myExperiment - Content

Taverna 2

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Aylin Metzner

This workflow will map a chemical name or identifier to uniform resource identifiers (URIs). First the ChemSpider web service is used to map the chemical name to a ChemSpider identifier, then the ChemSpider identifier is mapped to URIs via the Open PHACTS platform.

Created: 2015-08-20

Credits: Aylin Metzner

Taverna 2

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Magnus Palmblad

connect to WoS Web services lite concept (1)

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This workflow is a concept for how Taverna could connect to the Thomson Reuters Web of Science (WoS) Web services lite. However, at this moment (2015-01-20), the authentication generate a session ID, but the other services (here search and closeSession) do not have an input port for this session ID. According to the documentation, this is required. The error message from the Web service also show this is missing. This workflow is "work in progress", but may nevertheless be of interest to an...

Created: 2015-08-19

Credits: Magnus Palmblad Yassene Arzu Tugce Guler

Taverna 2

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Magnus Palmblad

Online PubMed author search and geographic... (2)

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This workflow retrieves bibliographic data for a single author using the PMC Europe RESTful Web service and visualizes the geographic distribution of this author's and their co-authors' geographic distribution using the rworldmap package. This is version 2.0 of this workflow, incorporating changes to the Web service allowing up to 1,000 records to be retrieved at once, using the pageSize parameter.

Created: 2015-08-19 | Last updated: 2015-09-07

Credits: Magnus Palmblad Arzu Tugce Guler

Taverna 2

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Kristina Hettne

Chemical2URIs (1)

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This workflow will map a chemical name or identifier to uniform resource identifiers (URIs). First the ChemSpider web service is used to map the chemical name to a ChemSpider identifier, then the ChemSpider identifier is mapped to URIs via the Open PHACTS platform.

Created: 2015-08-18

Credits: Kristina Hettne Eelke van der Horst BioSemantics

Taverna 2

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Katerina Nosikova

Get properties of drugs for genes by Entre... (3)

Given a Entrez gene_id the workflow extracts features of its protein (e.g. function, cellular localization and name) and properties of specific drugs for this protein (including activity, PSA, RO5, Smiles and molweight). This workflow uses 3 different services of OpenPHACTS (Target Pharmacology, Compound Information, Target Information).

Created: 2015-07-24 | Last updated: 2015-07-28

Credits: Katerina Nosikova Marco Roos Eleni Eelke van der Horst Elizaveta Besedina

Bioinformatics

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Nikolaos Bismpikos

SNP identification and evaluation for Diab... (1)

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This workflow gathers SNP information for a gene set of Diabetes Type II phenotype using BioMart queries. Furthermore, GO Terms and functional annotation clustering are defined for this gene set using FunctionalClusterDavid workflow.