myExperiment

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Liz Masterman

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Rave in Context project - test pack

Created: 2011-08-08 14:13:04 | Last updated: 2011-11-10 16:07:29

Testing this pack

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raveusability

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David De Roure

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Presentation - Web Services in the Scientific Wilds

Created: 2011-07-12 22:35:26 | Last updated: 2011-07-12 23:18:41

Title: Web Services in the Scientific Wilds Speaker: Carole Goble Event IEEE CLOUD/ICWS/SCC/SERVICES 2011 Event URL: http://conferences.computer.org/scc/2011/ Location: Washington DC, USA Date: Friday July 8, 2011 Formats: .ppt

3 items in this pack

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Rafael C. Jimenez

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Proteomics Bioinformatics Workshop 2011

Created: 2011-07-07 13:20:57 | Last updated: 2011-07-19 12:27:12

Example of workflows using proteomics resources for the Proteomics Bioinformatics Workshop 2011 organized by the Wellcome Trust

8 items in this pack

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Sean Bechhofer

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Presentation: Research Objects: Towards Exchange and...

Created: 2011-07-05 13:56:15 | Last updated: 2011-07-05 14:05:05

Title: Research Objects: Towards Exchange and Reuse of Digital Knowledge Speaker: Sean Bechhofer Event: CERN Workshop on Innovations in Scholarly Communication (OAI7) Event URL: http://indico.cern.ch/conferenceDisplay.py?confId=103325 Location: Geneva, CH Date: Wednesday 22nd June 2011

3 items in this pack

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David De Roure

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Presentation - Machines, Methods and Music - On the ...

Created: 2011-07-05 13:42:43 | Last updated: 2011-07-05 13:48:41

Title: Machines, Methods and Music - On the Evolution of e-Research Speaker: David De Roure Event: The 2011 International Conference on High Performance Computing & Simulation (HPCS 2011) Event URL: http://hpcs11.cisedu.info/ Location: Istanbul, Turkey Date: Tuesday 5th July 2011 Formats: .pptx

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David De Roure

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Presentation - Co-evolution of digital technologies ...

Created: 2011-06-30 17:21:23 | Last updated: 2011-06-30 23:33:04

Title: Co-evolution of digital technologies and research methods Speaker: David De Roure Event: Fifth Bloomsbury Conference on E-Publishing and e-Publications Event URL: http://www.ucl.ac.uk/infostudies/e-publishing/ Location: UCL, London, UK Date: Thursday 30 June 2011 Formats: .pptx Abstract: e-Science has brought advanced technologies to multiple disciplines, first to early adopters, and then with broader uptake we are seeing new digital method...

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James Eales

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Creating a focused corpus of factual outcomes from b...

Created: 2011-06-28 11:19:04 | Last updated: 2011-12-13 16:02:16

This pack contains resources and supplementary files for the submission to the MIND2011 workshop titled "Creating a focused corpus of factual outcomes from biomedical experiments" by James Eales, George Demetriou and Robert Stevens

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Skerrien

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APO-SYS Toolbox

Created: 2011-06-10 14:24:10 | Last updated: 2011-06-10 15:11:25

A collection of workflows and tools to build analysis pipeline, developed primarily for APO-SYS project members.

11 items in this pack

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James Eales

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RapidMiner plugin for Taverna videos and descriptions

Created: 2011-06-06 10:17:52 | Last updated: 2011-12-13 16:02:04

This pack contains videos the show how to use various parts of the RapidMiner plugin for Taverna. The videos demonstrate how to build a Taverna workflow which collects a GEO dataset, uploads it to RapidAnalytics, trains a classifier on one half of the data and tests it on the other half. This classification process can be used to gauge how well mutant and control assays agree across experimental repeats.

5 items in this pack

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assays
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e-lico
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elico
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geo
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rapidminer
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svm

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Don Cruickshank

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Test pack for relationships

Created: 2011-06-03 12:48:10 | Last updated: 2013-01-10 09:00:32

This is a pack that I use to demonstrate that you can add relationships between pack items.

4 items in this pack

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David De Roure

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Presentation - The Multiple Networks of myExperiment

Created: 2011-05-24 07:16:54 | Last updated: 2011-05-24 07:22:08

Title: The Multiple Networks of myExperiment Speaker: David De Roure Event: CCGrid 2011 Social Networks Workshop Event URL: http://www.ksri.kit.edu/Default.aspx?PageId=800&lang=de Location: Newport Beach, CA, US Date: Monday, May 23, 2011 Formats: ..pptx

1 item in this pack

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Adam Woznica

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Data mining on KUP data

Created: 2011-05-23 12:35:37 | Last updated: 2011-05-24 12:31:58

Various Rapid Miner workflows and R scripts that analyse and visualize KUP-related data extracted from the KUP knowledge base.

9 items in this pack

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Kalai

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Natural product likeness filter

Created: 2011-05-13 19:35:39 | Last updated: 2011-08-29 14:25:47

Reference: Natural Product-likeness Score and Its Application for Prioritization of Compound Libraries Peter Ertl,* Silvio Roggo, and Ansgar Schuffenhauer Novartis Institutes for BioMedical Research, CH-4002 Basel, Switzerland http://peter-ertl.com/reprints/Ertl-JCIM-48-68-2008.pdf The natural product likeness scorer implemented by Peter Ertl was originally devised to screen large compound libraries for natural product likeness in drug designing studies. His work...

3 items in this pack

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James Eales

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Article title classification: kidney factomics

Created: 2011-04-21 15:20:20 | Last updated: 2011-12-13 16:02:52

This pack contains files relevant to our work on extracting facts from article titles

7 items in this pack

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Will Francis

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This is Will's test pack

Created: 2011-03-08 04:31:38 | Last updated: 2011-03-08 04:31:39

This is a test.

0 items in this pack

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Paolo

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Taverna-eScience Central integration demo

Created: 2011-02-25 08:59:23 | Last updated: 2011-02-25 09:06:48

Taverna workflow with embedded eSC workflow. See here for documentation on how to make this work

2 items in this pack

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Paul Fisher

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Trichuriasis induced Colitis

Created: 2011-02-16 12:49:21 | Last updated: 2011-02-16 15:26:36

This pack contains the workflows and data relating to Trichuriasis induced colitis.

5 items in this pack

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Tags:

annotation
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chromosome
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controlled vocabulary
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cosine vector space
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data integration
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data-driven
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dresden
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efetch
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enrichment
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ensembl
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entity recognition
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esearch
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evidence
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gene expression
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gene identifier
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genotype
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kegg
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Kegg Pathways
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KeggID
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literature
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loci
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locus
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medline
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microarray
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mining
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pathway
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pathway-driven
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phenotype
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pubmed
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qtl
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quanitative
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ranking
|
re-use
|
significance
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term
|
term extraction
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terms
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text
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text mining
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text mining; term extraction; entity recognition
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trait
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trichuris muris

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Lolwut

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LOLUWT

Created: 2011-02-10 07:45:27

ahha

0 items in this pack

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David De Roure

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Presentation - myExperiment Architecture

Created: 2011-02-06 14:43:39 | Last updated: 2011-02-06 18:32:37

Title: myExperiment Architecture Speaker: David De Roure Event: Wf4Ever Architecture Task Force First Face to Face Meeting Event URL: http://www.wf4ever-project.org/ Location: Oxford UK Date: Monday February 7, 2011 Formats: .ppt

2 items in this pack

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Alan Williams

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Example R workflows

Created: 2010-12-13 10:44:04 | Last updated: 2010-12-13 16:28:58

Small workflows illustrating how R can be used within Taverna services

10 items in this pack

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example
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r
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starter

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David De Roure

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Presentation - Why Linked Data is Not Enough for Sci...

Created: 2010-12-09 22:18:43 | Last updated: 2010-12-10 01:58:30

Title: Why Linked Data is Not Enough for Scientists Speaker: David De Roure Event: Sixth IEEE e–Science Conference Event URI: http://www.escience2010.org Location: Brisbane, Australia Date: Friday, December 10, 2010 Formats: .ppt

2 items in this pack

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David De Roure

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Presentation - The Evolution of myExperiment

Created: 2010-12-09 05:11:17 | Last updated: 2010-12-09 05:49:11

Title: The Evolution of myExperiment Speaker: David De Roure Event: Sixth IEEE e–Science Conference Event URI: http://www.escience2010.org Location: Brisbane, Australia Date: Thursday, December 9, 2010 Formats: .ppt and .pptx

2 items in this pack

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Paul Fisher

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Text Mining Workflows

Created: 2010-12-08 11:55:03 | Last updated: 2011-02-01 11:33:11

This pack contains workflows to navigate from candidate Quantitative Trait genes and pathways to a given phenotype.

5 items in this pack

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Tags:

concept profile
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cosine vector space
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data-driven
|
efetch
|
entity recognition
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esearch
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gene
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gene identifier
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geneid
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genes
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genotype
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kegg
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Kegg Pathways
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KeggID
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literature
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loci
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locus
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ncbi
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pathway
|
pathway-driven
|
pathways
|
phenotype
|
pubmed
|
qtl
|
quanitative
|
ranking
|
space
|
term
|
term extraction
|
terms
|
text
|
text mining
|
text mining; term extraction; entity recognition
|
trait
|
vector

Creator

David De Roure

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wf4ever slides

Created: 2010-12-02 09:52:26 | Last updated: 2010-12-02 10:16:34

Slides for wf4ever kickoff meeting

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Gavin Kennedy

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My Pack

Created: 2010-11-23 05:04:05 | Last updated: 2010-11-23 05:04:06

This is my first pack

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Mahdie

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grid

Created: 2010-11-16 07:04:22

grid computing

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David De Roure

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Presentation - The Evolution of e-Research: Machines...

Created: 2010-10-28 07:09:43 | Last updated: 2010-10-29 01:20:15

Title: The Evolution of e-Research: Machines, Methods and Music Speaker: David De Roure Event: Oxford e-Research Centre Open Day 2010 Event URL: http://www.oerc.ox.ac.uk/events/ddr-inaugural Location: Oxford, UK Date: Thursday October 28, 2010 Formats: .ppt and .pptx

3 items in this pack

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David De Roure

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Presentation - Collaboration and Sharing of Computat...

Created: 2010-10-21 20:16:46 | Last updated: 2010-10-21 20:19:25

Title: Collaboration and Sharing Computational Research Methods Speaker: Carole Goble Event: JISC Future of Research Conference 2010 Event URL: http://jiscres10.jiscinvolve.org/wp/ Location: Congress Centre, London Date: Tuesday October 19, 2010 Formats: .ppt

3 items in this pack

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Rapido

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Compare SVM, Linear Regression, Linear Discriminant ...

Created: 2010-10-21 16:56:37 | Last updated: 2010-10-21 18:20:19

Compare SVM, Linear Regression, Linear Discriminant Analysis with AUC as Performance

3 items in this pack

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David De Roure

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Presentation - MyExperimentalScience, extending the ...

Created: 2010-10-17 15:54:22 | Last updated: 2010-10-17 15:56:54

Title: MyExperimentalScience, extending the "workflow" Speaker: Jeremy Frey Event: Microsoft eScience Workshop 2010 Event URL: http://research.microsoft.com/en-us/events/escience2010/ Location: Berkeley, California Date: Tuesday October 12, 2010 Formats: .ppt and .pptx

2 items in this pack

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David De Roure

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Presentation - Data Intensive Research in Computati...

Created: 2010-10-17 15:49:17 | Last updated: 2010-10-17 16:07:51

Title: Data Intensive Research in Computational Musicology Speaker: David De Roure Event: Microsoft eScience Workshop 2010 Event URL: http://research.microsoft.com/en-us/events/escience2010/ Location: Berkeley, California Date: Tuesday October 12, 2010 Formats: .ppt and .pptx

2 items in this pack

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David De Roure

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Why Linked Data is Not Enough for Scientists

Created: 2010-10-08 14:52:36 | Last updated: 2010-12-09 22:20:39

Abstract—Scientific data stands to represent a significant portion of the linked open data cloud and science itself stands to benefit from the data fusion capability that this will afford. However, simply publishing linked data into the cloud does not necessarily meet the requirements of reuse. Publishing has requirements of provenance, quality, credit, attribution, methods in order to provide the reproducibility that allows validation of results. In t...

6 items in this pack

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David De Roure

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Presentation - Glimpses of future research practice:...

Created: 2010-10-07 02:28:52 | Last updated: 2010-10-07 06:39:13

Title: Glimpses of future research practice: a musical study Speaker: David De Roure Event: e-Research Roundtable, Graduate School of Library and Information Science (GSLIS), University of Illinois at Urbana-Champaign Event URL: Location: University of Illinois at Urbana-Champaign, Illinois, USA Date: Wednesday, October 6, 2010 Formats: .ppt and .pptx

2 items in this pack

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David De Roure

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Presentation - The Long Tail Scientist

Created: 2010-09-17 23:43:02 | Last updated: 2010-09-18 15:10:30

Title: The Long Tail Scientist Speaker: Carole Goble Event: UK e-Science All Hands Meeting 2010 Event URL: http://www.allhands.org.uk/events/all-hands-meeting-2010 Location: Cardiff, UK Date: Thursday, September 17, 2010 Formats: .ppt

2 items in this pack

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David De Roure

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Papers authored by David De Roure in DBLP

Created: 2010-09-08 14:33:48 | Last updated: 2010-09-08 15:02:07

This pack contains my papers listed in DBLP at 2010-09-07. The individual pack items are resources which begin http://dblp.l3s.de/d2r/resource/publications/ For a list on the DBLP site itself use the search http://www.informatik.uni-trier.de/~ley/db/indices/a-tree/r/Roure:David_De.html

124 items in this pack

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David De Roure

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Example Pack of 50 Papers authored by David De Roure...

Created: 2010-09-08 08:08:55 | Last updated: 2010-09-08 14:46:48

This pack contains an arbitrary selection of 50 of my papers listed in DBLP at 2010-09-07. The individual pack items are resources which begin http://dblp.l3s.de/d2r/resource/publications/ This pack is provided for demonstration purposes. A complete pack with all my DBLP publications can be found in Pack 144 or http://www.myexperiment.org/packs/144. For a list on the DBLP site itself use the search http://www.informatik.uni-trier.de/~ley/db/indices/a-tree/r/Roure:Davi...

50 items in this pack

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David De Roure

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all myExperiment team papers

Created: 2010-09-07 23:54:56 | Last updated: 2010-09-08 00:38:03

Preprints of myExperiment papers on the EPrints server http://eprints.ecs.soton.ac.uk/

23 items in this pack

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David De Roure

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Presentation - The Evolution of e-Research

Created: 2010-08-24 10:11:36 | Last updated: 2010-08-25 08:10:36

Title: The Evolution of e-Research Speaker: David De Roure Event: e-Research eXPO2010 Event URI:http://www.monash.edu.au/eresearch/events/e-xpo/2010/ Location: Monash, Australia Date: Wednesday, August 25, 2010 Formats: .ppt and .ppt

3 items in this pack

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David De Roure

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Presentation - Integrating, Representing and Reasoni...

Created: 2010-08-10 13:48:11 | Last updated: 2010-08-10 13:50:31

Title: Integrating, Representing and Reasoning over Human Knowledge in myExperiment Speaker: David De Roure Event: IEEE e-Science 2009 Event URL: http://www.icis.anl.gov/programs/summer-4 Location: Snowbird, Utah, US Date: Tuesday August 10, 2010 Formats: .ppt

1 item in this pack

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Peter Li

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Example PubChem, ChEBI and ChemSpider workflows

Created: 2010-07-23 11:13:09 | Last updated: 2010-07-23 11:21:05

This pack contains example pipelines showing how the PubChem, ChEBI and ChemSpider web services can be called from Taverna workflows. Descriptions of the operations found in the PubChem, ChEBI and ChemSpider web services are available at http://www.taverna.org.uk/introduction/related-projects/chemtaverna/chemistry-web-services.

40 items in this pack

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Alex Nenadic

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Chemistry Web service set

Created: 2010-07-20 13:16:40 | Last updated: 2010-09-07 09:31:40

Chemistry service set contains a set of Web services for chemistry provided by ChemSpider, ChEBI and PubChem. Services' descriptions and example workflows can be found at: http://www.taverna.org.uk/introduction/related-projects/chemtaverna/chemistry-web-services/ You can add this set of services to the list of available services in the Service Panel in the Taverna Workbench by right clicking on "Available Services" and selecting "Import services". The service set...

2 items in this pack

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service set

Creator

David Withers

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Spreadsheet Import Service Example

Created: 2010-07-13 11:27:55 | Last updated: 2010-07-13 11:37:14

Example workflow showing how to use the SpreadsheetImport service

2 items in this pack

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Anja Le Blanc

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ICS Use Case Solutions

Created: 2010-07-12 13:54:16 | Last updated: 2010-07-13 10:57:46

Workflows and result sets of the ICS use cases: Find the instruments (in each case) that are capable of making: in-situ observations in-situ magnetic field observations images in soft X-rays (sxr) and (logical or) extreme ultra violet (euv) ground-based coronagraph observations in-situ observation near Mars

1 item in this pack

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Alex Nenadic

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NCBI Entrez Utilities Web service set

Created: 2010-07-06 14:17:35 | Last updated: 2010-07-22 13:17:33

NCBI Entrez Utilities Web service set provides access to EGQuery, ESummary, EInfo, ELink, ESearch, ESpell, EPost and EFetch utilities. Services' descriptions can be found at the NCBI's Web site at: http://www.ncbi.nlm.nih.gov/entrez/query/static/esoap_help.html You can add this set of services to the list of available services in the Service Panel in the Taverna Workbench by right clicking on "Available Services" and selecting "Import services". The service set can eith...

2 items in this pack

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service set

Creator

David De Roure

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Presentation - Repositories and Linked Open Data: th...

Created: 2010-07-06 08:05:27 | Last updated: 2010-07-06 11:41:18

Title: Repositories and Linked Open Data: the view from myExperiment Speaker: David De Roure Event: Open Repositories 2010 Event URL: http://or2010.fecyt.es/ Location: Madrid, Spain Date: Tuesday July 6, 2010 Formats: .pptx

2 items in this pack

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Kkollara

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test

Created: 2010-06-22 14:27:37 | Last updated: 2010-08-18 16:46:31

jnkj k k k k k

2 items in this pack

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BioAID

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Paolo

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PC1 mockup part A

Created: 2010-06-21 09:42:44 | Last updated: 2010-06-21 16:17:25

part 1 of 2 for the PC1 workflow -- mockup version. Includes OPM graph in RDF and XML

2 items in this pack

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Leidou

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comad biomoby demo workflow

Created: 2010-06-15 19:48:35 | Last updated: 2010-06-15 19:48:51

It contains workflows to implement some biological analysis function by accessing the BioMoby service. The configurability of the comad actor is demonstrated. Thousands of BioMoby services could be modeled by one comad actor.

2 items in this pack

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Leidou

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comad simple demo workflow

Created: 2010-06-15 19:40:19 | Last updated: 2010-06-15 19:41:35

It contains a group of simple workflows to show various basic concepts of comad, including how to build your first comad workflow, how to use the composite coactor, creation, port reference and deletion (filter) syntax in comad path expression, and how to use user defined type and type alias.

8 items in this pack

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Leidou

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comad comet demo workflow

Created: 2010-06-15 18:31:20 | Last updated: 2010-06-15 19:23:27

It contains workflows to demonstrate the neat linear workflow structure got from comad. And the streaming mode and high adaptability (reusability) of the actor to the workflow with different data structure are also showed.

4 items in this pack

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