FAW, Berlin
Mrach 12. -March 14. 2007
Technical Program BIRD '07
Monday, March 12, 2007
8.30 - 9.00 Opening
9.00 - 10.30 Session 1: Microarray and Systems Biology I (Networks)
Bayesian Inference of Gene Regulatory Networks using Gene Expression Time Series Data
Nicole Radde, Lars KaderaliBiological Network Inference Using Redundancy Analysis
Patrick E. Meyer, Kevin Kontos, Gianluca Bontempi Novel Graph Optimisation Algorithm for Extraction of Gene Regulatory Network from Temporal Microarray Data
Judit Kumuthini, , Lionel Jouffe, Conrad Bessant
10.30 - 11.00 Coffee Break
11.00 - 12.30 Session 2: Microarray and Systems Biology II
Analysing periodic phenomena by circular PCA
Matthias Scholz Identification of cold-induced genes in cereal crops and Arabidopsis through comparative analysis of multiple EST sets
Angelica Lindlöf, Marcus Bräutigam, Aakash Chawade, Björn Olsson, Olof Olsson Mining spatial gene expression data for association rules
Jano van Hemert, Richard Baldock
12.30 - 14.00 Lunch
14.00 - 15.30 Session 3: Medical, SNPs, Genomics I
Individualized Predictions of Survival Time Distributions from Gene Expression Data using a Bayesian MCMC Approach
Lars Kaderali Comparing Logic Regression Based Methods for Identifying SNP Interactions
Arno Fritsch, Katja Ickstadt Stochastical analysis of finite point sampling of 3D chromatin fiber in interphase cell nuclei
E. Gladilin, S. Goetze, R. van Driel, K. Rohr, R. Eils
15.30 - 16.00 Coffee Break
16.00 - 17.30 Session 4: Medical, SNPs, Genomics II
Structural Screening of HIV-1 Protease/inhibitor Docking by Non-Parametric Binomial Distribution Test
Piyarat Nimmanpipug, Vannajan Sanghiran Lee, Jeerayut Chaijaruwanich, Sukon Prasitwattanaseree, Patrinee Traisathit satDNA Analyzer 1.2 as a valuable computing tool for evolutionary analysis of satellite-DNA families:revisiting Y-linked satellite-DNA sequences of Rumex (Polygonaceae)
Rafael Navajas-Pérez, Manuel Ruiz Rejón , Manuel Garrido-Ramos, José Luis Aznarte , Cristina Rubio-Escudero A Soft Hierarchical Algorithm for the Clustering of Multiple Bioactive Chemical Compounds
Jehan Zeb Shah, Naomie bt salim
17.30 - 20.00 Poster Session 1 (authors present)
18.00 Welcome Reception in the TU Berlin
Tuesday, March 13, 2007
9.00 - 11.00 Session 5: Systems Biology
A Novel Method for Flux Distribution Computation in Metabolic Network
Da Jiang, Shuigeng Zhou Inverse bifurcation analysis of a model for the mammalian G_1/S regulatory module
James Lu, Heinz W. Engl, Rainer Machné, Peter Schuster Weighted Cohesiveness for Identification of Functional Modules and their Interconnectivity
Zelmina Lubovac, David Corne, Jonas Gamalielsson, Björn Olsson Modelling and Simulation of the Genetic Phenomena of Additivity and Dominance via Gene Networks of Parallel Aggregation Processes
Elena Tsiporkova, Veselka Boeva
11.00 - 11.30 Coffee Break
11.30 - 12.30 Invited Talk
Josef Penninger - Institute of Molecular Biotechnology (IMBA)
From Flies to human disease
12.30 - 14.00 Lunch
14.00 - 15.30 Session 6: Sequence Analysis I (Coding)
Protein remote homology detection based on binary profiles
Qiwen Dong, Xiaolong Wang, Lei Lin Biological Sequences Encoding for Supervised Classification
Rabie Saidi, Mondher Maddouri, Engelbert Mephu Nguifo Fast search algorithms for position specific scoring matrices
Cinzia Pizzi, Pasi Rastas, Esko Ukkonen
15.30 - 16.00 Coffee Break
16.00 - 18.00 Session 7: Sequence Analysis II
A Markovian approach for the segmentation of chimpanzee genome
Melodelima, Gautier Synthetic Protein Sequence Oversampling method for Classification and remote homology detection in imbalanced protein data
Majid Beigi, Andreas Zell Stem Kernels for RNA Sequence Analyses
Yasubumi Sakakibara, Kiyoshi Asai, Kengo Sato Prediction of structurally-determined coiled-coil domains with hidden Markov models
Piero Fariselli, Daniele Molinini, Rita Casadio, Anders Krogh
18.00 - 19.30 Poster Session 2
20.00 Conference Dinner
Wednesday, March 14, 2007
9.00 - 10.30 Session 8: Proteomics I
Patch prediction of protein interaction sites: validation of a scoring function for an online server
Susan Jones, Yoichi Mukarami Statistical Inference on Distinct RNA Stem-loops in Genomic Sequences
Shu-Yun Le, Jih-H. Chen Interpretation of Protein Subcellular Location Patterns in 3D Images Across Cell Types and Resolutions
Xiang Chen, Robert F. Murphy
10.30 - 11.00 Coffee Break
11.00 - 12.30 Session 9: Proteomics II (Measurements)
Bayesian Inference for 2D gel electrophoresis image analysis
Ji Won Yoon, Simon J. Godsill, ChulHun Kang, Tae-Seong Kim SimShiftDB: Chemical-Shift-Based Homology Modeling
Simon W. Ginzinger, Volker Heun, Thomas Gräupl Annotation of LC/ESI-MS Mass Signals
Ralf Tautenhahn, Christoph Böttcher, Steffen Neumann
12.30 - 14.00 Lunch
14.00 - 15.30 Session 10: Proteomics III (Structure)
Stochastic Protein Folding Simulation in the d-dimensional HP-Model
K. Steinhöfel, A. Skaliotis, A.A. Albrecht Enhancing Protein Disorder Detection by Refined Secondary Structure Prediction
Chung-Tsai Su, Tong-Ming Hsu, Chien-Yu Chen, Yu-Yen Ou, Yen-Jen Oyang Joining Softassign and Dynamic Programming for the Contact Map Overlap Problem
Brijnesh J. Jain, Michael Lappe
15.30 - 16.00 Coffee Break
16.00 - 18.00 Session 11: Databases, Web and text analysis
An Evaluation of Text Retrieval Methods for Similarity Search of multi-dimensional NMR-Spectra
Alexander Hinneburg, Andrea Porzel, Karina Wolfram Ontology-based MEDLINE Document Classification
Fabrice Camous, Stephen Blott, Alan F. Smeaton Integrating mutations data of the TP53 human gene in the bioinformatics network environment
Paolo Romano, Domenico Marra Efficient and Scalable Indexing Techniques for Biological Sequence Data
Mihail Halachev, Nematollaah Shiri, Anand Thamildurai
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