Important dates
Preconference Seminar
Keynote Speakers
Call for Demos
Call for Papers
Call for Posters
Contest Datasets
EMERALD Workshop
Scientific Committee
See and Do

CAMDA 2007 Detailed Programme

Wednesday, Decembre 12th
CAMDA PreConference Seminar
17:00-17:15 Welcome
17:15-18:15  Invited Speaker: Benjamin Blencowe, University of Toronto.
Global insights from microarray profiling of mammalian alternative splicing.  pdf
18:15 Spanish Wine and CAMDA Registration
Thursday, December 13th
8:30-9:30 Registration and hang up poster.
9:30-10:30  Invited Speaker: Sandrine Dudoit, University of California, Berkeley.
Statistical challenges in microarray data analysis: Past, present and future.  pdf
10:30-11:00 Coffee Break
11:00-13:00 CAMDA Speakers - Session 1
11:00-11:30  Challenges in the analysis of multifaceted data sets to understand complex disorders.  pdf
Toni Whistler
11:30-12:00  Understanding Chronic Fatigue Syndrome (CFS) from CAMDA Data: A Systems Biology Approach. pdf
Pihur Vasyl, Susmita Datta and Somnath Datta.
12:00-12:30  Biomarker Indentification Using Bayesian Variable Selection Based on Marker-expression-proteomics Data. pdf
Madhu Bhattacharjee, Catherine Botting and Mikko Sillanpää.
12:30-13:00  Neuro-endocrine and Immune Network Re-modeling in Chronic Fatigue Syndrome: An Exploratory Analysis. pdf
Jim Fuite, Suzanne D Vernon and Gordon Broderick.
13:00-14:30 Lunch
14:30-19:00 Software Demos/Emerald Workshop/Poster session
14:30-15:30 Software demos
14:30-14:40  RESEARCHER'S DIGEST: Using gene annotations to classify gene lists into functional groups. pdf
Juan Carlos Triviño, Juan Carlos Sánchez-Ferrero and Juan Carlos Oliveros.
14:40-14:50  BioinfoGP Tools: Small utilities for big research. pdf
Juan Carlos Oliveros.
14:50-15:00  GEPAS: a web-based suite for microarray data analysis. pdf
David Montaner, Joaquín Tárraga, Ignacio Medina, Jaime Huerta-Cepas, Pablo Minguez, Eva Alloza, Fátima Al-Shahrour Núñez and Joaquín Dopazo.
15:00-15:10  BABELOMICS: a systems biology perspective in the functional annotation of transcriptomics experiments. pdf
Fátima Al-Shahrour Núñez, Pablo Minguez, Joaquín Tarraga, Eva Alloza, Ignacio Medina, José Carbonell, David Montaner and Joaquín Dopazo.
15:10-15:20  How to analyze Microarray Data to develop biomarkers. pdf
Ewan Hunter and Markus Dueringer.
15:20-15:30  Integromics AB1700 and ArrayUnlock: Two guides powered by Spotfire for analysis and functional interpretation of microarray data.  pdf
Ramon Goñi and Pedro Carmona-Saez.
14:30-18:00 Emerald Workshop
14:30-15:30 I part
14:30-14:40  Introduction.
Martin Kuiper
14:40-15:10  Converging to consensus: the end and the beginning of differential gene expression microarray analysis. pdf
Federico Goodsaid
15:10-15:30  Spatial Defects in 5896 HG-U133A GeneChips. pdf
William Langdon
16:00-18:00 II part
16:00-16:20  Microarray Quality Metrics. pdf
Audrey Kauffmann, Wolfgang Huber.
16:20-16:40  PhD student (microarray data quality and standards).
Explaining the Sources of Discrepancies in Gene Expression Profiles Generated on three Whole-Genome Gene Expression Microarray Platforms. pdf
Maouche Seraya.
16:40-17:00  PhD student (microarray data quality and standards).
AffyDEComp: towards a benchmark for differential expression methods. pdf
Richard Pearson
17:00-17:20  The EMERALD ontology efforts. pdf
James Malone.
17:20-18:00  Open forum discussion.
lead by Paul Van Hummelen
14:30-19:00 Posters
   RESEARCHER'S DIGEST: Using text-mining techniques for classifying lists of genes.  pdf
Juan Carlos Triviño, Juan Carlos Sánchez-Ferrero and Juan Carlos Oliveros.
   The EMERALD Consortium.
EMERALD: Enhancing Microarray Data Quality.  pdf
   Data quality issues in a large dataset of published microarrays (meta-analysis) pdf
Martin Dugas, Hans-Ulrich Klein, Joachim Gerß and Sylvia Merk.
   Explaining the Sources of Discrepancies in Gene Expression Profiles Generated on three Whole-Genome Gene Expression Microarray Platforms. pdf
Seraya Maouche, Odette Poirier, Tiphaine Godefroy, Robert Olaso, Ivo Gut, Gilles Montalescot and François Cambien
   ImageQualityQuantificator - Interactive Spot Quality Evaluation of Microarray Images.  pdf
Andreas Jahnen, Anke Wienecke, Laurent Vallar and Pierre Plumer.
   Gene expression profile of hypoxia-induced kidney pathology in sickle transgenic mice.  pdf
Anne Rybicki, Raouf Alami, Mary Fabry, Alfred Adomako, Tina Urphanisvili, Steven Brunnert, James Pullman and Ronald Nagel.
   Identification of closely linked SNP markers using information theory.  pdf
Dhananjay Raje, Venkatesh Krishnan, Saurabh Bundela and M.S. Rekha Rao.
   Biologists and Bioinformaticians team up and explore the interplay between UV radiation, P53 modification and gene expression.  pdf
Oskar Bruning, Wendy Bruins, martijs jonker, Edwin Zwart, Tessa van der Hoeven-Dillerop, Jeroen Pennings, Han Rauwerda, Annemieke de Vries and Timo Breit.
   Integration and Interpretation of Microarray Data - Explorations and Ideas.  pdf
Suraj Menon, Peter Giles, Hui Sun Leong, Ian Brewis and David Kipling.
   AffyDEComp: towards a benchmark for differential expression methods.  pdf
Richard Pearson.
   Making sense of microarray gene lists using text mining and over-representation analysis.  pdf
Hui Sun Leong, Peter Giles, Suraj Menon and David Kipling.
   Breast cancer survival prediction using merged gene expression data sets.  pdf
Haleh Yasrebi and Philipp Bucher.
   Looking at Similarities through Relevance Vector Machine.  pdf
Daniela marconi, Valter Gattei and Renato Campanini.
   A genomics signature of prognosis for stage II colorectal cancer derived from FFPE tissue.  pdf
Claire wilson, julie black, Juergen von Frese, Austin Tanney, Steven Walker, Robert Holt, Gavin Oliver, Stewart McWilliams, Andreas Winter, Peter Kerr, Vitali Proutski, Jude Mulligan, Alistair Scott, Susan Farragher, Stephen Moore, Elaine Kay, R Cummins, U McDermott, R Wilson, H Mulcahy, J O'Sullivan, M Biniecka, K Sheahan, D O'Donoghue, Karl Mulligan, Richard Kennedy, PG Johnston and DP Harkin.
   Visualization and combined analysis of SNP and gene expression data with Rcnat.  pdf
Sylvia Merk, Hans-Ulrich Klein, Claudia Haferlach and Martin Dugas.
   Identifying clusters of functionally related transcripts using large scale gene expression analysis.  pdf
Jai Prakash Mehta, Lorraine O'Driscoll, Niall Barron, Martin Clynes and Padraig Doolan.
   A new performance criterion for classification methods for microarray gene expression data.  pdf
Cristina Botella, Joan Ferré and Ricard Boqué.
   Finding cancer genes through meta-analysis of microarray experiments: Rank aggregation via the cross entropy algorithm.  pdf
Vasyl Pihur, Susmita Datta and Somnath Datta.
   Tenfold improved performance of spatial normalization of microarrays.  pdf
Thomas Tuechler, Peter Sykacek, Richard P. Auburn, Lisa A. Meadows, Bettina Fischer, Gos Micklem, Steve Russell and David P. Kreil.
   Virus Adaptation by Manipulation of Host's Gene Expression.  pdf
Patricia Agudelo-Romero, Pablo Carbonell, Miguel A. Perez Amador and Santiago F. Elena.
   Modeling and Optimization of the Interaction between RNA Silencing Pathway and Viral Suppressors of Silencing.  pdf
Guillermo Rodrigo, Javier Carrera, Alfonso Jaramillo and Santiago F. Elena.
   Inference and modelling of regulatory transcriptional networks from transcriptomic data.  pdf
Javier Carrera, Guillermo Rodrigo and Alfonso Jaramillo.
15:30-16:00 Coffee Break
21:00 Conference Dinner
Friday, December 14th
9:30-10:30  Invited Speaker: John Quackenbush, Dana-Farber Cancer Institute, USA.
Stochasticity and Networks in Genomic Data.  pdf
10:30-11:00 Coffee Break
11:00-12:00 CAMDA Speakers - Session 2
11:00-11:30  Increasing interpretability of the relationship between transcriptome and phenotype through a multivariate function-based transformation of gene expression data.  pdf
Ana Conesa, Rasmus Bro, Jose Manuel Prats, Karin Kjeldahl, David Montaner and Joaquin Dopazo.
11:30-12:00  Aggregating Abstaining and Delegating Classifiers For Improving Classification performance: An application to lung cancer survival prediction.  pdf
Mohamed-Ramzi Temanni, Sajjad-Ahmed Nadeem, Daniel Berrar and Jean-daniel zucker.
12:00-13:00  Invited Speaker: Wei Pan, University of Minnesota, USA.
Incorporating biological knowledge of genes into statistical analysis of genomic data.  pdf
13:00-14:30 Lunch
14:30-17:00 CAMDA Speakers - Session 3
14:30-15:00  Large-scale GO analysis reveals gene expression level and variation are functional and location related.  pdf
Simon Lin, Pan Du and Warren Kibbe.
15:00-15:30  Gene Selection Based on Category Detection of Gene Ontology.  pdf
Oscar Sanchez, Cesar Payan, Leonardo Bobadilla, Fabio Gonzalez and Emiliano Barreto.
15:30-16:00  Identification of dilated cardiomyopathy signature genes through gene expression and network data integration.  pdf
Anyela Camargo and Francisco Azuaje.
16:00-16:30  Mining a Large-scale Microarray Database for Similar Gene Expression Modules to Find Distant Relationships between Down Syndrome and Huntington's Disease.  pdf
Yoshifumi Okada and Wataru Fujibuchi.
16:30-17:00  A Divide-and-conquer Strategy to Solve the Out-of-memory Problem of Processing Thousands of Affymetrix Micorarrays.  pdf
ChiaJu Lee, Dong Fu, Simon Lin, Pan Du, Hongmei Jiang, and Warren Kibbe
17:00-17:30 Conference Closing