The Israeli Society for Bioinformatics and Computational Biology

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Poster Abstracts

Genomics
1	Roshan Shrestha et al.	Ben Gurion University of the Negev	Comparative genomics of the red microalgae Porphyridium sp. and Dixoniella grisea (Rhodoplantae)
2	Gila Lithwick and Hanah Margalit	Hebrew University of Jerusalem	Relative predicted protein levels of functionally associated proteins are conserved across organisms
3	Alon Kaufman and Eytan Ruppin	Hebrew University of Jerusalem	Exploring the Relations between Gene Expression, Synaptic Connectivity and Neuronal Functional Contributions in the C. elegans Chemosensory System
4	Yael Garten et al.	Weizmann Institute of Science	Extraction of Transcription Regulatory Signals from Genome-wide DNA-protein Interaction Data
5	Tommy Kaplan et al.	Hebrew University of Jerusalem	Histone Modification Patterns, Transcriptional Regulation and Gene Expression in Yeast
6	Shlomit Farkash-Amar et al.	Hebrew University of Jerusalem	Genome wide analysis of DNA methylation - application to cancer and X-inactivation studies
7	Ester Feldmesser et al.	Weizmann Institute of Science	Olfactory Receptors Are Expressed In Human And Mouse Ectopic Tissues
8	Yossi Neeman et al.	Bar Ilan University	A systematic search of A-to-I RNA editing in antisense transcripts
9	Tal Dagan et al.	Tel-Aviv University	A Negatory Investigation into the Doctrine of Isochores
10	Frida Belinky and Avraham A. Levy	Weizmann Institute of Science	Computational analysis of wheat genes suggests rapid gene elimination and differential expression following genome duplication
11	Ronny Aloni et al.	Weizmann Institute of Science	Conserved Synteny and Genomic Rearrangements in the Olfactory Subgenome
12	Pinchas Akiva et al.	Bar-Ilan University, Compugen LTD.	Naturally Occurring Fused Transcripts In The Human Genome
Proteomics
13	Milana Morgenstern and Shmuel Pietrokovski	Weizmann Institute of Science	Enhanced Statistics for Local Alignment of Multiple Alignments Improves Protein Function and Structure Prediction
14	Elik Aharonovsky et al.	University of Haifa	Protein modules: The closed loop prototype database.
15	Inbal Sela and Amiram Goldblum	Hebrew University of Jerusalem	Structural Computational Analysis of Beta-Strands: Clustering, Potentials and Prediction
16	Michal Millo and Amiram Goldblum	Hebrew University of Jerusalem	Bioinformatics discovery of a Myristoyl Binding Pocket of Tyrosine Kinases and subsequent Drug Design
data mining
17	Shany Ron et al.	Weizmann Institute of Science	Genedecks: Building An Optimal Bioinformatics Tool-Kit For Analysis And Data-mining For Biological Researchers
RNA structure
18	Oranit Dror et al.	Tel-Aviv University	ARTS: Alignment of RNA Tertiary Structures
Splicing
19	Martin Akerman et al.	Technion	Regulation of Alternative Splicing at Tandem Acceptors
Phylogenetics
20	Igor Ulitsky et al.	Tel-Aviv University	Information Theoretic Approaches to Whole Genome Phylogenies
21	Neta Zuckerman et al.	Bar Ilan University	Analysis of B cell clonal evolution in BM and PBL of AL and MM patients using graphical quantification of lineage trees
22	Avital Steiman et al.	Bar Ilan University	Immunoglobulin variable-region gene mutational lineage tree analysis: Application to autoimmune diseases
23	Itay Mayrose et al.	Tel-Aviv University	A Gamma mixture model better accounts for among site rate heterogeneity
24	Adi Stern and Tal Pupko	Tel-Aviv University	Predicting Functional Regions in a Protein Using a Hidden Markov Model
Structure/Function
25	Maxim Shatsky et al.	Tel-Aviv University	Recognition of Binding Patterns Common to a Set of Protein Structures
26	Natalia Tsessin et al.	Ben Gurion University of the Negev	Cold dissociation of E. coli tryphophanase and its mutants: a structural view
27	Ran Friedman et al.	Tel-Aviv University	Molecular Dynamics Simulations of Ligand Binding
28	Leonid Brodsky et al.	Tel-Aviv University	Detection of Functional Regions in Proteins by "Linearized" Representation of Three Dimensional Structures
29	David Marcus and Amiram Goldblum	Hebrew University of Jerusalem	Using Multiple Binding Modes in Structure Based Drug Design
Gene prediction
30	Tirza Doniger et al.	Bar Ilan University	A genome-wide scan for novel single-stem H/ACA-like snoRNA
31	Ronen Shemesh et al.	Compugen Ltd.	Processed Pseudogenes as predictors of alternative splicing
Structure prediction
32	Milana Frenkel-Morgenstern et al.	Weizmann Institute of Science	New approach to detect sites in physical contacts based on multiple sequence alignment
33	Chen Yanover et al.	Hebrew University of Jerusalem	Predicting Protein-Peptide Binding Affinity by Learning Peptide-Peptide Distance Functions
34	Zakharia Frenkel and Edward Trifonov	University of Haifa	Small protein modules with similar 3D structure but different amino acid sequence
35	Sarel Fleishman and Nir Ben-Tal	Tel-Aviv University	A C-alpha model structure of the gap-junction transmembrane domain
36	Alexander Berchanski et al.	Bar Ilan University	Bioinformatical and Structural studies of HDAC proteins and their inhibitors
37	Vladimir Sobolev et al.	Weizmann Institute of Science	SPACE: A suite of tools for protein Structure Prediction and Analysis based on Complementarity and Environment
38	Ami Levy-Moonshine et al.	Ben Gurion University of the Negev	A cooperative energy term for hydrogen bonds
Structural genomics
39	Alex Berchanski and Ron Unger	Bar Ilan University	Analysis of Partial Protein Structures in the PDB Database
40	Einat Sitbon and Shmuel Pietrokovski	Weizmann Institute of Science	Protein evolution and biophysics
41	Dan Reshef et al.	Ben Gurion University of the Negev	Prediction of Functional Sites in Protein Structures using Energy Functions
42	Keren Lasker et al.	Tel-Aviv University	Discovery of Protein Substructures in EM Maps
Protein/Protein
43	Alexandra Shulman-Peleg et al.	Tel-Aviv University	MAPPIS: Multiple 3D Alignment of Protein-Protein Interfaces
44	Moti Zviling et al.	Hebrew University of Jerusalem	Genetic Algorithm-Based Optimization of Hydrophobicity Tables
Systems biology
45	Aviv Mezer et al.	Tel-Aviv University	A New Platform To Study The Molecular Mechanisms Of Exocytosis
46	Oleg Rokhlenko et al.	Technion	Computational Methods for Searching and Comparison of Biochemical Pathways
47	Ran Kafri and Yitzhak Pilpel	Weizmann Institute of Science	Transcriptional reprogramming in genetic backup circuits
48	Yuval Tabach et al.	Weizmann Institute of Science	A promoter architecture of human cell cycle genes implements a fuzzy-logical integration of two tumor suppressive pathways during in-vitro transformation
49	Israel Steinfeld et al.	Tel-Aviv University	Organization of the Yeast Molecular Network by Integrated Analysis of Genome-wide Data
50	Nir Yosef et al.	Tel-Aviv University	Obtaining a Functional Pathway Description from Multi-Knockout Data
51	Shay Winter et al.	Weizmann Institute of Science	THE UPS AND DOWNS OF BIOLOGICAL TIMERS
52	Yair Horesh and Ron Unger	Bar Ilan University	Using A* For Calculating Edit Distance Between Rooted-Unlabeled Trees
Microarrays
53	Doron Lipson et al.	Technion	Interval Scores for Quality Annotated CGH Data
54	Ido Priness and Irad Ben-Gal	Tel-Aviv University	On Performance Measures For Gene Expression Clustering
55	Lilach Soreq et al.	Hebrew University of Jerusalem	GOdist analysis of biological functions regulated by the transcription factor Math1
56	Oded Vainas and Itamar Simon	Hebrew University of Jerusalem	Long range Chip-On-Chip application for identifying target genes with distal regulatory elements
57	Carmiya Bar-Or et al.	Hebrew University of Jerusalem	How Efective Are Cros-scpecies Hybridizations to Spoted Microarays?
58	Dikla Dotan et al.	Ben Gurion University of the Negev	Sleeved CoClustering for identification of tightly co-expressed genes
59	Itamar Simon and Elbaz Yedid	Hebrew University of Jerusalem	The curse of too much information - assessing Affymetrix array quality through the comparison of multiple probe sets of the same gene
60	Mark Katzenellenbogen et al.	Hebrew University of Jerusalem	The supervised pairwise gene expression analysis of chronic liver disease.
Other
61	Eddo Kim and Yossef Kliger	Bar Ilan University	Alignment-Independent Homology Assessment
62	Yoseph Barash et al.	Hebrew University of Jerusalem	Analyzing Genes in a SNAP
63	Yael Altuvia et al.	Hebrew University of Jerusalem	Clustering and conservation patterns of human miRNAs: Implications for miRNA prediction
64	Avi Taib and Amiram Goldblum	Hebrew University of Jerusalem	Improving the Iterative Stochastic Elimination Algorithm
65	Ohad Givaty and Amiram Goldblum	Hebrew University of Jerusalem	In Silico Protein Redesign: using a combination of evolutionary information and pairwise distance-dependent contact potential to predict more stable sequences for known structures
66	Miriam Eisenstein et al.	Weizmann Institute of Science	Looking at enzymes from the inside out: The proximity of catalytic residues to the molecular centroid can be used for identification of active sites.
67	Mark Silberstein et al.	Technion	Online distributed system for LOD score computations on large pedigrees
68	Tal Tabakman et al.	Hebrew University of Jerusalem	Predicting the effects of backbone variability on protein design from unbound and bound proteins
69	Ydo Wexler et al.	Technion	Variational Inference Procedures for Genetic Linkage Analysis

Support: CS laboratory, Yan Gleyzer, Design: The Agnes Ginges computer centre

Poster Abstracts

Genomics

Proteomics

data mining

RNA structure

Splicing

Phylogenetics

Structure/Function

Gene prediction

Structure prediction

Structural genomics

Protein/Protein

Systems biology

Microarrays

Other