From ceb30c77be280a94be627b9462a5963d6ae91992 Mon Sep 17 00:00:00 2001 From: jmillanacosta Date: Wed, 12 Jul 2023 17:36:45 +0200 Subject: [PATCH] Release 10.0 --- internal-dev/bao-ext.owl | 30 ++++++++++++- internal-dev/catalog-v001.xml | 2 + internal-dev/endpoints.owl | 21 +++++++++ internal-dev/ncit-ext.owl | 24 +++++++++++ internal-dev/obi-ext.owl | 9 ++++ internal-dev/opentox/catalog-v001.xml | 6 +++ internal-dev/pato-ext.owl | 2 +- internal/bao-ext.owl | 9 ++-- internal/npo-ext.owl | 62 --------------------------- internal/obi-ext.owl | 1 + 10 files changed, 96 insertions(+), 70 deletions(-) create mode 100644 internal-dev/catalog-v001.xml create mode 100644 internal-dev/ncit-ext.owl create mode 100644 internal-dev/opentox/catalog-v001.xml diff --git a/internal-dev/bao-ext.owl b/internal-dev/bao-ext.owl index 437c8236..a6b90616 100644 --- a/internal-dev/bao-ext.owl +++ b/internal-dev/bao-ext.owl @@ -10,6 +10,7 @@ xmlns:dc="http://purl.org/dc/elements/1.1/"> Egon Willighagen + Javier Millan Acosta @@ -31,8 +32,6 @@ IC50 (Hill model) - - @@ -127,6 +126,33 @@ + + + + + Sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) assay + SDS-PAGE assay + Assay used to separate proteins according to their electrophoretic mobility, which is a function of their dimensions, conformation and charge. + + + + + + + Cell proliferation assay used to assess cytotoxicity. It measures the extracellular conversion of tetrazolium salt WST-8 to formazan products by intracellular mitochondrial oxidoreductases in viable cells. + WST-8 + WST-8 Cell Proliferation Assay + + + + + + + Bioassay which measures the opposition to the flow of electrical current (impedance) through tissues, cell monolayers and single cells when an external alternating current (AC) field is applied. + This assay is label-free and constitutes a reliable alternative with the potential to become a method of choice for the initial screening of toxic effects in nanomaterials. Impedance-based monitoring takes advantage of the passive properties of an object, which occur when the object is composed of dissipative elements, such as ohmic resistors or conservative elements, such as capacitances and inductances . It measures the opposition to the flow of electrical current (impedance) through tissues, cell monolayers and single cells when an external alternating current (AC) field is applied. + Bioimpedance assay + Impedance-based cell assay + diff --git a/internal-dev/catalog-v001.xml b/internal-dev/catalog-v001.xml new file mode 100644 index 00000000..842fa269 --- /dev/null +++ b/internal-dev/catalog-v001.xml @@ -0,0 +1,2 @@ + + diff --git a/internal-dev/endpoints.owl b/internal-dev/endpoints.owl index d61ad29b..a518fbb6 100644 --- a/internal-dev/endpoints.owl +++ b/internal-dev/endpoints.owl @@ -548,6 +548,27 @@ + + + + + + The effective concentration which produces 10% of the maximum possible response. + EC10 + + + + + + + + + The effective concentration that produces 20% of the maximum possible response. + EC20 + + + + diff --git a/internal-dev/ncit-ext.owl b/internal-dev/ncit-ext.owl new file mode 100644 index 00000000..5ff8a482 --- /dev/null +++ b/internal-dev/ncit-ext.owl @@ -0,0 +1,24 @@ + + + + Javier Millan Acosta + + + + + + + + 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 + + + diff --git a/internal-dev/obi-ext.owl b/internal-dev/obi-ext.owl index 69605937..ae76edb7 100644 --- a/internal-dev/obi-ext.owl +++ b/internal-dev/obi-ext.owl @@ -11,6 +11,7 @@ Laurent Winckers + Javier Millan Acosta CC-BY 4.0 https://creativecommons.org/licenses/by/4.0/ This ontology contains proposed extensions to the Ontology for Biomedical Investigations, which in due course will be submitted to the OBI. @@ -622,5 +623,13 @@ + + + + + Ferric Reduction Ability of Serum + FRAS + Assay measuring the surface reactivity of nanomaterials under physiological conditions to determine their dose-dependent oxidative damage + diff --git a/internal-dev/opentox/catalog-v001.xml b/internal-dev/opentox/catalog-v001.xml new file mode 100644 index 00000000..88d4592f --- /dev/null +++ b/internal-dev/opentox/catalog-v001.xml @@ -0,0 +1,6 @@ + + + + + + diff --git a/internal-dev/pato-ext.owl b/internal-dev/pato-ext.owl index 5a2c6500..7c2c1929 100644 --- a/internal-dev/pato-ext.owl +++ b/internal-dev/pato-ext.owl @@ -46,7 +46,7 @@ - + The amount of dissolved substance versus time (determined by the crystal forces) as an experimental value, where solid particles (usually crystalline) are released into solution as individual free molecules. Dissolution rate diff --git a/internal/bao-ext.owl b/internal/bao-ext.owl index 02dafe20..a6b90616 100644 --- a/internal/bao-ext.owl +++ b/internal/bao-ext.owl @@ -30,8 +30,8 @@ An IC50 calculated with the Hill model fitting algorithm. IC50 (Hill model) - - + + @@ -112,9 +112,8 @@ - Cell proliferation assay used to assess cytotoxicity. It measures the extracellular conversion of tetrazolium salt WST-1 to formazan products by intracellular mitochondrial oxidoreductases in viable cells. + wst-1 cell proliferation assay is a sensitive and accurate assay for cell proliferation and cytotoxicity. WST-1 - WST-1 Cell Proliferation Assay @@ -135,7 +134,7 @@ SDS-PAGE assay Assay used to separate proteins according to their electrophoretic mobility, which is a function of their dimensions, conformation and charge. - + diff --git a/internal/npo-ext.owl b/internal/npo-ext.owl index 029686fd..4826d682 100644 --- a/internal/npo-ext.owl +++ b/internal/npo-ext.owl @@ -3103,68 +3103,6 @@ cobalt ferrite - - - - - A PATROLS-donated compound multiwall carbon nanotube. - JRCNM40011a - NRCWE-006 - - - - - - - - A silver nanoparticle from the JRC library. - JRCNM03001a - - - - - - - - A silver nanoparticle from the JRC library. - JRCNM03002a - - - - - - - - A multiwall carbon nanotube from the JRC library. - JRCNM04002a - - - - - - - - A multiwall carbon nanotube from the JRC library. - JRCNM04003a - - - - - - - - A singlewall carbon nanotube from the JRC library. - JRCNM46000a - - - - - - - - A graphene nanoparticle from the JRC library. - JRCNM48001a - diff --git a/internal/obi-ext.owl b/internal/obi-ext.owl index 1ae936bc..ae76edb7 100644 --- a/internal/obi-ext.owl +++ b/internal/obi-ext.owl @@ -8,6 +8,7 @@ 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/"> + Laurent Winckers Javier Millan Acosta