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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Working with BioVel Portal

Created: 2013-12-04 15:20:31

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Uploading and running your workflows in the BioVel Portal - tutorial.

File type: PowerPoint 2007 presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob RShell Exercise for the BioVel Workshop

Created: 2013-12-04 15:18:47 | Last updated: 2013-12-04 15:19:27

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Exercise to practice using RShell Service.

File type: PowerPoint presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Spreadsheet file with data for the species workflow

Created: 2013-12-04 12:09:18 | Last updated: 2013-12-04 12:16:25

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A sample spreadsheet file including species names to be used as input file for the Introduction to the Taverna Workbench tutorial.

File type: Excel workbook

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Introduction to myExperiment

Created: 2013-12-03 23:51:21 | Last updated: 2013-12-04 12:29:24

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to myExperiment - short tutorial.

File type: PowerPoint presentation

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3366?size=60x60 Gb Norman Morrison
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Blob R Exercise Worm Gen Matrix Data

Created: 2013-12-03 22:27:23

Credits: User Norman Morrison User Daniel Pass

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Data provided by Daniel Pass, Cardiff University

File type: text/csv

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3366?size=60x60 Gb Norman Morrison
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Blob R Exercise Site Info Data

Created: 2013-12-03 22:25:21 | Last updated: 2013-12-03 22:26:11

Credits: User Daniel Pass

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Data provided by Daniel Pass, Cardiff University

File type: text/csv

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3366?size=60x60 Gb Norman Morrison
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Blob R Exercise NMDS R Script

Created: 2013-12-03 22:21:30

Credits: User Norman Morrison User Daniel Pass

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This R Script was authored by Daniel Pass, Cardiff University, UK3rd December 2013 

File type: Plain text

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1217?size=60x60 Gb Alan Williams
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Blob Example Newick file

Created: 2013-12-02 20:05:47

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A file containing example Newick format data

File type: Plain text

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Spreadsheet file with data for the species workflow ...

Created: 2013-11-28 19:47:35 | Last updated: 2013-12-05 13:56:23

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Second spreadsheet file to be used for the Introduction to Taverna Workbench tutorial.

File type: Excel workbook

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Data file for workflow retrieving species occurrence

Created: 2013-11-28 19:20:04 | Last updated: 2013-12-04 16:24:05

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Second data text file to be used for the Introduction to Taverna Workflows tutorial.

File type: Plain text

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Data file for workflow retrieving species occurrence

Created: 2013-11-28 17:28:19 | Last updated: 2013-12-04 16:24:20

Credits: User Aleksandra Pawlik

License: Creative Commons Attribution-Share Alike 3.0 Unported License

The second sample data file to be used for the Introduction to Taverna Workbench tutorial.

File type: Plain text

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Avatar Gb Robert Muetzelfeldt
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Blob test1

Created: 2013-11-18 23:21:33

Credits: User Robert Muetzelfeldt

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is a test html file

File type: htm

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4130?size=60x60 Gb LissaCo...
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Blob Health and Nutrition

Created: 2013-11-16 09:16:13

Credits: User LissaCoffey

License: Creative Commons Attribution-Share Alike 3.0 Unported License

  Today's busy lifestyles demand fresh approaches to learning. Health eLearning offers continuing education modules that take just half an hour of your time. As well, our interactive approach will make Health eLearning your first choice for professional education.The best education is what you can put into practice. Health eLearning provides tools to share with patients, including handouts and medical screening devices. Pharmacies will find everything needed for in-store clinics...

File type: PNG image

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Avatar Miznokruge
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Blob LR Software effort

Created: 2013-09-17 08:31:50

Credits: User Miznokruge

License: Creative Commons Attribution-Share Alike 3.0 Unported License

can someone please help me, which values is as RMSE value?root_mean_squared_error: 2722.680 +/- 1323.104 (mikro: 3011.469 +/- 0.000) is 2722.680 mean 2722.680% ?thanks

File type: JPEG image

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Introduction to Taverna Online & Interaction

Created: 2013-09-06 09:04:41

Credits: User Aleksandra Pawlik User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is an introductory tutorial for Taverna Online and Interaction service. To be used for the workshop at Bonn University 4-6 September 2013

File type: PowerPoint presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Introduction to Taverna Components - Bonn 2013

Created: 2013-09-06 07:39:49

Credits: User Aleksandra Pawlik User Stian Soiland-Reyes User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is an introductory tutorial about Taverna Components to be used for the workshop at Bonn University 4-6 September 2013. Please note that as components are still under development some details presented in this tutorial may change in the future.

File type: PowerPoint 2007 presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob XPath service Tutorial

Created: 2013-09-05 12:26:15

Credits: User Katy Wolstencroft User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

XPath Service tutorial to be used for the workshop at Bonn University, 4-6 September 2013

File type: PowerPoint presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob REST Service Tutorial

Created: 2013-09-05 12:12:56

Credits: User Katy Wolstencroft User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

REST Services Tutorial to be used for the workshop at Bonn University 2013

File type: PowerPoint presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Shims and Beanshells - tutorial

Created: 2013-09-05 09:49:45

Credits: User Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Shims and Beanshell - introductory tutorial for the workshop at Bonn University 2013

File type: PowerPoint presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob RShell tutorial

Created: 2013-09-05 09:46:43

Credits: User Peter Li

License: Creative Commons Attribution-Share Alike 3.0 Unported License

RShell Tutorial by Peter Li - to be used for the workshop at Bonn University, 4-6 September 2013

File type: PowerPoint presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Introduction to Taverna -part2 - Bonn 2013

Created: 2013-09-03 22:28:51

Credits: User Katy Wolstencroft User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to Taverna workflows: myExperiment, nested workflows, Spreadsheet import, BioMart, exploring workflow engine. This is a tutorial for the workshop at Bonn University 4-6 September 2013

File type: PowerPoint presentation

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4059?size=60x60 Gb Aleksandra Pawlik
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Blob Introduction to Taverna - Bonn 2013

Created: 2013-09-03 20:22:55

Credits: User Katy Wolstencroft User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Introduction to building workflows with Taverna - tutorial for the workshop at Bonn University, 4-6 September 2013

File type: PowerPoint presentation

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3185?size=60x60 Gb Alex Hardisty
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Blob Empty profile

Created: 2013-09-03 10:04:03 | Last updated: 2015-02-03 12:07:53

License: Creative Commons Attribution-No Derivative Works 3.0 Unported License

A basic empty profile that does not allow additional semantic annotation

File type: Taverna Component Profile

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Avatar Gb Robert Muetzelfeldt
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Blob Systo diagram widget

Created: 2013-09-02 23:05:28 | Last updated: 2013-09-18 20:27:41

Credits: User Robert Muetzelfeldt

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Test - Systo diagram widgetSee http://www.systo.org to find out more about Systo.

File type: JavaScript

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Avatar Gb Robert Muetzelfeldt
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Blob Miniworld model as a Javascript object literal

Created: 2013-09-02 22:59:00 | Last updated: 2013-09-02 22:59:26

Credits: User Robert Muetzelfeldt

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Miniworld model

File type: JavaScript

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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

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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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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. 

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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. 

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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. 

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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. 

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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. 

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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. 

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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. 

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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. 

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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. 

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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.

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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.

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 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.

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