 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:58:11 +0200 Subject: [PATCH 08/12] fix commit issue --- .github/workflows/build.yml | 3 +++ 1 file changed, 3 insertions(+) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index 807b24af..dd9fd20a 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -207,6 +207,9 @@ jobs: - name: Commit OWL files if: ${{ github.event_name != 'pull_request' || github.event.action != 'closed' || github.event.pull_request.merged == false }} # do not try to commit if not ran in branch but on PR run: | + if [[ "${{ github.ref_name }}" == *"merge"* ]]; then + exit 0 + fi git checkout "${{ github.ref_name }}" git pull git add external-dev/*.owl From d34ab18e673c70ca8260823570b83068288fafe7 Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 15:58:51 +0200 Subject: [PATCH 09/12] Update build.yml --- .github/workflows/build.yml | 1 - 1 file changed, 1 deletion(-) diff --git a/.github/workflows/build.yml b/.github/workflows/build.yml index dd9fd20a..669dd81c 100644 --- a/.github/workflows/build.yml +++ b/.github/workflows/build.yml @@ -205,7 +205,6 @@ jobs: run: bash scripts/src/build-workflow/props.sh ro # Commit and push - name: Commit OWL files - if: ${{ github.event_name != 'pull_request' || github.event.action != 'closed' || github.event.pull_request.merged == false }} # do not try to commit if not ran in branch but on PR run: | if [[ "${{ github.ref_name }}" == *"merge"* ]]; then exit 0 From 730083c5cb94a3b6f99ca55d1dc36c3d2392df60 Mon Sep 17 00:00:00 2001 From: Slimmer bot Date: Tue, 16 Apr 2024 14:08:04 +0000 Subject: [PATCH 10/12] Actions - slim updated --- external-dev/aopo-slim.owl | 2 +- external-dev/bao-slim.owl | 2 +- external-dev/bfo-slim.owl | 2 +- external-dev/bto-slim.owl | 2 +- external-dev/ccont-slim.owl | 2 +- external-dev/chebi-slim.owl | 2 +- external-dev/cheminf-slim.owl | 2 +- external-dev/chmo-slim.owl | 2 +- external-dev/clo-slim.owl | 2 +- external-dev/efo-slim.owl | 2 +- external-dev/envo-slim.owl | 2 +- external-dev/fabio-slim.owl | 2 +- external-dev/go-slim.owl | 2 +- external-dev/iao-slim.owl | 2 +- external-dev/msio-slim.owl | 2 +- external-dev/ncit-slim.owl | 2 +- external-dev/npo-slim.owl | 2 +- external-dev/oae-slim.owl | 2 +- external-dev/obcs-slim.owl | 2 +- external-dev/obi-slim.owl | 2 +- external-dev/pato-slim.owl | 2 +- external-dev/sio-slim.owl | 2 +- external-dev/uberon-slim.owl | 2 +- external-dev/uo-slim.owl | 2 +- 24 files changed, 24 insertions(+), 24 deletions(-) diff --git a/external-dev/aopo-slim.owl b/external-dev/aopo-slim.owl index 6dff2f77..91b7f108 100644 --- a/external-dev/aopo-slim.owl +++ b/external-dev/aopo-slim.owl @@ -44,7 +44,7 @@ https://raw.githubusercontent.com/jmillanacosta/aop-ontology/patch-1/aopo.owl Slimmer - 2024-04-16 11:24:22 + 2024-04-16 14:00:14 28:03:2024 12:38 chebi_ontology human_phenotype diff --git a/external-dev/bao-slim.owl b/external-dev/bao-slim.owl index 9aea072f..a62af747 100644 --- a/external-dev/bao-slim.owl +++ b/external-dev/bao-slim.owl @@ -24,7 +24,7 @@ http://bioassayontology.org/bao/bao_complete_merged.owl Slimmer - 2024-04-16 11:24:30 + 2024-04-16 14:00:22 Contact: Stephan Schurer stephan dot schurer at gmail dot com diff --git a/external-dev/bfo-slim.owl b/external-dev/bfo-slim.owl index 0d4e4a11..6bfe3b6c 100644 --- a/external-dev/bfo-slim.owl +++ b/external-dev/bfo-slim.owl @@ -45,7 +45,7 @@ http://purl.obolibrary.org/obo/bfo/classes-only.owl Slimmer - 2024-04-16 11:24:32 + 2024-04-16 14:00:24 The http://purl.obolibary.org/obo/bfo/classes-only.owl variant of BFO ("bfo_classes_only.owl") includes only the class hierarchy and annotations from the full OWL version of BFO 2: http://purl.obolibary.org/obo/bfo.owl ("bfo.owl"). There are no object properties or logical axioms that use the object properties in bfo_classes_only.owl. As the logical axioms in the bfo_classes_only.owl variant are limited to subclass and disjoint assertions they are much weaker than the logical axioms in bfo.owl. If you plan to use the relations that define BFO 2, you should import bfo.owl instead of bfo_classes_only.owl. To the extent that the relations are used without importing bfo.owl, be mindful that they should be used in a manner consistent with their use in bfo.owl. Otherwise if your ontology is imported by a another ontology that imports bfo.owl there may be inconsistencies. diff --git a/external-dev/bto-slim.owl b/external-dev/bto-slim.owl index 192aba1a..f2b4f9d4 100644 --- a/external-dev/bto-slim.owl +++ b/external-dev/bto-slim.owl @@ -20,7 +20,7 @@ http://purl.obolibrary.org/obo/bto.owl OBO-Edit 2.3.1 Slimmer - 2024-04-16 11:24:36 + 2024-04-16 14:00:28 23:10:2021 16:56 BrendaTissueOBO 1.2 diff --git a/external-dev/ccont-slim.owl b/external-dev/ccont-slim.owl index 55a655ae..2263a0cb 100644 --- a/external-dev/ccont-slim.owl +++ b/external-dev/ccont-slim.owl @@ -15,7 +15,7 @@ https://raw.githubusercontent.com/enanomapper/ontologies/master/internal/ccont-ext.owl Matthias Ganzinger, matthias.ganzinger@med.uni-heidelberg.de Slimmer - 2024-04-16 11:24:38 + 2024-04-16 14:00:29 cell culture ontology (CCONT) 1.1 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/chebi-slim.owl b/external-dev/chebi-slim.owl index ce0ffdf7..7656e3ec 100644 --- a/external-dev/chebi-slim.owl +++ b/external-dev/chebi-slim.owl @@ -17,7 +17,7 @@ http://ftp.ebi.ac.uk/pub/databases/chebi/ontology/chebi_lite.obo Slimmer - 2024-04-16 11:26:17 + 2024-04-16 14:02:06 28:03:2024 12:38 chebi_ontology 1.2 diff --git a/external-dev/cheminf-slim.owl b/external-dev/cheminf-slim.owl index 840931e5..a4440f6b 100644 --- a/external-dev/cheminf-slim.owl +++ b/external-dev/cheminf-slim.owl @@ -79,7 +79,7 @@ http://creativecommons.org/publicdomain/zero/1.0/ http://semanticchemistry.github.io/semanticchemistry/ontology/cheminf.owl Slimmer - 2024-04-16 11:24:40 + 2024-04-16 14:00:32 An information artifact is, loosely, a dependent continuant or its bearer that is created as the result of one or more intentional processes. Examples: uniprot, the english language, the contents of this document or a printout of it, the temperature measurements from a weather balloon. For more information, see the project home page at https://github.com/information-artifact-ontology/IAO Document containing upporting external terms IDs allocated to related efforts: PNO: IAO_0020000-IAO_0020999, D_ACTS: IAO_0021000-IAO_0021999 diff --git a/external-dev/chmo-slim.owl b/external-dev/chmo-slim.owl index 9026722d..30bbe73f 100644 --- a/external-dev/chmo-slim.owl +++ b/external-dev/chmo-slim.owl @@ -19,7 +19,7 @@ http://purl.obolibrary.org/obo/chmo.owl Slimmer - 2024-04-16 11:26:21 + 2024-04-16 14:02:11 1.2 batchelorc This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/clo-slim.owl b/external-dev/clo-slim.owl index 84c08b44..eb1691da 100644 --- a/external-dev/clo-slim.owl +++ b/external-dev/clo-slim.owl @@ -38,7 +38,7 @@ http://purl.obolibrary.org/obo/cl.owl Slimmer - 2024-04-16 11:26:33 + 2024-04-16 14:02:23 See PMID:15693950, PMID:12799354, PMID:20123131, PMID:21208450; Contact Alexander Diehl, addiehl@buffalo.edu, University at Buffalo. 2024-04-05 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/efo-slim.owl b/external-dev/efo-slim.owl index 247eb8c2..3bbd155c 100644 --- a/external-dev/efo-slim.owl +++ b/external-dev/efo-slim.owl @@ -55,7 +55,7 @@ License. www.apache.org/licenses/LICENSE-2.0 http://www.ebi.ac.uk/efo/efo.owl Slimmer - 2024-04-16 11:27:39 + 2024-04-16 14:03:47 2024-04-15 3.65.0 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/envo-slim.owl b/external-dev/envo-slim.owl index b11b13b0..937020fd 100644 --- a/external-dev/envo-slim.owl +++ b/external-dev/envo-slim.owl @@ -35,7 +35,7 @@ https://github.com/EnvironmentOntology/envo/ https://github.com/EnvironmentOntology/envo/issues/ Slimmer - 2024-04-16 11:27:46 + 2024-04-16 14:03:54 ENVO Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/chemical_concentration.owl>) VersionIRI(<null>))) [Axioms: 679 Logical Axioms: 119] Includes Ontology(OntologyID(OntologyIRI(<http://purl.obolibrary.org/obo/envo/modules/entity_attribute.owl>) VersionIRI(<null>))) [Axioms: 206 Logical Axioms: 34] diff --git a/external-dev/fabio-slim.owl b/external-dev/fabio-slim.owl index 50a185c2..103108ac 100644 --- a/external-dev/fabio-slim.owl +++ b/external-dev/fabio-slim.owl @@ -33,7 +33,7 @@ FaBiO classes are structured according to the FRBR schema of Works, Expressions, fabio http://purl.org/spar/fabio/ Slimmer - 2024-04-16 11:27:51 + 2024-04-16 14:03:58 FaBiO, the FRBR-aligned Bibliographic Ontology, is an ontology for recording and publishing on the Semantic Web bibliographic records of scholarly endeavours. It forms part of SPAR, a suite of Semantic Publishing and Referencing Ontologies. Other SPAR ontologies are described at http://purl.org/spar/. This ontology is available at http://purl.org/spar/fabio, and uses the namespace prefix fabio. diff --git a/external-dev/go-slim.owl b/external-dev/go-slim.owl index ee5b6ff9..37e00181 100644 --- a/external-dev/go-slim.owl +++ b/external-dev/go-slim.owl @@ -24,7 +24,7 @@ http://purl.obolibrary.org/obo/go.owl Slimmer - 2024-04-16 11:28:12 + 2024-04-16 14:04:21 gene_ontology 1.2 2024-03-28 diff --git a/external-dev/iao-slim.owl b/external-dev/iao-slim.owl index e8925311..592e6606 100644 --- a/external-dev/iao-slim.owl +++ b/external-dev/iao-slim.owl @@ -57,7 +57,7 @@ http://purl.obolibrary.org/obo/iao.owl Slimmer - 2024-04-16 11:28:14 + 2024-04-16 14:04:23 An information artifact is, loosely, a dependent continuant or its bearer that is created as the result of one or more intentional processes. Examples: uniprot, the english language, the contents of this document or a printout of it, the temperature measurements from a weather balloon. For more information, see the project home page at https://github.com/information-artifact-ontology/IAO IDs allocated to related efforts: PNO: IAO_0020000-IAO_0020999, D_ACTS: IAO_0021000-IAO_0021999 IDs allocated to subdomains of IAO. pno.owl: IAO_0020000-IAO_0020999, d-acts.owl: IAO_0021000-IAO_0021999 diff --git a/external-dev/msio-slim.owl b/external-dev/msio-slim.owl index 8ffb5a15..9b65df73 100644 --- a/external-dev/msio-slim.owl +++ b/external-dev/msio-slim.owl @@ -181,7 +181,7 @@ http://www.cosmos-fp7.eu/WP2 Slimmer Daniel Schober 2017-10-19T10:11:26Z - 2024-04-16 11:31:08 + 2024-04-16 14:07:17 Please see the project site https://github.com/BFO-ontology/BFO, the bfo2 owl discussion group http://groups.google.com/group/bfo-owl-devel, the bfo2 discussion group http://groups.google.com/group/bfo-devel, the tracking google doc http://goo.gl/IlrEE, and the current version of the bfo2 reference http://purl.obolibrary.org/obo/bfo/dev/bfo2-reference.docx. This ontology is generated from a specification at https://github.com/BFO-ontology/BFO/tree/master/src/ontology/owl-group/specification/ and with the code that generates the OWL version in https://github.com/BFO-ontology/BFO/tree/master/src/tools/. A very early version of BFO version 2 in CLIF is at http://purl.obolibrary.org/obo/bfo/dev/bfo.clif. The BSD license on the BFO project site refers to code used to build BFO. This version (1.1.0) uses the Basic Formal Ontology (BFO) as its top level ontology. We might at some point close the resulting semantic gap by using OBI and IAO as intermediate bridges. diff --git a/external-dev/ncit-slim.owl b/external-dev/ncit-slim.owl index 82306914..2c4a7cad 100644 --- a/external-dev/ncit-slim.owl +++ b/external-dev/ncit-slim.owl @@ -21,7 +21,7 @@ NCI Thesaurus OBO Edition http://purl.obolibrary.org/obo/ncit.owl Slimmer - 2024-04-16 11:30:19 + 2024-04-16 14:06:28 NCI Thesaurus, a controlled vocabulary in support of NCI administrative and scientific activities. Produced by the Enterprise Vocabulary System (EVS), a project by the NCI Center for Biomedical Informatics and Information Technology. National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, U.S.A. 23.09d This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/npo-slim.owl b/external-dev/npo-slim.owl index c24ff6aa..440db0b6 100644 --- a/external-dev/npo-slim.owl +++ b/external-dev/npo-slim.owl @@ -17,7 +17,7 @@ http://purl.bioontology.org/ontology/npo https://raw.githubusercontent.com/enanomapper/npo/master/npo-inferred.owl Slimmer - 2024-04-16 11:30:22 + 2024-04-16 14:06:31 Inferred version created with Pellet reasoner in Protege editor (v. 4.1) The NPO was primarily developed by Dennis G. Thomas in collaboration with Nathan A. Baker and Rohit V. Pappu. This development was supported by the NIH through grants U54 CA119342 and U54 HG004028. 2013-05-31 (yyyy-mm-dd) diff --git a/external-dev/oae-slim.owl b/external-dev/oae-slim.owl index 686dcd38..70a5d933 100644 --- a/external-dev/oae-slim.owl +++ b/external-dev/oae-slim.owl @@ -58,7 +58,7 @@ OAE: Ontology of Adverse Events http://purl.obolibrary.org/obo/oae.owl Slimmer - 2024-04-16 11:30:28 + 2024-04-16 14:06:37 1.2.47 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/obcs-slim.owl b/external-dev/obcs-slim.owl index d04284e2..b6203298 100644 --- a/external-dev/obcs-slim.owl +++ b/external-dev/obcs-slim.owl @@ -37,7 +37,7 @@ http://purl.obolibrary.org/obo/obcs.owl Slimmer - 2024-04-16 11:30:32 + 2024-04-16 14:06:41 2023-12-08 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/obi-slim.owl b/external-dev/obi-slim.owl index 92dcef1f..2dbe4519 100644 --- a/external-dev/obi-slim.owl +++ b/external-dev/obi-slim.owl @@ -82,7 +82,7 @@ Ontology for Biomedical Investigations http://purl.obolibrary.org/obo/obi.owl Slimmer - 2024-04-16 11:30:37 + 2024-04-16 14:06:46 Please cite the OBI consortium http://purl.obolibrary.org/obo/obi where traditional citation is called for. However it is adequate that individual terms be attributed simply by use of the identifying PURL for the term, in projects that refer to them. 2024-01-09 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/pato-slim.owl b/external-dev/pato-slim.owl index b7f46b31..cc435cc1 100644 --- a/external-dev/pato-slim.owl +++ b/external-dev/pato-slim.owl @@ -39,7 +39,7 @@ http://purl.obolibrary.org/obo/pato.owl Slimmer - 2024-04-16 11:30:44 + 2024-04-16 14:06:53 quality 1.2 2024-03-28 diff --git a/external-dev/sio-slim.owl b/external-dev/sio-slim.owl index cee8d50f..bf3b0ad4 100644 --- a/external-dev/sio-slim.owl +++ b/external-dev/sio-slim.owl @@ -80,7 +80,7 @@ mailing list: http://groups.google.com/group/sio-ontology role chains: 'has capability' o 'is realized in' -> 'is participant in' Slimmer - 2024-04-16 11:30:47 + 2024-04-16 14:06:55 http://sio.semanticscience.org 1.59 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. diff --git a/external-dev/uberon-slim.owl b/external-dev/uberon-slim.owl index 70fb7f9e..15faf576 100644 --- a/external-dev/uberon-slim.owl +++ b/external-dev/uberon-slim.owl @@ -159,7 +159,7 @@ https://github.com/obophenotype/uberon/issues/ https://lists.sourceforge.net/lists/listinfo/obo-anatomy Slimmer - 2024-04-16 11:31:04 + 2024-04-16 14:07:13 uberon 1.2 AEO diff --git a/external-dev/uo-slim.owl b/external-dev/uo-slim.owl index 20a90da4..af0a16e5 100644 --- a/external-dev/uo-slim.owl +++ b/external-dev/uo-slim.owl @@ -12,7 +12,7 @@ http://purl.obolibrary.org/obo/uo.owl Slimmer - 2024-04-16 11:31:06 + 2024-04-16 14:07:15 2023-05-25 This SLIM file was generated automatically by the eNanoMapper Slimmer software library. For more information see http://github.com/enanomapper/slimmer. From a7696ebe03441ceaa27ecd01cc685988618d956d Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 16:09:04 +0200 Subject: [PATCH 11/12] added organic matter in medium --- internal-dev/ncit-ext.owl | 175 ++++++++++++++++++++++++++++---------- 1 file changed, 132 insertions(+), 43 deletions(-) diff --git a/internal-dev/ncit-ext.owl b/internal-dev/ncit-ext.owl index e425bfa6..c40601ef 100644 --- a/internal-dev/ncit-ext.owl +++ b/internal-dev/ncit-ext.owl @@ -1,63 +1,152 @@ - - - + xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#" + xmlns:obo="http://purl.obolibrary.org/obo/" + xmlns:dc="http://purl.org/dc/elements/1.1/"> + Javier Millan Acosta - application/rdf+xml - NMLCO - Nanomaterial Life Cycle Ontology - en - http://creativecommons.org/licenses/by/3.0 - Ontology covering the domain of nanomaterial life cycle assessment - + + + + + Pulmonary exposure is performed by instillation of test substance dispersed in a liquid vehicle. The liquid is delivered/blown into the lungs of sedated animals. The exposure is a bolus exposure and the dose is delivered within seconds. + Pulmonary instillation + + - + + + HsdOla:TO mouse + + + + + + + + + + + + + - + + + + + + + + - + - - - - Nanomaterial lifecycle stage + + Murine dendritic cell line + + - - - - Environmental fate + + + + + Human PMØ + Human peritoneal macrophage cell line + + + + + + + + + + HKC + Human kidney cell line + + + + + + + + + + + MSC + Mesothelioma cell line + + + + + + + + + hMSC + Human mesothelioma cell line + + + + + + + + Lung cell line + Pulmonary cell line + + + + + + + + + + + + + + + + + + + + + + + CCL-131 + + + + + + + + Mouse platelets + + + + + + + Organic matter in medium + From b6aae8c2402a01cc1b29c98af537670cc9cec73e Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Javier=20Mill=C3=A1n=20Acosta?= <83466805+jmillanacosta@users.noreply.github.com> Date: Tue, 16 Apr 2024 16:11:44 +0200 Subject: [PATCH 12/12] malformed xml --- internal-dev/sio-ext.owl | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/internal-dev/sio-ext.owl b/internal-dev/sio-ext.owl index 57be7283..5603af43 100644 --- a/internal-dev/sio-ext.owl +++ b/internal-dev/sio-ext.owl @@ -61,7 +61,7 @@ organ type - +