@egon
active 2 months ago-
Egon Willighagen commented on the post, EW9: retrieving active drug-target interactions from ChEMBL, on the site chem-bla-ics 1 year, 10 months ago
With >6 it reduces to 815k, with >7 it is 469k, and with >9 it is 212k activities.
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Egon Willighagen wrote a new post, EW9: retrieving active drug-target interactions from ChEMBL, on the site chem-bla-ics 1 year, 10 months ago
Hypothesis: the pChEMBL property can be used to filter for active drug-target interactions
Start date: 2017-04-17 End date: 2017-04-17
Description: If we wish to integrate binding affinity data with other […]
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Egon Willighagen wrote a new post, EW8: replacing CAS registry numbers with free ChEBI identifiers, on the site chem-bla-ics 4 years, 2 months ago
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Egon Willighagen wrote a new post, EW7: converting metabolite Labels into DataNodes in WikiPathways GPML, on the site chem-bla-ics 4 years, 5 months ago
Hypothesis: The GPML format has sufficient information to convert a metabolite encoded as a Label into a DataNode with identifier
Start date: 2014-09-04 End date: 2014-09-06
Description:
The GPML format is used by WikiPathways to internally store pathways. The format is human-readable, allowing for adding missing information.…[Read more]
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Egon Willighagen wrote a new post, Finding nodes in Rattus norvegicus pathways with IUPAC names, on the site chem-bla-ics 4 years, 5 months ago
Hypothesis: Rattus norvegicus pathways in WikiPathways have DataNode’s with labels containing IUPAC names which can be tagged as type Metabolite.
Start date: 2014-09-05 End date: 2014-09-05
Description:
WikiPathways entries in GPML have DataNode objects and Label objects. It was found before [here, here] that metabolites can be encoded…[Read more]
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Egon Willighagen wrote a new post, Finding nodes in Homo sapiens pathways with IUPAC names, on the site chem-bla-ics 4 years, 5 months ago
Hypothesis: Homo sapiens pathways in WikiPathways have DataNode’s with labels containing IUPAC names which can be tagged as type Metabolite.
Start date: 2014-09-01 End date: 2014-09-01
Description: WikiPathways entries in GPML have DataNode objects and Label objects. It was found before [here] that metabolites can be encoded in pathways…[Read more]
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Egon Willighagen wrote a new post, Finding nodes in Anopheles gambiae pathways with IUPAC names, on the site chem-bla-ics 4 years, 6 months ago
Hypothesis: Anopheles gambiae pathways in WikiPathways have DataNode’s with labels containing IUPAC names which can be tagged as type Metabolite.
Start date: 2014-08-24 End date: 2014-08-24
Description: WikiPathways entries in GPML have DataNode objects and Label objects. It was found before [no published] that metabolites can be…[Read more]
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Egon Willighagen wrote a new post, Exposing more Jena functionality in Bioclipse, on the site chem-bla-ics 4 years, 6 months ago
Hypothesis: Jena functionality for triple set comparison can be exposed via Bioclipse script
Start date: 2014-08-20 End date: 2014-08-20
Description: Bioclipse in the development branch mostly uses Jena for handling RDF data. The “rdf” manager already exposes various features of Jena. We here wish to expose the functionality of Jena to…[Read more]
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Egon Willighagen wrote a new post, EW2: Validating and Reviewing RDF for Open PHACTS, on the site chem-bla-ics 4 years, 7 months ago
Hypothesis: The proprietary RDF is valid and uses common ontologies
Start date: 2014-07-23 End date: 2014-07-23
Description:
For obvious reasons, this experiment will not disclose all details. It […]
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Egon Willighagen wrote a new post, EW1: Updating Bioclipse with OPSIN 1.6.0, on the site chem-bla-ics 4 years, 7 months ago
Hypothesis: Bioclipse works just as well with OPSIN 1.6.0 as it does with 1.5.0.
Start date: 2014-07-20 End date: 2014-07-21
Description: Bioclipse in the development branch has OPSIN 1.5.0 exposed with […]
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Egon Willighagen became a registered member 4 years, 7 months ago
With >6 it reduces to 815k, with >7 it is 469k, and with >9 it is 212k activities.