User: Stian Soiland-Reyes

Name: Stian Soiland-Reyes

Joined: Friday 20 July 2007 16:58:17 (UTC)

Last seen: Saturday 15 June 2024 04:53:40 (UTC)

Email (public): soiland-reyes [at] cs.manchester.ac.uk

Website: http://orcid.org/0000-0001-9842-9718

Location: Manchester, United Kingdom

21 Friends

1 Group (admin)

7 Groups (member)

9 Files

7 Packs

42 Workflows

7 Favourites

Stian Soiland-Reyes has been credited 64 times

Stian Soiland-Reyes has an average rating of:

4.8 / 5

(4 ratings in total)

for their items

I am one of the myGrid developers working in University of Manchester, mainly working on Taverna, but also involved in myExperiment development. Most of the workflows I will publish here on myExperiment are either test workflows (that highlight bugs in Taverna!), technique workflows (like how to do iteration or XML parsing) or other people's workflows that again break Taverna in one way or another. ORCID: http://orcid.org/0000-0001-9842-9718

Other contact details:

Not specified

Interests:

Taverna, Java, Python, REST, open source, web services

Field/Industry: Education

Occupation/Role(s): Technical Architect

Organisation(s):

myGrid
University of Manchester

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Workflow

Taverna 2

Uploader

Wei Tan

Lymphoma type prediction based on microar... (7)

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Scientific value Using gene-expression patterns associated with DLBCL and FL to predict the lymphoma type of an unknown sample. Using SVM (Support Vector Machine) to classify data, and predicting the tumor types of unknown examples. Steps Querying training data from experiments stored in caArray. Preprocessing, or normalize the microarray data. Adding training and testing data into SVM service to get classification result.

Created: 2010-05-11 | Last updated: 2010-05-11

Credits: Wei Tan Ravi Stian Soiland-Reyes

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Workflow

Taverna 2

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Marco Roos

BioAID_ProteinDiscovery (8)

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The workflow extracts protein names from documents retrieved from MedLine based on a user Query (cf Apache Lucene syntax). The protein names are filtered by checking if there exists a valid UniProt ID for the given protein name.

Created: 2010-05-10 | Last updated: 2013-08-16

Credits: Marco Roos AID

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Workflow

Taverna 2

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Paul Fisher

Pathways and Gene annotations for QTL region (7)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the mouse, Mus musculus. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG path...

Created: 2009-11-19 | Last updated: 2012-09-07

Credits: Paul Fisher

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Workflow

Taverna 2

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Katy Wolstencroft

NCBI Gi to Kegg Pathway Descriptions (5)

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This workflow accepts a list of NCBI gene identifiers and returns descriptions of gene functions and a list of all pathways each gene is involved in (plus pathway image) from the KEGG database. This workflow replaces the earlier SOAP version with the new KEGG REST services