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Showing 1243 results. Use the filters on the left and the search box below to refine the results.
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4185?size=60x60 Nl Eleni
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Blob workflow sketch Hd chromatin analysis

Created: 2013-08-30 12:01:45 | Last updated: 2013-11-04 19:18:11

Credits: User Eleni

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Sketch that demonstrates how the workflows of our chromatin analysis in HD are connected with each other, plus a short explanation for each one. 

File type: PNG image

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Nested UnigeneID_to_KEGG in Import and Convert

Created: 2013-08-29 14:09:53

Credits: User Katy Wolstencroft User Alan Williams User Paul Fisher

Attributions: Workflow UnigeneID to KEGG Pathways

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is an example of a nested workflow, created for the training purposes.

File type: Trident (Package)

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob GalaxyGeneList - long : datafile for training

Created: 2013-08-29 10:25:07

Credits: User Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Chip-Seq gene list example used for training purposes. This is the original version of the file  (approx 400 entries). Warning! Running this file in some workflows may  take up to 30 minutes! If you want to use it for training, you may want to reconsider and use the shorter version of the file which is also uploaded.

File type: Excel workbook

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob GalaxyGeneList - short : datafile for training

Created: 2013-08-29 10:20:47 | Last updated: 2013-08-29 10:22:02

Credits: User Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Chip-Seq gene list example used for training purposes. This is a shorter version of the file (20 entries) as running the original file (the longer one with approx 400 entries) takes up to 30 minutes.

File type: Excel workbook

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4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Stage Matrix of Gentiana pneumonanthe 1987-88

Created: 2013-08-13 12:17:28

Credits: User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

Attributions: Workflow Matrix Population Model analysis v12

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a .txt file of a stage matrix of the species: Gentiana pneumonanthe, collected and published by Gerard Oostermeijer (Instituut voor Biodiversiteit en Ecosysteem Dynamica (IBED), Universiteit van Amsterdam).This file allow users to run the workflow Matrix Population Model analysis v10 (http://www.myexperiment.org/workflows/3686.html) If you use the file please quote as:Oostermeijer, J.G.B. M.L. Brugman, E.R. de Boer; H.C.M. Den Nijs. 1996. Temporal and Spatial Varia...

File type: Plain text

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3689?size=60x60 Es Julian Garrido
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Blob Extended PDL description for AMIGA cone search service

Created: 2013-08-05 09:44:39 | Last updated: 2014-02-10 14:10:36

Credits: User Julian Garrido

License: Creative Commons Attribution-Share Alike 3.0 Unported License

PDL description file for the amiga catalog web service (cone search). This is an extended description where some columns from the resulting votable are also described as output of the service (even though the service only returns a VOTable).The following columns are considered as extended output:- RA J2000- DEC J2000- LB- V3K

File type: XML

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3689?size=60x60 Es Julian Garrido
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Blob PDL description for AMIGA cone search service

Created: 2013-08-01 09:24:29 | Last updated: 2014-02-11 10:36:12

Credits: User Julian Garrido

License: Creative Commons Attribution-Share Alike 3.0 Unported License

PDL description file for the amiga catalog web service (cone search).

File type: XML

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1217?size=60x60 Gb Alan Williams
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Blob Taverna 2.4 Tutorial

Created: 2013-07-17 11:02:49

Credits: User Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A tutorial for designing and executing workflows in Taverna

File type: PowerPoint presentation

Comments: 0 | Viewed: 23 times | Downloaded: 44 times

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1217?size=60x60 Gb Alan Williams
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Blob Species names

Created: 2013-07-16 14:55:56 | Last updated: 2013-07-16 14:56:06

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A list of species

File type: Trident (Package)

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3689?size=60x60 Es Julian Garrido
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Blob PDL description file for VAMDC collision service

Created: 2013-07-08 13:34:04 | Last updated: 2014-02-10 14:14:31

Credits: User Julian Garrido

License: Creative Commons Attribution-Share Alike 3.0 Unported License

PDL description file for VAMDC collision service

File type: XML

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Blob Big Data paper supplementary material ZIP archive

Created: 2013-06-19 07:44:10

Credits: User pinarpink

License: Creative Commons Attribution-Share Alike 3.0 Unported License

d

File type: ZIP archive

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Avatar My Mohd Saberi
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Blob A Method To Construct Gene Regulatory Networks To Es...

Created: 2013-06-10 06:56:01

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

S.P. Chai, M.S. Mohamad. A Method To Construct Gene Regulatory Networks To Estimate and Calculate Time Delay. (2013). Jurnal Teknologi. Vol. 62, No. 1, pp. 25-31. UTM Press. Indexed by SCOPUS. 

File type: Adobe PDF

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Blob Identifying Minimal Genomes and Essential Genes in M...

Created: 2013-05-31 03:04:59

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A.H.M. Salleh, M. S. Mohamad, S. Deris, R. M. Illias, “Identifying Minimal Genomes and Essential Genes in Metabolic Model Using Flux Balance Analysis”, The 5th Asian Conference on Intelligent Information and Database Systems (ACIIDS 2013), Istana Hotel, Kuala Lumpur, Malaysia, 18-20 March, 2013

File type: Adobe PDF

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Blob Multiple Gene Sets for Cancer Classification Using G...

Created: 2013-05-31 03:04:30

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

K. Moorthy, M.S. Mohamad, S. Deris, “Multiple Gene Sets for Cancer Classification Using Gene Range Selection Based on Random Forest”, The 5th Asian Conference on Intelligent Information and Database Systems (ACIIDS 2013), Istana Hotel, Kuala Lumpur, Malaysia, 18–20 March, 2013. 

File type: Adobe PDF

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Blob Using Bees Hill Flux Balance Analysis (BHFBA) for in...

Created: 2013-05-31 03:03:51

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Y. W. Choon, M. S. Mohamad, S. Deris, R. M. Illias, L. E. Chai, “Using Bees Hill Flux Balance Analysis (BHFBA) for in silico Microbial Strain Optimization”, The 5th Asian Conference on Intelligent Information and Database Systems (ACIIDS 2013), Istana Hotel, Kuala Lumpur, Malaysia, 18-20 March, 2013. 

File type: Adobe PDF

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Blob A Hybrid of Artificial Bee Colony and Flux Balance A...

Created: 2013-05-31 03:03:16

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

S.S Lee, Y.W. Choon, L.E. Chai, C.K. Chong, S. Deris, R.M. Illias, M.S. Mohamad, “A Hybrid of Artificial Bee Colony and Flux Balance Analysis for Identifying Optimum Knockout Strategies for Producing High Yields of Lactate in Echerichia Coli”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia, 27-28 February 2013. 

File type: Adobe PDF

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Blob Identifying Gene Knockout Strategy Using Bees Hill F...

Created: 2013-05-31 03:02:36

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Y.W. Choon, M.S. Mohamad, S. Deris, R.M. Illias, L.E. Chai, C.K. Chong, “Identifying Gene Knockout Strategy Using Bees Hill Flux Balance Analysis (BHFBA) for Improving the Production of Ethanol in Bacillus Subtilis”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

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Blob Prediction of Vanillin Production in Yeast Using a H...

Created: 2013-05-31 03:01:58

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

L.H. Yin, Y.W. Choon, L.E. Chai, C.K. Chong, S. Deris, R.M. Illias, M.S. Mohamad, “Prediction of Vanillin Production in Yeast Using a Hybrid of Continuous Bees Algorithm and Flux Balance Analysis (CBAFBA)”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

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Blob Inferring Gene Networks from Gene Expression Data Us...

Created: 2013-05-31 03:01:03

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

M.A. Mutalib, L.E. Chai, C.K. Chong, Y.W. Choon, S. Deris, R.M. Illias, M.S. Mohamad, “Inferring Gene Networks from Gene Expression Data Using Dynamic Bayesian Network with Different Scoring Metric Approaches”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

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Blob Using Particle Swarm Optimization for Estimating Kin...

Created: 2013-05-31 03:00:33

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

S.T. Ng, C.K. Chong, Y.W. Choon, L.E. Chai, S. Deris, R.M. Illias, M.S. Shamsir, M.S. Mohamad, “Using Particle Swarm Optimization for Estimating Kinetics Parameters on Essential Amino Acid Production of Arabidopsis Thaliana”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

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Blob Using Ant Colony Optimization (ACO) on Kinetic Model...

Created: 2013-05-31 03:00:05

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

N.F. Saidin, C.K Chong, Y.W. Choon, L.E. Chai, S. Deris, R.M. Illias, M.S Shamsir, M.S. Mohamad, “Using Ant Colony Optimization (ACO) on Kinetic Modeling of the Acetoin Production in Lactococcus Lactis C7”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

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Blob Inferring E. coli SOS Response Pathway from Gene Exp...

Created: 2013-05-31 02:59:33

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

L.E. Chai, M.S. Mohamad, S.Deris, C.K. Chong, Y.W. Choon, “Inferring E. coli SOS Response Pathway from Gene Expression Data Using IST-DBN with Time Lag Estimation”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia, 27-28 February 2013. 

File type: Adobe PDF

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Blob A Hybrid of SVM and SCAD with Group-specific Tuning ...

Created: 2013-05-31 02:58:54

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

M.F. Misman, W.H. Chan, M.S. Mohamad, S.Deris, “A Hybrid of SVM and SCAD with Group-specific Tuning Parameters in Identification of Informative Genes and Biological Pathways”, The First International Workshop on Data Analytics for Targeted Healthcare (DANTH 13), Gold Coast, Australia, 14-17 April 2013.

File type: Adobe PDF

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Blob Identifying Gene Knockout Strategy Using Bees Hill F...

Created: 2013-05-31 02:58:12

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Y.W. Choon, C.K. Chong, L.E. Chai, M.S. Mohamad, S.Deris, R.M Illias, “Identifying Gene Knockout Strategy Using Bees Hill Flux Balance Analysis  (BHFBA) for Improving the Production of Succinic Acid and Glycerol in Saccharomyces cerevisiae”, The First International Workshop on Data Analytics for Targeted Healthcare (DANTH 13), Gold Coast, Australia, 14-17 April 2013.

File type: Adobe PDF

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Blob A Constraint and Rule In an Enhancement of Binary Pa...

Created: 2013-05-31 02:57:36

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 M.S. Mohamad, S. Omatu, S. Deris, M. Yoshioka, “A Constraint and Rule In an Enhancement of Binary Particle Swarm Optimization To Select Informative Genes For Cancer Classification”, The First International Workshop on Data Analytics for Targeted Healthcare (DANTH 13), Gold Coast, Australia, 14-17 April 2013.

File type: Adobe PDF

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