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Difference between revisions of "ISMB/ECCB 2011"

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(→‎Events, Talks, and Posters)
(→‎Events, Talks, and Posters)
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| colspan="3" | '''[http://www.open-bio.org/wiki/BOSC_2011 BOSC: The 12th Annual Bioinformatics Open Source Conference]'''
 
| colspan="3" | '''[http://www.open-bio.org/wiki/BOSC_2011 BOSC: The 12th Annual Bioinformatics Open Source Conference]'''
 
|-
 
|-
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: Enacting Taverna Workflows through [[Galaxy]], Marco Roos
 
: Enacting Taverna Workflows through [[Galaxy]], Marco Roos
 
| [[Galaxy]]
 
| [[Galaxy]]
−
|  
+
|
 
|-
 
|-
 
|
 
|
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: [[InterMine]] - Using RESTful Webservices for Interoperability, [[User:Alexkalderimis|Alex Kalderimis]]  
+
: [[InterMine]] - Using RESTful Webservices for Interoperability, [[User:Alexkalderimis|Alex Kalderimis]]
 
| [[InterMine]]
 
| [[InterMine]]
 
|
 
|
 
|-
 
|-
−
|  
+
|
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: [[BioMart]] 0.8 offers new tools, more interfaces, and increased flexibility through plug-ins, [[User:Junjun|Junjun Zhang]]  
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: [[BioMart]] 0.8 offers new tools, more interfaces, and increased flexibility through plug-ins, [[User:Junjun|Junjun Zhang]]
 
| [[BioMart]]
 
| [[BioMart]]
 
|
 
|
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: The [[Galaxy]] Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool, Jeremy Goecks
 
: The [[Galaxy]] Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool, Jeremy Goecks
 
| [[Galaxy]]
 
| [[Galaxy]]
−
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|-
 
|-
 
|
 
|
 
: [[WebApollo]]: A web-based sequence annotation editor for community annotation, Nomi Harris
 
: [[WebApollo]]: A web-based sequence annotation editor for community annotation, Nomi Harris
 
| [[WebApollo]]
 
| [[WebApollo]]
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+
|
 
|-
 
|-
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: Enabling NGS Analysis with(out) the Infrastructure, Enis Afgan
 
: Enabling NGS Analysis with(out) the Infrastructure, Enis Afgan
 
| [[Galaxy]]
 
| [[Galaxy]]
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|-
 
|-
 
|
 
|
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: SADI for GMOD: Bringing Model Organism Data onto the Semantic Web, Ben Vandervalk  
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: SADI for GMOD: Bringing Model Organism Data onto the Semantic Web, Ben Vandervalk
 
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: What's new with GMOD, [[User:Scott|Scott Cain]]
 
: What's new with GMOD, [[User:Scott|Scott Cain]]
 
| [[GMOD Components]]
 
| [[GMOD Components]]
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|-
 
|-
 
! colspan="6" |
 
! colspan="6" |
 
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|-
 
! Sunday<br />17 July
 
! Sunday<br />17 July
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| 10:45-12:40
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| [http://www.iscb.org/ismbeccb2011-program/workshops ISMB/ECCB Workshops]
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| [http://www.iscb.org/ismbeccb2011-program/workshops#w1 W1: Bioinformatics Core Facilities].
−
|
+
 
 +
Includes a talk by Brad Chapman on their use of [[Galaxy]] at the Harvard School of Public Health
 +
| [[Galaxy]]
 
|
 
|
 
|-
 
|-
 
! colspan="6" |
 
! colspan="6" |
 
|-
 
|-
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! Monday<br />18 July
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! rowspan="3" | Monday<br />18 July
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| 12:15-12:40
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|
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| [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/technologytrack.php ISMB/ECCB Tech Track]
−
|
+
| TT23: Enacting Taverna Workflows through Galaxy, Kostas Karasavvas, NBIC - LUMC
 +
| [[Galaxy]]
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| [http://www.iscb.org/uploaded/css/82/22437.pdf Abstract]
 +
|-
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| rowspan="2" | 12:40-14:30
 +
| rowspan="2" | [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/posterlist.php ISMB/ECCB Poster Presentations, Odd]
 +
| V7: SymD server: a platform for detecting internally symmetric protein structures, Chin-Hsien (Emily) Tai, ''et al.'', National Cancer Institute
 +
| [[Galaxy]]
 
|
 
|
 +
|-
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| J43: Statistical Tests for Detecting Differential RNA-Transcript Expression from Read Counts, Philipp Drewe, ''et al.'' Friedrich Miescher Laboratory of the Max Planck Society
 +
| [[Galaxy]]
 
|
 
|
 
|-
 
|-
 
! colspan="6" |
 
! colspan="6" |
 
|-
 
|-
−
! Tuesday<br />19 July
+
! rowspan="7" | Tuesday<br />19 July
 +
| 10:45-11:10
 +
| [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/technologytrack.php ISMB/ECCB Tech Track]
 +
| TT37: NGS Best Practices through [[Galaxy]]: Cloud-based variant discovery with visual analytics, [[User:DanB|Daniel Blankenberg]], Penn State University
 +
| [http://www.iscb.org/uploaded/css/82/22442.pdf Abstract]
 +
|-
 +
| 12:15-12:40
 +
| [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/proceedings.php ISMB/ECCB Proceedings]
 +
| PT40: From Sets to Graphs: Towards a Realistic Enrichment Analysis of Transcriptomic Systems, Ludwig Geistlinger, LMU München
 +
| [[Galaxy]]
 +
|
 +
|-
 +
| 12:40-14:30
 +
| [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/posterlist.php ISMB/ECCB Poster Presentations, Even]]
 +
| Z04: CADDSuite: A flexible and open framework and workflow system for computer-aided drug design, Marcel Schumann and Marc Röttig, University of Tuebingen
 +
| [[Galaxy]]
 +
|
 +
|-
 
| 14:30-16:25
 
| 14:30-16:25
 
| [http://www.iscb.org/ismbeccb2011-program/workshops Workshops]
 
| [http://www.iscb.org/ismbeccb2011-program/workshops Workshops]
−
| [http://www.iscb.org/ismbeccb2011-program/workshops#w6 Genomics for Non-Model Organisms], [[User:Clements|Dave Clements]]
+
| [http://www.iscb.org/ismbeccb2011-program/workshops#w6 W6: Genomics for Non-Model Organisms], [[User:Clements|Dave Clements]]
 +
: This [[Galaxy]] organized workshop features these talks:
 +
:: 14:30-14:55: Using RAD-seq for genomic and transcriptomic studies of non-model organisms, Julian Catchen, University of Oregon
 +
:: 15:00-15:25: Using RNA-seq for gene annotation, quantitation, and function in non-model organisms, Jeremy Goecks, Emory University
 +
:: 15:00-15:55: TBD
 +
:: 16:00-16:25: Repeatable plant pathology bioinformatic analysis: not everything is NGS data, Peter Cock, James Hutton Institute
 
| [[Galaxy]]
 
| [[Galaxy]]
 
|
 
|
 +
|-
 +
| 14:30-14:55
 +
| [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/technologytrack.php ISMB/ECCB Tech Track]
 +
| TT48: Oqtans: A Galaxy-integrated workflow for Quantitative Transcriptome Analysis from NGS data, Géraldine Jean and Sebastian J. Schultheiss, Friedrich Miescher Laboratory of Max Planck Society
 +
| [[Galaxy]]
 +
| [http://www.iscb.org/uploaded/css/82/22477.pdf Abstract]
 +
|-
 +
| 14:30-14:55
 +
| [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/technologytrack.php ISMB/ECCB Tech Track]
 +
| TT24: EMBOSS: New developments and extended data access, Peter Rice, European Bioinformatics Institute
 +
| [[Galaxy]]
 +
| [http://www.iscb.org/uploaded/css/82/22410.pdf Abstract]
 +
|-
 +
| 16:00-16:25
 +
| [https://www.iscb.org/cms_addon/conferences/ismbeccb2011/technologytrack.php ISMB/ECCB Tech Track]
 +
| TT59: The [[Galaxy]] Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool, Jeremy Goecks, Emory University
 +
: Note: we are trying to reschedule this to an earlier time.
 +
| [[Galaxy]]
 +
| [http://www.iscb.org/uploaded/css/82/22435.pdf Abstract]
 
|-
 
|-
 
|}
 
|}
  
 
[[Category:Conferences]]
 
[[Category:Conferences]]

Revision as of 00:08, 1 July 2011


ISMB/ECCB 2011

ISMB/ECCB 2011 will be held July 15-19 in Vienna Austria. Several other events, such at the Functional Genomics Data Society Meeting and RECOMB-BE will be held before and after ISMB.

GMOD will once again have a strong presence at these events.

Events, Talks, and Posters

Please add your items to this list as they are scheduled.

Day Time Track Title & Presenter/Organizer Components Slides / Poster
Fri-Sat
15-16 July 		8:30-18:00 Satellites BOSC: The 12th Annual Bioinformatics Open Source Conference
Enacting Taverna Workflows through Galaxy, Marco Roos
Galaxy
InterMine - Using RESTful Webservices for Interoperability, Alex Kalderimis
InterMine
BioMart 0.8 offers new tools, more interfaces, and increased flexibility through plug-ins, Junjun Zhang
BioMart
The Galaxy Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool, Jeremy Goecks
Galaxy
WebApollo: A web-based sequence annotation editor for community annotation, Nomi Harris
WebApollo
Enabling NGS Analysis with(out) the Infrastructure, Enis Afgan
Galaxy
SADI for GMOD: Bringing Model Organism Data onto the Semantic Web, Ben Vandervalk
What's new with GMOD, Scott Cain
GMOD Components
Sunday
17 July 		10:45-12:40 ISMB/ECCB Workshops W1: Bioinformatics Core Facilities.

Includes a talk by Brad Chapman on their use of Galaxy at the Harvard School of Public Health

Galaxy
Monday
18 July 		12:15-12:40 ISMB/ECCB Tech Track TT23: Enacting Taverna Workflows through Galaxy, Kostas Karasavvas, NBIC - LUMC Galaxy Abstract
12:40-14:30 ISMB/ECCB Poster Presentations, Odd V7: SymD server: a platform for detecting internally symmetric protein structures, Chin-Hsien (Emily) Tai, et al., National Cancer Institute Galaxy
J43: Statistical Tests for Detecting Differential RNA-Transcript Expression from Read Counts, Philipp Drewe, et al. Friedrich Miescher Laboratory of the Max Planck Society Galaxy
Tuesday
19 July 		10:45-11:10 ISMB/ECCB Tech Track TT37: NGS Best Practices through Galaxy: Cloud-based variant discovery with visual analytics, Daniel Blankenberg, Penn State University Abstract
12:15-12:40 ISMB/ECCB Proceedings PT40: From Sets to Graphs: Towards a Realistic Enrichment Analysis of Transcriptomic Systems, Ludwig Geistlinger, LMU München Galaxy
12:40-14:30 ISMB/ECCB Poster Presentations, Even] Z04: CADDSuite: A flexible and open framework and workflow system for computer-aided drug design, Marcel Schumann and Marc Röttig, University of Tuebingen Galaxy
14:30-16:25 Workshops W6: Genomics for Non-Model Organisms, Dave Clements
This Galaxy organized workshop features these talks:
14:30-14:55: Using RAD-seq for genomic and transcriptomic studies of non-model organisms, Julian Catchen, University of Oregon
15:00-15:25: Using RNA-seq for gene annotation, quantitation, and function in non-model organisms, Jeremy Goecks, Emory University
15:00-15:55: TBD
16:00-16:25: Repeatable plant pathology bioinformatic analysis: not everything is NGS data, Peter Cock, James Hutton Institute
Galaxy
14:30-14:55 ISMB/ECCB Tech Track TT48: Oqtans: A Galaxy-integrated workflow for Quantitative Transcriptome Analysis from NGS data, Géraldine Jean and Sebastian J. Schultheiss, Friedrich Miescher Laboratory of Max Planck Society Galaxy Abstract
14:30-14:55 ISMB/ECCB Tech Track TT24: EMBOSS: New developments and extended data access, Peter Rice, European Bioinformatics Institute Galaxy Abstract
16:00-16:25 ISMB/ECCB Tech Track TT59: The Galaxy Track Browser: Transforming the Genome Browser from Visualization Tool to Analysis Tool, Jeremy Goecks, Emory University
Note: we are trying to reschedule this to an earlier time.
Galaxy Abstract
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