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| Sunday |
August 6 |
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Room A
(2nd Floor) |
Room B1 |
Room B2 |
Room B3 |
Room B4 |
Room B5 |
Room E1 |
Room E2 |
Hall C |
Hall F |
| 7:30 a.m. - 6:00
p.m. |
Registration - Hall G |
| 8:30
a.m. - 10:30 a.m. |
Student
Council Symposium (SCS2) |
Tutorial
AM2: Genomes, Browsers and Databases: Tools For Automated
Data Integration Across Multiple Genomes, Peter Schattner |
Tutorial
AM4: Chemoinformatics, Pierre Baldi |
Tutorial
AM1: Biological Literature Mining – From Information Retrieval
to Biological Discovery, Lars Juhl Jensen |
Tutorial
AM3: Python Programming for Life Science Researchers, Sebastián
Bassi, Universidad Nacional De Quilmes |
Tutorial
AM7: Exploring Computational Biology with a Massively Parallel
High Performance Computing Environment, Kirk Jordan and Scott Emrich |
Tutorial
AM5: Computing Biological Function: Bioinformatics Approach
to the Analysis and Prediction of Protein Function, Yanay
Ofran and Marco Punta |
Tutorial
AM6: Integration and Analysis of Diverse Genomic Data, Olga
Troyanskaya |
Wireless Internet Available 7:30 a.m. - 6:00 p.m. |
Lunch Tutorial and SCS Ticket Holders - 12:30 p.m. - 2:00 p.m. |
| 10:30
a.m. - 10:45 a.m. |
Coffee Break - (available outside meeting rooms) |
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| 10:45
a.m. - 12:30 p.m. |
SCS2
Continued |
Tutorial
AM2 Continued |
Tutorial
AM4 Continued |
Tutorial
AM1 Continued |
Tutorial
AM3 Continued |
Tutorial
AM7 Continued |
Tutorial
AM5 Continued |
Tutorial
AM6 Continued |
| 12:30
p.m. - 2:00 p.m. |
Lunch for delegates attending Student Council Symposium, delegates attending
2 tutorials and Ticket Holders - Hall F |
| 2:00
p.m. - 4:00 p.m. |
SCS2
Continued |
Tutorial
PM11: Computational Biology Of Post-Transcriptional Gene
Regulation: At The Interplay Of Genomes, Networks And Evolution,
Uwe Ohler and Dirk Holste |
Tutorial
PM13: Protein-Protein Interactions: Structure and Systems
Approaches to Analyze Diverse Genomic Data, Anna
Panchenko and Benjamin Shoemaker |
|
Tutorial
PM10: Introduction to Computational Proteomics – Open Problems,
Jacques Colinge |
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Tutorial
PM8: Bayesian Networks For Bioinformatics: An Introduction
To Inference And Learning, Chris Needham
And James Bradford |
Tutorial
PM9: From Pathways Databases to Network Models, Baltazar
Aguda, and Andrew Goryachev |
| 4:00
p.m. - 4:15 p.m. |
Coffee
Break - (available outside meeting rooms) |
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| 4:15
p.m. - 6:00 p.m. |
SCS2
Continued |
Tutorial
PM11 Continued |
Tutorial
PM13 Continued |
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Tutorial
PM10 Continued |
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Tutorial
PM8 Continued |
Tutorial
PM9 Continued |
| 6:00
p.m. - 6:30 p.m. |
Shuttles depart Convention Center to Hotels |
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| Monday |
August 7 |
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Main Auditorium (Hall D) |
Room E1 |
Room E2 |
Room A (2nd Floor) |
Room B1 |
Room B2 |
Room B3 |
Hall G |
Hall C |
Hall F |
ISCB Committee Meetings |
| 7:30 a.m. - 7:30
p.m. |
Registration - Hall G |
Registration
& Posters |
Wireless Internet Available
7:30 a.m. - 9:00 p.m. |
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| 9:00
a.m. - 9:00 p.m. |
Posters on Display - Hall G |
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| 8:45
a.m. - 10:05 a.m. |
Opening Welcome and Introduction of Keynote 1 (Main Auditorium - Hall
D) |
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Exhibits
Open - 9:45 a.m - 5:15 p.m. |
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| 9:15
a.m. - 10:05 a.m. |
Keynote 1: Robert
Huber – Molecular machines for protein degradation
(Main Auditorium - Hall D) |
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| 10:05
a.m. - 10:30 a.m. |
Coffee Break
with Exhibitors - Hall C |
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Structural
Bioinformatics |
Database
and Data Integration |
Systsems
Biology |
Software
Demos |
Software
Demos |
Software
Demos |
Software
Demos |
|
Coffee Break 10:05 a.m. - 10:30 a.m. |
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| 10:30
a.m. - 10:55 a.m. |
Paper
1: ZPRED: Predicting the distance to the membrane center
for residues in alpha-helical membrane proteins Erik
Granseth, Hĺkan Viklund, Arne Elofsson |
Paper
2: An experimental metagenome data management and analysis
system Victor Markowitz, Natalia Ivanova, Krishna Palaniappan Ernest Szeto,
Frank Korzeniewski, Athanasios Lykidis, Iain Anderson, Konstantinos
Mavrommatis, Victor Kunin, Hector Garcia Martin, Inna Dubchak,
Phil Hugenholtz, Nikos Kyrpides |
Paper
3: Create and assess protein networks through molecular
characteristics of individual proteins Yanay
Ofran, Guy Yachdav, Eyal Mozes, Ta-tsen Soong, Rajesh Nair,
Burkhard Rost |
ArrayExpress |
Integrated
Microbial Genomes (IMG) System |
SSAHA2 |
GINsim:
a software for the qualitative modelling, analysis and simulation
of genetic regulatory networks |
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| 10:55
a.m. - 11:20 a.m. |
Paper
4: A combinatorial pattern discovery approach for the prediction
of membrane dipping (re-entrant) loops Gorka
Lasso, John Antoniw, Jonathan Mullins |
Paper
5: Distance based algorithms for small biomolecule classification
and structural similarity search Emre Karakoc,
Artem Cherkasov, S. Cenk Sahinalp |
Paper
6: Dense subgraph computation via stochastic search: application
to detect transcriptional modules Logan Everett,
Li-San Wang, Sridhar Hannenhalli |
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| 11:20
a.m. - 11:45 p.m. |
Paper
7: Comparative footprinting of DNA-binding proteins Bruno
Contreras-Moreira, Julio Collado-Vides |
Paper
8: springScape: Visualisation of microarray and contextual
bioinformatic data using spring embedding and an information
landscape Timothy Ebbels, Bernard Buxton,
David Jones |
Paper
9: A decompositional approach to parameter estimation in
pathway modeling: A case study of the Akt and MAPK pathways
and their crosstalk Geoffrey Koh, Huey Fern
Carol Teong, Marie-Veronique Clement, David Hsu, P S Thiagarajan |
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| 11:45
p.m. - 12:10 p.m. |
Paper
10: The iRMSD: A local measure of sequence alignment accuracy
using structural information
Fabrice Armougom, Sebastien Moretti,
Vladimir Keduas, Cedric Notredame |
Paper
11: SNP Function Portal: a web database for exploring the
function implication of SNP alleles Pinglang
Wang, Manhong Dai, Weijian Xuan, Richard C McEachin, Anne U
Jackson, Laura J Scott, Brian Athey, Stanley J. Watson, Fan
Meng |
Paper
12: Bistable Switching and Excitable Behaviour in the Activation
of Src at Mitosis Hendrik Fuß, Werner Dubitzky, Stephen Downes, Mary Jo Kurth |
Web
Services at the European Bioinformatics Institute |
HP/Synamatix:
Enhancement and Acceleration of Genome Assembly using Novel
Pattern Indexing and Retrieval Application |
Pygr,
the Python Graph Database Framework for Bioinfomatics |
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| 12:10
p.m. - 12:35 p.m. |
Paper
13: Improved pruning algorithms and divide-and-conquer strategies
for dead-end elimination, with application to protein design
Ivelin Georgiev, Ryan Lilien, Bruce Donald |
Paper
14: Integrating structured biological data by kernel Maximum
Mean Discrepancy Karsten Borgwardt, Arthur Gretton, Malte Rasch, Hans-Peter Kriegel,
Bernhard Schoelkopf, Alex Smola |
Paper
15: Identification of metabolic units induced by environmental
signals Jose Nacher, Jean-Marc Schwartz, Minoru Kanehisa, Tatsuya Akutsu |
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| 12:35
p.m. - 2:00 p.m. |
Lunch - Hall F |
ISCB
Open Business Meeting (12:45 p.m. - 1:45 p.m.) |
Birds
of a Feather Flock Together |
Birds
of a Feather Flock Together |
Birds
of a Feather Flock Together |
Birds
of a Feather Flock Together |
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Lunch 12:35 p.m. - 2:00 p.m. |
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| |
Structural
Bioinformatics (continued) |
Human
Health |
Systems
Biology (continued) |
Software
Demos |
Software
Demos |
Software
Demos |
Software
Demos |
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| 2:00
p.m. - 2:25 p.m. |
Paper
16: Modelling sequential protein folding under kinetic control
using hp lattice models Fabien Huard, Charlotte Deane, Graham Wood |
Paper
17: Predicting the prognosis of breast cancer by integrating
clinical and microarray data with Bayesian networks Olivier
Gevaert, Frank De Smet, Dirk Timmerman, Yves Moreau, Bart De
Moor |
Paper
18: Inferring functional pathways from multi-perturbation
data Nir Yosef, Alon Kaufman, Eytan Ruppin |
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| 2:25
p.m. - 2:50 p.m. |
Paper
19: A probabilistic approach to protein backbone tracing
in electron density maps Frank DiMaio, Jude Shavlik, George Phillips |
Paper
20: AClAP, Autonomous hierarchical agglomerative Cluster
Analysis based Protocol to partition conformational datasets
Giovanni Bottegoni, Walter Rocchia, Maurizio
Recanatini, Andrea Cavalli |
Paper
21: Dynamical analysis of a generic Boolean model for the
control of the mammalian cell cycle Adrien
Fauré, Aurélien Naldi, Claudine Chaouiya, Denis Thieffry |
EBI:
Text Mining |
TreeDomViewer:
A tool for the visualization of phylogeny and protein domain
structure |
PATIKAweb |
BioModels
Database |
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| 2:50
p.m. - 3:15 p.m. |
Paper
22: Learning MHC binding Nebojsa Jojic,
M. Reyes-Gomez, D. Heckerman, C. Kadie,
O. Furman-Schueler |
Paper
23: Integrating copy number polymorphisms into array CGH
analysis using a robust HMM Sohrab Shah, Xiang Xuan, Ron DeLeeuw, Mehrnoush Khojasteh, Wan
Lam, Raymond Ng, Kevin Murphy |
Paper
24: Computational inference of the molecular logic for synaptic
connectivity in C. elegans Vinay
Varadan, David Miller III, Dimitris Anastassiou |
|
Coffee Break 3:15 p.m. - 3:40 p.m. |
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| 3:15
p.m. - 3:40 p.m. |
Coffee Break
with Exhibitors - Hall C |
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| 3:40
p.m. - 4:05 p.m. |
New
Frontiers Panel Introduction and Session -
Chair, Goran Neshich, Embrapa/CNPTIA
Key Challenges in exploiting biomolecular data for Medicine
and Agriculture
Janet Thornton, European Bioinformatics
Institute, Wellcome Trust
Challenges for computational biology
Chris Sander, Memorial Sloan-Kettering
Cancer Center
|
Paper
25: Decoding non-unique oligonucleotide hybridization experiments
of targets related by a phylogenetic tree Alexander
Schliep, Sven Rahmann |
Paper
26: An integrative approach for causal gene identification
and gene regulatory pathway inference Zhidong
Tu, Li Wang, Michelle Arbeitman, Ting Chen, Fengzhu Sun |
Genome
Expression Pathway Analysis Tool (GEPAT) |
PIRSF
Protein Classification System (PCS) |
|
GenePro |
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| 4:05
p.m. - 4:30 p.m. |
PLoS
Track 1: Knowledge-Based Analysis of Genome-Wide SNP Scanning
Data Fan Meng |
Paper
27: An equilibrium partitioning model connecting gene expression
and cis-motif content Joe Mellor, Charles
DeLis |
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| 4:30
p.m. - 4:55 p.m. |
PLoS
Track 2: Datamining the Fourth Dimension from Crystal Structures:
Function-Structure-Entropy Relationships in Membrane Proteins Ilan Samish |
PLoS Panel: BioTermNet:
a system for biomedical text mining (Asako Koike), Imitating
manual curation of text-mined facts in biomedicine, Raul
Rodriguez-Esteban), SherLoc:
Comprehensive Prediction of Protein Subcellular Localization
by Integrating Clues from Sequence Data and the Literature
(Hagit Shatkay) |
|
Poster Session with Authors (Odd Numbers) & Reception - Hall
G 6:00 p.m. - 9:00
p.m. |
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|
ISCB
Public Affairs - Room B6 6:00 p.m. - 7:00 p.m.
ISCB Conferences Committee- Room VIP
- 6:00 p.m. - 7:00 p.m. |
| 4:55 p.m. - 5:00
p.m. |
Introduction
of Keynote 2 (Main Auditorium - Hall D) |
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| 5:00 p.m. - 5:50
p.m. |
Keynote
2: Tom Blundell - Structural biology, informatics and the discovery
of new medicines (Main Auditorium - Hall D) |
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| 6:00
p.m. - 9:00 p.m. |
Poster Session
with Authors (Odd Numbers) & Reception - Hall G |
|
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| 9:00
p.m. |
Shuttles depart Convention Center to Hotels |
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| Tuesday |
August 8 |
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|
Main Auditorium (Hall D) |
Room E1 |
Room E2 |
Room A (2nd Floor) |
Room B1 |
Room B2 |
Room B3 |
Hall G |
Hall C |
Hall F |
ISCB Committee Meetings |
| 7:30 a.m. - 7:30
p.m. |
Registration - Hall G |
Registration
& Posters |
Wireless Internet Available
7:30 a.m. - 9:00 p.m. |
|
|
| 9:00
a.m. - 9:00 p.m. |
Posters on
Display - Hall G |
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| 8:45
a.m. - 9:05 a.m. |
Morning Welcome, Promotion - ISMB/ECCB 2007 - Introduction of Keynote
3 (Main Auditorium - Hall D) |
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|
|
| 9:05
a.m. - 9:55 a.m. |
Keynote 3: Kurt
Wüthrich – Computational Aspects of NMR Studies with Proteins
in Solution (Main Auditorium - Hall D) |
|
Exhibits Open - 9:45 a.m. - 5:15 p.m. |
|
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| |
New Frontiers
Session |
Sequence
Analysis |
Molecular
and Supramolecular Dynamics (1) Text Mining &
Information Extraction (4) |
Software
Demos |
Software
Demos |
Software
Demos |
Software
Demos |
|
|
|
| 9:55
a.m. - 10:20 a.m. |
New
Frontiers Continued: The
future of the funding for biomolecular data and
knowledge infrastructures: proposition for a "Fortaleza
declaration”
Amos Bairoch, Swiss Institute of Bioinformatics |
Paper
28: Indel seeds for homology search Denise
Mak, Yevgeniy Gelfand, Gary Benson |
Paper
29: DynaPred: A structure and sequence based method for
the prediction of MHC class I binding peptide sequences and
conformations Iris Antes, Shirley Siu, Thomas Lengauer |
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| 10:20
a.m. - 10:50 a.m. |
Coffee Break with Exhibitors - Hall C |
|
Coffee Break
10:20 a.m. - 10:50 a.m. |
|
|
| 10:50
a.m. - 11:15 a.m. |
New
Frontiers Continued:
The changing face of scientific dissemination as it applies to computational biology
Phil Bourne, University of California
The future of computing in biology
Sřren Brunak, Biocentrum-DTU
|
Paper
30: Interpreting anonymous DNA samples from mass disasters
--- probabilistic forensic inference using genetic markers
Tien-ho Lin, Eugene W. Myers, Eric
P. Xing |
Paper
31: Accessing Images in Bioscience Literature through User-Interface
Designs and Natural Language Processing Hong
Yu, Minsuk Lee |
OpenMS -
A Software Platform for Shotgun Proteomics |
IBM: Inferring
Common Origins |
Biological
Concept Diagram Editor (BCDE) |
myGrid
and ToolBus/PathPort Interoperability |
|
|
| 11:15
a.m. - 11:40 p.m. |
Paper
32: BaCelLo: a balanced subcellular localization predictor
Andrea Pierleoni, Pier Luigi Martelli Piero
Fariselli, Rita Casadio |
Paper
33: Finding the evidences for protein-protein interactions
from PubMed abstracts Hyunchul Jang, Jaesoo Lim, Joon-Ho Lim, Soo-Jun Park, Kyu-Chul
Lee, Seon-Hee Park |
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| 11:40
a.m. - 12:05 p.m. |
Paper
34: On counting position weight matrix matches in a sequence,
with application to discriminative motif finding Saurabh
Sinha |
Paper
35: Novel unsupervised feature filtering of biological data
Roy Varshavsky, Assaf Gottlieb, Michal Linial,
David Horn |
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| 12:05
p.m. - 12:30 p.m. |
Paper
36: Finding regulatory motifs with maximum density subgraph
Eugene Fratkin, Brian Naughton, Douglas Brutlag,
Serafim Botzoglou |
Paper
37: Integrating image data into biomedical text categorization
Hagit Shatkay, Nawei Chen, Dorothea Blostein |
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| 12:30
p.m. - 2:00 p.m. |
Lunch - Hall F |
|
EBI
User's Forum |
ISCB
Student Council Open Meeting |
Birds
of a Feather Flock Together - Cancer Biomedical
Informatics Grid (caBIG) |
Birds
of a Feather Flock Together - Semantic types:
towards a common annotation schema for biomedical literature |
Birds
of a Feather Flock Together - Bioinformatics
Core Facilities |
|
|
Lunch 12:30 p.m. - 2:00 p.m. |
|
| |
Transcriptomics |
Sequence
Analysis (continued) |
PLoS Track |
Software
Demos |
Software
Demos |
Software
Demos |
Software
Demos |
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|
| 2:00
p.m. - 2:25 p.m. |
Paper
38: Statistical mechanical modeling of genome-wide transcription
factor occupancy data by MatrixREDUCE Barrett
Foat, Alexandre Morozov, Harmen Bussemaker |
Paper
39: Apples to apples: improving the performance of motif
finders and their significance analysis in the Twilight Zone
Patrick Ng, Niranjan Nagarajan, Neil Jones,
Uri Keich |
PLoS
Track 3: Gene Expression Trees
in Blood Cell Development Ivan Costa |
STING_RDB |
Extend
Your Bioinformatics with Accelrys: Integration of new tools
in a common workflow environment expands capabilities and biological
context
|
GeneChip
Analysis System (WGAS) |
GNARE |
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|
| 2:25
p.m. - 2:50 p.m. |
Paper
40: Quantification of transcription factor expression from
arabidopsis images Daniel Mace, Ji-Young Lee, Richard Twigg, Juliette Colinas, Philip
Benfey, Uwe Ohler |
Paper
41: CONTRAfold: RNA secondary structure prediction without
physics-based models Chuong Do, Daniel Woods, Serafim Batzoglou |
PLoS
Track 4:
Pervasive unproductive splicing
of SR proteins
associated with ultraconserved elements Steven
Brenner |
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| 2:50
p.m. - 3:15 p.m. |
Paper
42: Identifying cycling genes by combining sequence homology
and expression data Yong Lu, Roni Rosenfeld, Ziv Bar-Joseph |
Paper
43: Context-specific independence mixture modeling for positional
weight matrices Benjamin Georgi, Alexander
Schliep |
PLoS
Track 5: Population Sequencing from Chromatogram Data Nebojsa
Jojic |
|
Genetic
Marker Search Engine for Medline |
Gobase |
|
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|
| 3:15
p.m. - 3:40 p.m. |
Paper
44: Analysis of sample set enrichment scores: assaying the
enrichment of sets of genes for individual samples in genome-wide
expression profiles Elena Edelman, Alessandro Porrello, Justin Guinney, Bala Balakumaran,
Andrea Bild, Phillip Febbo, Sayan Mukherjee
|
Paper
45: ARTS: Accurate recognition of transcription starts in
human Soeren Sonnenburg, Alexander Zien,
Gunnar Raetsch |
PLoS
Track 6: Sm/lsm genes: a glimpse into early Eukaryotic evolution
Stella Veretnik |
|
|
|
Coffee Break 3:40
p.m. - 4:05 p.m. |
|
|
| 3:40
p.m. - 4:05 p.m. |
Coffee Break
with Exhibitors - Hall C |
|
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|
| 4:05
p.m. - 4:30 p.m. |
Paper
46: Efficient identification of DNA binding partners in
a sequence database Tobias Mann, William Noble |
Paper
47: Informative priors based on transcription factor structural
class improve de novo motif discovery Leelavati
Narlikar, Raluca Gordan, Uwe Ohler, Alexander Hartemink |
PLoS
Track 7: Comparative analysis of the complete transcriptome
of the ENCODE regions in chimpanzees and humans Philipp Khaitovich |
PRIDE and
the Ontology Lookup Service |
Talk to
Sun about Life Sciences |
BlueStarSting:
A multiplatform environment for protein structure analysis |
HARLEM
(Hamiltonians to Research LargE Molecules) |
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|
| 4:30
p.m. - 4:55 p.m. |
Paper
48: Semi-supervised analysis of gene expression profiles
for lineage-specific development in the Caenorhabditis elegans
embryo Yuan Qi, Patrycja Missiuro, Ashish
Kapoor, Craig Hunter, Tommi Jaakkola, David Gifford, Hui Ge |
Paper
49: ProfilePSTMM: capturing tree-structure motifs in carbohydrate
sugar chains Kiyoko Aoki-Kinoshita, Nobuhisa Ueda, Hiroshi Mamitsuka, Minoru
Kanehisa |
PLoS
Track 8: The strength of selection on ultraconserved elements
Christina Chen |
Poster Session with Authors (Even Number) & Reception - Hall
G 6:00 p.m. - 9:00
p.m. |
|
|
ISCB
Publications - Room B4 6:00 p.m. - 7:00 p.m.
ISCB Affiliates & SiGs - Room B6 6:00 p.m.
- 7:00 p.m.
ISCB Education Committee
- Room VIP 6:00 p.m. - 7:00 p.m. |
| 4:55 p.m. - 5:00
p.m. |
Introduction
of Keynote 4 (Main Auditorium - Hall D) |
|
|
| 5:00 p.m. - 5:50
p.m. |
Keynote 4: Overton
Award: Mathieu Blanchette – What mammalian
genomes tell us about our ancestors, and vice-versa
(Main Auditorium - Hall D) |
|
|
| 6:00
p.m. - 9:00 p.m. |
Poster Session
with Authors (Even Number) & Reception - Hall G |
|
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|
| 9:00
p.m. |
Shuttles depart Convention Center to Hotels |
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| Wednesday |
August 9 |
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|
|
Main Auditorium (Hall D) |
Room E1 |
Room E2 |
Room A (2nd Floor) |
Room B1 |
Room B2 |
Room B3 |
Hall G |
Hall C |
Hall F |
| 7:30 a.m. - 2:30
p.m. |
Registration - Hall G |
Registration
& Posters |
Wireless
Internet Available: 7:30 a.m. - 12:45 p.m. |
|
| 9:00
a.m. - 2:00 p.m. |
Posters
on Display - Hall G |
|
|
|
|
|
|
| 8:45
a.m. - 9:00 a.m. |
Morning Welcome and Introduction
of Keynote 5 (Main Auditorium - Hall D) |
|
| 9:00
a.m. - 9:50 a.m. |
Keynote 5: Elena
Conti – Molecular mechanisms in RNA degradation (Main
Auditorium - Hall D) |
|
|
| |
Evolution
& Phylogeny |
Ontologies |
PLoS Track |
Software Demos |
Software
Demos |
Software
Demos |
Software
Demos |
|
Exhibits Open - 9:45 a.m. - 1:00 p.m. |
| 9:50
a.m. - 10:15 a.m. |
Paper
50: Constructing near-perfect phylogenies with multiple
homoplasy events Ravi Vijaya Satya, Amar Mukherjee, Gabriela Alexe, Laxmi Parida,
Gyan Bhanot |
Paper
51: A top-level ontology of functions and its application
in the Open Biomedical Ontologies Patryk Burek, Robert Hoehndorf, Frank Loebe, Johann Visagie, Heinrich
Herre, Janet Kelso |
PLoS Track
9: Automated Cell Biology in Drug Discovery: Extracting Biological
Information from Images of Cells Eugeni Vaisberg |
The
BioMAZE System |
IMG/M: An
Experimental Metagenome Data Management and Analysis System |
MARSMotif:
Deciphering Transcriptional Subnetworks from Microarray Expression
Data using Regression Splines |
STRING database |
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| 10:15
a.m. - 10:40 a.m. |
Paper
52: BNTagger: Improved tagging snp selection using bayesian
networks Phil Hyoun Lee, Hagit Shatkay |
Paper
53: An ontology for a robot scientist
Larisa Soldatova, Amanda Clare, Andrew Sparkes, Ross King |
PLoS
Track 10: Predicting Biological Networks from Diverse Data:
a New Role for the Hsp90 Complex Chad Myers |
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| 10:40
a.m. - 11:05 a.m. |
Paper
54: Mutation parameters from sequence data using graph theoretic
measures on lineage trees Reuma Magori Cohen,
Yoram Louzoun, Steven Kleinstein |
Paper
55: Protein classification using ontology classification
Katherine Wolstencroft, Phillip Lord, Lydia
Tabernero Andy Brass, Robert Stevens |
PLoS
Track 11: Gene Expression of C. elegans Neurons Carries
Significant Information on Their Synaptic Connectivity Alon
Kaufman |
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| 11:05
a.m. - 11:35 a.m. |
Coffee Break with Exhibitors - Hall C |
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Coffee Break 11:05 a.m. - 11:35
a.m. |
| 11:35
a.m - 11:40 a.m. |
Introduction of Keynote 6 (Main Auditorium - Hall D) |
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| 11:40
a.m - 12:30 p.m |
Keynote 6: Charles DeLisi
– New Approaches to Biomarker Discovery (Main Auditorium
- Hall D) |
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| 12:30
p.m. |
Delegate Transfers:
Hotels and/or Beach Park for Delegates and off-site event ticket
holders – 1:15 p.m. Last Departure |
| 6:30 p.m. |
Tranfer of
Delegates to Hotels from Beach Park Resort |
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| Thursday |
August 10 |
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Main Auditorium (Hall D) |
Room E1 |
Room E2 |
Room A (2nd Floor) |
Room B1 |
Room B2 |
Room B3 |
Hall G |
Hall C |
Hall F |
ISCB Committee Meetings |
| 7:30 a.m. - 5:30
p.m. |
Registration - Hall G |
Registration
& Posters |
Wireless Internet
Available: 7:30 a.m. - 5:30 p.m. |
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| 8:30 a.m. - 4:00
p.m. |
Posters
on Display - Hall G |
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| 8:45 a.m. - 9:00
a.m. |
Morning Welcome and Introduction
of Keynote 7 (Main Auditorium - Hall D) |
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| 9:00
a.m. - 9:50 a.m. |
Keynote 7: Rich
Roberts – The need of Bioinformatics for experimental biologists
(Main Auditorium - Hall D) |
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Exhibits Open - 9:45 a.m. - 4:00 p.m. |
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Proteomics |
Comparative
Genomics |
PLoS Track |
Latin American BioInformatics
Session |
Software
Demos |
Software
Demos |
Software
Demos |
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| 9:50
a.m. - 10:15 a.m. |
Paper
56: Semi-Supervised LC/MS alignment for differential proteomics
Bernd Fischer, Jonas Grossmann, Volker Roth, Wilhelm Gruissem,
Sacha Baginsky, Joachim M. Buhmann |
Paper
57: Hairpins in a haystack: recognizing microrna precursors
in comparative genomics data Jana Hertel, Peter F. Stadler |
PLoS
Track 14: Analysis of pleiotropy during C. elegans development
and interpretation with interactome networks Hui
Ge |
Latin American BioInformatics
Intro and Session |
Pathway Knowledge Management System
(PKMS) |
UniProtKB
and InterPro |
PANTHER
Classification System: Protein subfamily curation, and application
to expression data analysis |
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|
| 10:15
a.m. - 10:40 a.m. |
Paper
58: Annotating proteins by mining protein interaction networks
Mustafa Kirac, Gultekin Ozsoyoglu, Jiong
Yang |
Paper
59: Comparative genomics reveals unusually long motifs in
mammalian genomes Neil Jones, Pavel Pevzner |
PLoS
Track 15: Integrative Analysis of NCI-60 Panel Reveals Candidate
Key Genetic Regulators Affected by Genomic Alterations Doron
Lipson |
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| 10:40
a.m. - 11:10 a.m. |
Coffee Break with Exhibitors - Hall C |
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| 11:10
a.m. - 11:35 a.m. |
Paper
60: A model-based approach for mining membrane protein crystallization
trials Sitaram Asur, Srinivasan Parthasarathy, Pichai Raman, Matthew Eric
Otey |
Paper
61: Relative contributions of structural designability and
functional diversity in fixation of gene duplicates Boris
Shakhnovich |
PLoS
Track 14: Analysis of pleiotropy during C. elegans development
and interpretation with interactome networks Hui
Ge |
Latin American BioInformatics
continued |
IntAct -
an extensible open source framework for molecular interactions |
CEP: Conformational
epitope prediction server |
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| 11:35
a.m. - 12:00 p.m. |
Paper
62: Peptide sequence tag-based blind identification of post-translational
modification with point process model Chunmei
Liu, Bo Yan, Yinglei Song, Ying Xu, Liming Cai |
Paper
63: Automatic clustering of orthologs and inparalogs shared
by multiple proteomes Andrey Alexeyenko, Ivica Tamas, Gang Liu, Erik Sonnhammer |
PLoS
Track 15: Integrative Analysis of NCI-60 Panel Reveals Candidate
Key Genetic Regulators Affected by Genomic Alterations Doron
Lipson |
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| 12:00
p.m. - 1:45 p.m. |
Lunch Reception & Late Breaking Poster Session with Authors - Hall
G / Lunch with Exhibitors - Hall C |
Lunch with Posters
and Exhibitors - 12:00 p.m. -1:45 p.m. |
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| 1:45
p.m. - 2:10 p.m. |
Paper
64: Rapid knot detection and application to protein structure
prediction Firas Khatib, Matt Weirauch, Carol
Rohl |
Paper
65: A Sequence-based filtering method for ncRNA identification
and its application to searching for Riboswitch Elements Shaojie
Zhang, Ilya Borovok, Yair Aharonowitz, Roded Sharan, Vineet
Bafna |
PLoS
Track 16: Integration of FRAP experiments and 3D simulations
of diffusion in the lumen and surface of
Endoplasmic Reticulum Petros Koumoutsakos |
Latin American BioInformatics
continued |
VisANT |
OncoTCapSwiss-Prot
Protein Knowledgebase: ready for the future |
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| 2:10
p.m. - 2:35 p.m. |
Paper
66: A computational approach toward label-free protein quantification
using predicted peptide detectability Haixu
Tang, Randy Arnold, Pedro Alves, Zhiyin Xun, David Clemmer,
Milos Novotny, James Reilly, Predrag Radivojac |
Paper
67: Finding novel genes in bacterial communities isolated
from the environment Lutz Krause, Naryttza N. Diaz, Daniela Bartels, Robert A. Edwards,
Alfred Pühler, Forest Rohwer, Folker Meyer, Jens Stoye |
PLoS
Track 17: Comparison of Alternative Splicing Structures
in Eukaryotes, Michael Sammeth |
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| 2:35
p.m. - 3:00 p.m. |
PLoS
Track 18: Comparative Genomics of GPCRs: ET-Guided Annotation
and Re-design of Aminergic Receptors Olivier
Lichtarge |
PLoS Track
19: DOE Hanford Site Metagenome: A multiple extreme environment
that hosts wide diversity of microbes and radiotolerant bacteria
Mustafa Syed and Natalia Maltsev |
PLoS
Track 20: Probabilistic Genetic Networks analysis of three
Plasmodium falciparum strains from dynamical expression signals
Hernando del Portillo and Roberto Cesar Junior
Barrera |
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| 3:00
p.m. - 3:25 p.m. |
PLoS
Track 21: Recursive Top-Down Quantum
Clustering of Biological Data Michal Linial |
PLoS
Track 22: Simplified Models of Evolution lead to Improved
Prediction of Functional Linkage from Correlated Gain and Loss
of Genes among Eukaryotes Daniel Barker |
PLoS
Track 23: A Probabilistic Functional Gene Network of Worm:
An Extensive and Accurate Systemic Model of a Multi-cellular
Organism Insuk Lee |
|
Coffee with Exhibitors 3:25 p.m. - 3:55
p.m. |
|
ISCB
Finance & Business Development - Room B6 6:00 p.m.
- 7:00 p.m. |
| 3:25
p.m. - 3:55 p.m. |
Coffee Break with Exhibitors - Hall C |
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| 3:55
p.m. - 4:00 p.m. |
Introduction of Keynote 8 (Main Auditorium - Hall D) |
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| 4:00
p.m. - 4:50 p.m. |
Keynote 8: Sr.
Scientist Accomplishment Award: Michael Waterman
(Main Auditorium - Hall D) |
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| 4:50
p.m. - 5:15 p.m. |
Conference Closing |
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