Poster categories
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A |
Biomedicine, epidemiology & agriculture
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B |
Computational genomics
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C |
Computer-aided drug design
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D |
Databases & database integration
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E |
Evolution & phylogenetics
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F |
Metabolomics
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G |
Ontologies
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H |
Pathways, networks & systems
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J |
Proteomics
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K |
Sequence analysis
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L |
Simulation & system dynamics
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M |
Structural bioinformatics
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N |
Text mining
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P |
Transcriptomics
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Q |
Other
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A: Biomedicine, epidemiology & agriculture
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A02 |
Moran Elishmereni, Antonio Cappuccio, Zvia Agur: Cancer Immunotherapy by Interleukin-21: Theoretical Evaluation of Potential Treatment Strategies
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A04 |
Ravit Saada, Moran Weinberger, Ramit Mehr: Models for Antigen Receptor Gene Rearrangement: CDR3 Length
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A06 |
Soliman Khatib, Jacob Vaya: New Derivatives of DPPacid as Tyrosinase Inhibitors: Structure-Activity Relationships
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A07 |
Itai Kela, Alon Harmelin, Judith Chermesh, Tami Danon, Tova Waks, Avi Orr-Urtreger, Eytan Domany, Zelig Eshhar: Developing a Predictive Tool for Prostate Cancer Metastases using the TRAMP Model
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B: Computational genomics
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B01 |
O. Reva: Microbial Genome Signatures and their Application in Metagenomics to Monitor the Environment and to Control Infection Outbreaks
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B02 |
Elena D. Stavrovskaya, Vsevolod J. Makeev, Igor V. Merkeev, Andrey A. Mironov: Tool for Automatic Detection of Co-regulated Genes
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B03 |
Lukas Chavez, Silvia Fluch: Comparative Genomics: Testing the Limit of Cross-Species Hybridization
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B04 |
Georgios S Vernikos, Julian Parkhill: IVOMs for Identification of Horizontally Acquired DNA: Revisiting the Salmonella Pathogenicity Islands
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B05 |
Tal Shay, Wanyu L. Lambiv, Anastasia Murat, Eugenia Migliavacca, Anjan Misra, Burt Feuerstein, Mauro Delorenzi, Roger Stupp, Monika E. Hegi, Eytan Domany: Effects of DNA Copy Number on Gene Expression in Glioblastoma Multiforme (GBM)
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B06 |
Galina Kovaleva, Mikhail Gelfand: Evolution of the Methionine Biosynthesis Regulation in Streptococci
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B07 |
A. Molares, E. Carrillo, G. Gomez, G. Munoz Molina, I. Muguruza, I. Sanchez, R. Moreno, V. Leiro, F. Carrillo , E. Caso: cRNA Microarrays and Bioinformatics Application in Lung Adenocarcinoma Samples
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B08 |
Anat Kats, Sagi Shporer, Benny Chor, Hanne Volpin: Organ-Specific Linear Order of Gene Transcript Abundance in Arabidopsis
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B10 |
Simon Furney, Stephen Madden, Des Higgins, Nuria Lopez-Bigas: Computational Study of Human Cancer: Properties of Proto-Oncogenes and Tumour Suppressor Genes
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B11 |
Alex Mira, Ravindra Pushker, Francisco Rodriguez-Valera: Genomic Location and the Evolution of Paralogous Genes
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B12 |
Yonit Halperin, Chaim Linhart, Gidi Weber, Ron Shamir: The AMADEUS Motif Discovery Tool
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B13 |
Ofir Davidovich, Gad Kimmel, Ron Shamir: GEVALT - An Integrated Software Tool for Genotype Analysis
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B14 |
Hadas Ner-Gaon: Whole Genome Microarray in Arabidopsis Facilitates Global Analysis of Retained Introns
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B15 |
Elizabeth Permina, Mikhail Gelfand: Microarray and Comparative Genomic Analysis of sigB Regulon in Bacillus Group: An Estimation of Correspondence
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B16 |
Yaki Setty, David Harel, Irun Cohen: Towards a Comprehensive, Realistic and Interactive 4-Dimensional Model of Pancreatic Development
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B17 |
Eilon Sharon, Tali Sadka, Eran Segal: A Probabilistic Model for Identifying the Key Features of Protein-DNA Interactions
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B18 |
Tirza Doniger, Yair Horesh, Inna Myslyuk, Shulamit Michaeli, Ron Unger: A Genome-wide Computational Scan for Novel Single-stem H/ACA-like snoRNA
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B19 |
Anna V. Gerasimova, Dmitriy A. Ravcheev, Mikhail S. Gelfand: Multiple Regulation of Respiration in Gamma-Proteobacteria: FNR, ArcA, NarP and ModE Regulons
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B21 |
Ido Sher, Sarit Edelheit, Ronen Shemesh, Dvir Dahary: Regulation of Alternative Splicing by Natural Antisense Transcripts is a Common Mechanism in the Human Genome
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B23 |
Orna Man, Yitzhak Pilpel: Phenotypic Divergence among Diverse Yeast Species is Affected by Translational Control Signals in Protein Coding Sequence
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B25 |
Martin Akerman, Yael Mandel-Gutfreund: Choosing the End: Regulation of Alternative 3' Splice Sites
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B29 |
Lilach Soreq, Adi Gilboa-Geffen, Paul Lacoste, Hagai Bergman, Sonia Berrih-Aknin, Hermona Soreq: Approaching Alternative Splicing Patterns in Exon Microarray Data from Thymoma Tumors
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B31 |
Igor Ulitsky, Adi Maron-Katz, Amos Tanay, Chaim Linhart, Israel Steinfeld, Roded Sharan, Yosef Shiloh, Ran Elkon, Ron Shamir: EXPANDER - A One-Stop Shop for Microarray Data Analysis
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B32 |
Yefim Ronin, Irine Ronin: A Mix of Bernoulli Distributions for Identification of Differentially Expressed Genes Detected by Replicated Microarray
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B34 |
Eduardo Eyras, Mireya Plass: Differentiated Evolutionary Rates in Alternative Exons and the Implications for Splicing Regulation
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B36 |
J. Hicks, A. Krasnitz, B. Lakshmi, X. Zhao, L. Norton, T. Sorlie, A.-L. Borresen-Dale, A. Zetterberg, P. Lundin, M. Wigler: Computational Analysis of ROMA-derived Copy Number Variations in Cancer
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B38 |
Nicolas Delhomme, Natalia Becker, Felix Engel, Frederic Blond, Peter Lichter, Grischa Toedt: CrossChip: A Tool for Correlating Gene Expression Data with Genomic Imbalances
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B43 |
Sonya Liberman, Nir Friedman, Hanah Margalit: Predicting Novel Transcription Factor Binding Sites in Human Using a Machine Learning Approach Late-Breaking Results
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C: Computer-aided drug design
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C02 |
Dilimulati Yusufujiangaili: An Alternative Method for the Evaluation of Docking Performance: Real Space R Value (RSR) vs. RMSD
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C03 |
Menachem Fromer, Chen Yanover, Julia Shifman, Yair Weiss: A Probabilistic Approach to the Design of Structural Selectivity of Proteins
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C04 |
Hilda David, Yael Mandel-Gutfreund: Analysis of Antibiotic Binding Pockets on the Ribosome Large Subunit using Structure-Based Networks
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C05 |
Assaf Avihoo, Danny Barash: Computational Design of RNA Structural Switches from Building Blocks
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C07 |
Itay Mayrose, Tomer Shlomi, Nimrod D. Rubinstein, Jonathan M. Gershoni, Eytan Ruppin, Roded Sharan, Tal Pupko: Mapping Protein-Protein Interfaces using Combinatorial Libraries
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C08 |
Hadar Benyamini, Chen Katz, Shahar Rotem, Assaf Friedler: Revealing the Interaction Network of the Pro-apoptotic Protein ASPP2: Combination of Docking and Experiment Late-Breaking Results
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D: Databases & database integration
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D01 |
Asaf Madi, Alexandra Sirota, Tzvika Keilin, Tzvika Kushnirski, Keren Alfasi, Elad Balmor, Anat Katz, Eytan Shvimmer, Hanne Volpin: GreenExpress: A Web-Based Bioinformatics Infrastructure for Plant Genomic Information
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D02 |
Alexandra Sirota, Hanne Volpin, Asaf Madi, Rivka Hadas: The Israeli Gene Bank Documentation Center: A Novel Infrastructure for Knowledge Discovery
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D03 |
Carlos Prieto, Javier De Las Rivas: APID, an Integrated Web Platform to Explore and Evaluate Protein-Protein Interaction Networks
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D04 |
Alexander Gout, Neilson Martin, David Ravine: A Locus Specific Gene Variant Database for Autosomal Dominant Polycystic Kidney Disease: PKDB
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D05 |
Denis Shestakov, Tapio Salakoski: XML Format for Codon Usage Data
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D07 |
S. Ron, L. Strichman-Almashanu, M. Shmoish, O. Greenshpan, A. Sirota, A. Madi, T. Iny-Stein, N. Rosen, I. Dalah, O. Shmueli, M. Safran, Y. Aumann, D. Lancet: GeneDecks: Gene-Set Analyses of GeneCards Annotations
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D08 |
Tim Harder, Iddo Friedberg, Adam Godzik: JAFA: A Protein Function Prediction Meta-Server
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D10 |
Stefan Goetz, Ana Conesa, Juan Miguel Garcia-Gomez, Manuel Talon, Montserrat Robles: Functional Annotation with Blast2GO v.2: A Comprehensive Gene Ontology Based Framework for Function Analysis
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D11 |
Jan Baumbach, Sven Rahmen, Andreas Tauch: CoryneRegNet: An Integrative Bioinformatics Platform for the Analysis of Transcription Factors and Regulatory Networks
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D13 |
Michael Han, Todd Harris, William Spooner, Lincoln Stein, Richard Durbin, The WormBase Consortium: WormBase - A Comprehensive Resource for C. elegans
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D14 |
Florian Odronitz, Martin Kollmar: Two Web Applications: A Tool for Protein Family Analysis and a Resource for Genomic Research
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D15 |
Jae-Hun Choi, Jong-Min Park, Soo-Jun Park: Predicting Homologous Complexes in Large Protein-Protein Interaction Networks
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D17 |
Myungeun Lim, Myung-Guen Chung, Yong-Ho Lee, Soo-Jun Park: Implementation of a Dynamic Query Processing Model to Support Biological Data Integration
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D19 |
Olga Krebs, Andreas Weidemann, Ulrike Wittig, Renate Kania, Martin Golebiewski, Saqib Mir, Isabel Rojas: SABIO-RK: Integrating Reaction Kinetics Data for Systems Biology
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D20 |
Darren Otgaar, Junaid Gamieldien, Fernando Martinez, Dan Jacobson: DigraBase - A Multigraph-based Data Store for Integrating Biological Data
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D21 |
Amnon Shabo, Dolev Dotan, Ohad Greenshpan: The Seventh Layer of Clinical Genomics - An Infrastructure for Using Genomic Data in Healthcare Late-Breaking Results
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D22 |
Ilya Venger, Sergey Gerzon, Ilana Rogachev, Sergey Malitsky, Asaph Aharoni: MetaboBase: A Computational Platform for Metabolomics Data Integration, Storage and Interpretation
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E: Evolution & phylogenetics
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E01 |
Joanna Elson, Robert Lightowlers, Neil Howell: Keeping a Watchful Eye for Mammalian mtDNA Recombination
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E02 |
Tsviya Olender, Ester Feldmesser, Ronny Aloni, Doron Lancet: Molecular Recognition and Evolution in the Olfactory Receptor Gene Family
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E03 |
Humberto Peralta, Gabriela Guerrero, Alejandro Aguilar, Jaime Mora: Genomic Coevolution of Syntenic Genes in Rhizobiales
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E04 |
Juris Viksna, David Gilbert: Analysis of Probabilities of Evolutionary Changes in Protein Structures
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E05 |
Neta S. Zuckerman, Katy McCann, Christian H. Ottensmeier, Freda S. Stevenson, Ramit Mehr: Lineage Tree Analysis and the Dynamics of FL and DLBCL
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E06 |
Ilan Wapinski, Nir Friedman, Avi Pfeffer, Aviv Regev: Trees and Forests: A Genome-Wide Reconstruction of Orthologous Groups and their Evolution
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E08 |
Julie Baussand, Alessandra Carbone: Periodic Distribution of Hydrophobic Amino-Acids Use for Distantly Related Proteins Alignment and Homology Search
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E09 |
Osnat Penn, Tal Pupko: A Covarion-like Evolutionary Model for the Detection of Rate Shifts
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E10 |
Philipp W. Messer, Peter F. Arndt: The Evolution of the Human Genome: Prevalence of Tandem Duplications on Small Scales
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E11 |
Adi Doron-Faigenboim, Tal Pupko: Converting Empirical Amino-Acid Replacement Matrices into Codon-Based Substitution Matrices
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F: Metabolomics
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F01 |
Karsten Hiller, Beatrice Benkert, Andreas Grote, Bernhard Thielen, Richard Munch, Dietmar Schomburg, Dieter Jahn: The Metabolomic Landscape: Emergent Self Organizing Maps for Metabolome Analysis
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F02 |
Ilya Venger*, Ilana Rogachev*, Tali Mandel, Yitzhak Pilpel, Asaph Aharoni: Metabolomics in Plants and Yeast: Gene Function and Metabolic Pathway Discovery via Analytical Chemistry, Chemometrics and Computational Biology
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G: Ontologies
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G01 |
Myung-Guen Chung, Myung-Eun Lim, Myung-Nam Bae, Yong-Ho Lee, Soo-Jun Park: Design Principles of Ontology-based Query and Development of Ontology Wrapper
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H: Pathways, networks & systems
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H01 |
Einat Zalckvar, Adi Kimchi: System Level Analysis of the Cell Death Network via RNAi Knock-Down Experiments
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H02 |
Shay Stern, Tali Dror, Elad Stolovicki, Naama Brenner, Erez Braun: Genome-Wide Adaptive Reprogramming of Gene Regulation in Yeast
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H03 |
Andrew Capaldi, Tommy Kaplan, Ying Liu, Kristen Cook, Naomi Habib, Yoseph Barash, Nir Friedman, Aviv Regev, Erin K O'Shea: Structure and Function of Transcriptional Networks: Rewiring and Crosstalk in the Yeast Osmolarity Pathway
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H04 |
Axel von Kamp, Stefan Schuster: Decomposition of Metabolic Networks for Distributed Computation of Elementary Modes
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H05 |
Gali Niv, Hanah Margalit: Understanding the Integrated Network of Signal Transduction and Protein-Protein Interaction using Network Analysis Tools
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H06 |
Israel Steinfeld, Ron Shamir, Martin Kupiec: A Systematic Analysis of Chromatin Modifiers that Act as Transcriptional Co-Factors in the Yeast Genome
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H07 |
Tali Goren, Ohad Manor, Tommy Kaplan, Nir Friedman: ENRICH: A Computational Aid Tool for Finding Enrichment in Various Data Sets
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H08 |
Naomi Habib, Tommy Kaplan, Hanah Margalit, Nir Friedman: A Novel Bayesian Probabilistic Method for Comparing Transcription Factor Binding Site Profiles
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H09 |
Joan Planas-Iglesias, Daniel Aguilar, Baldomero Oliva: On the Construction of a Hypothetical Metabolic Network: Analysis of the Intersection with the Interactome
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H10 |
Moran Yassour, Tommy Kaplan, Ariel Jaimovich, Chih Long Liu, Guocheng Yuan, Oliver J Rando, Nir Friedman: Genome-Scale Identification of Nucleosome Positions during Cell Cycle Reveals Insights on Transcriptional Regulation
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H11 |
Ana Conesa, Jose Manuel Prats-Montalban, Maria Jose Nueda, Manuel Talon, Alberto Ferrer: A Multi-way Strategy for the Integrative Analysis of High Dimensionality
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H12 |
Todd A. Gibson, Debra S. Goldberg: Modeling Evolution of Gene and Protein Interactions
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H15 |
Philippa Melamed, Stefan Lim, Min Luo, Mingshi Koh: Derepression of the follicle stimulating hormone beta subunit gene by GnRH involves CaMKI, calcineurin and Nur77
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H17 |
Ying Wang, Natasa Przulj: Biological Implications of Anti-motifs in Transcriptional Regulation Networks
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H18 |
Alexandra Shulman-Peleg, Oranit Dror, Dina Schneidman, Roded Sharan, Ruth Nussinov, Haim Wolfson: Structural Similarity is a Prominent Feature of Genetic Interactions
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H21 |
Ho-Youl Jung, Myung-Guen Chung, Minho Kim, Pora Kim, Seon-Hee Park, Soo-Jun Park: preCLUE: PREdiction system for CLUstering and regulatory rElation
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H24 |
Felix Engel, Nicolas Delhomme, Natalia Becker, Frederic Blond, Peter Lichter, Grischa Toedt: Comprehensive Gene Pathway Analysis - A Tool for Pathway Analysis of CGH and Microarray Data
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H27 |
Joan Valls, Monica Grau, Xavier Sole, Pilar Hernandez, David Montaner, Joaquin Dopazo, Miguel A Peinado, Gabriel Capella, Miguel Angel Pujana, Victor Moreno: Combining Inference from Differential Expression and Variability in Microarray Data Analysis
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H28 |
Hilah Gal, Ninette Amariglio, Luba Trakhtenbrot, Jasmine Jacob-Hirsh, Ofer Margalit, Abraham Avigdor, Arnon Nagler, Sigal Tavor, Liat Ein-Dor, Tsvee Lapidot, Eytan Domany, Gideon Rechavi, David Givol: Gene Expression Profiles of AML Derived Stem Cells; Similarity to Hematopoietic Stem Cells
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H29 |
Ran Elkon, Rita Vesterman, Nira Amit, Igor Ulitsky, Mali Weisz, Nir Orlev, Giora Sternberg, Ran Blekhman, Jackie Assa, Yosef Shiloh, Ron Shamir: SPIKE - A Database, Visualization and Analysis Tool for Signaling Pathways
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H31 |
Pablo Minguez, Fatima Al-Shahrour, David Montaner, Joaquin Dopazo: Functional Profiling of Microarray Experiments Using Text-Mining Derived Bioentities
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J: Proteomics
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J01 |
M. Portnoi, A. Adawi, D. Kafka, N. Porat, R. Dagan, Y. Mizrachi-Nebenzahl: Comparative Proteomics of Different Morphological Types of Streptococcus pneumoniae
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J02 |
Witold Dyrka, Jean-Christophe Nebel: A Pseudo Probabilistic Context-Free Grammar for the Detection of Binding Sites from a Protein Sequence
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J03 |
Zohar Itzhaki, Eyal Akiva, Yael Altuvia, Hanah Margalit: Evolutionary Conservation of Domain-Domain Interactions
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J04 |
Matthias E. Futschik, Gautam Chaurasia, Erich Wanker, Hanspeter Herzel: Comparative Assessment of Large-Scale Maps of the Human Protein Interactome
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J06 |
Thorsten Schmidt, Dmitrij Frishman: PROMPT: A Protein Mapping and Comparison Tool
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J07 |
Bareket Dassa, Shmuel Pietrokovski: Sequence to Function Analysis of New Protein-Splicing Domains
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J08 |
Iris Bahir, Michal Linial: Functional Identification of Protein Signatures
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J09 |
Alexey Dolgov, Elena Bogacheva, Alexey Chulichkov, Alexander Shishkov, Ekaterina Vedeniapina: Computer Simulation in Tritium Planigraphy
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J13 |
Daniel K Shenfeld, Itamar Kass, Joshua Manor, Isaiah T Arkin: A Geometric Approach to Integration of Site-Directed FTIR Data on Transmembrane Proteins as a Base for Modeling
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J14 |
Ole Schulz-Trieglaff, Clemens Gropl, Joachim Thiemann, Knut Reinert, Hartmut Schlueter: Peptide Biomarker Discovery for the Diagnosis of Renal Allograft Rejection
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J15 |
Karin Noy, Anne-Katrin Emde, Daniel Fasulo: A Novel Method for Model-Based Feature Extraction in Mass Spectra
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J16 |
Jonathan A. Epstein, Matthew T. Olson, Alfred L. Yergey: De Novo Peptide Sequencing Using Exhaustive Enumeration of Peptide Composition and MALDI TOF/TOF
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J17 |
Lawrence Okoror, Bayo Momodu, Ibiwumi Oloye: Protein Function Prediction of a Lassa Virus Glycoprotein from a Newly Extracted Lassa Virus Gene Late-Breaking Results
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J18 |
Andrey Alexeyenko, Erik Sonnhammer: Networks of Functional Coupling in Eukaryotes Late-Breaking Results
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K: Sequence analysis
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K02 |
Marjanca Starcic Erjavec, Marko Erjavec, Darja Zgur-Bertok: A Computer Program to Predict Gene Position and Reveal Inconsistent Designation of Similar Genes in Different Organisms
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K03 |
Orly Noivirt, Miriam Eisenstein, Amnon Horovitz: Detection and Reduction of Evolutionary Noise in Correlated Mutation Analysis
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K06 |
Ying Sheng, Par G. Engstrom, Boris Lenhard: Mammalian microRNA Prediction using a Support Vector Machine Model of Sequence and Structure
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K08 |
Noam Kaplan, Michal Linial: Classifying High-Level Protein Functionality: Toxins and Toxin-Like Proteins
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K12 |
Eyal Akiva, Hanah Margalit: Built-in Switches Allow Versatility in Domain-Domain Interactions
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K13 |
Yaniv Loewenstein, Elon Portugaly, Michal Linial: Augmenting Protein Sequence Alignment of Remote Homologues using Secondary Structure Confidence Scores
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K14 |
Holger Klein, Martin Vingron: Using Co-occurrence of Transcription Factor Binding Sites for the Assessment of Regulatory Potential
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K15 |
Assaf Gottlieb, Tsviya Olender, Doron Lancet , David Horn: Olfactory Receptors in Peptide Space
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K17 |
Oliver Keller, Katharina Surovcik, Thomas Brodag, Rainer Merkl, Roman Asper, Carsten Damm, Stephan Waack: SIGI-HMM: Score-Based Prediction of Genomic Islands in Prokaryotic Genomes using HMMs
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K18 |
Mindaugas Margelevicius, Ceslovas Venclovas: A New Approach for Estimation of Statistical Significance in Sequence Profile-Profile Comparisons
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K20 |
Jaina Mistry, Alex Bateman, Rob Finn: An Algorithm for the Identification of Active Site Residues Using Pfam Alignments
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K23 |
Alexander Bolshoy: Information Content and Sequence Periodicity
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K24 |
Steinar Thorvaldsen, Tor Fla, Nils P. Willassen: DeltaProt: Toolbox for Molecular Comparison of Proteins based on Sequence Alignments
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K25 |
Elon Portugaly, Nathan Linial, Michal Linial: Assessment of Protein Domain Classifications: Automatic Sequence-Based Method and Methods based on 3D Structures
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K27 |
Costas Tsirigos, Pantelis Bagos , Vasilis Promponas, Stavros Hamodrakas: Enhancing Transmembrane Beta-Barrel Topology Prediction by Information Encoded in Multiple Sequence Alignments
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K28 |
Johanna Weindl, Pavol Hanus, Zaher Dawy, Juergen Zech, Joachim Hagenauer, Jakob C. Mueller: On the Kinetics of Prokaryotic Transcription Initiation
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K29 |
Avihay Apatoff, Eddo Kim, Yossef Kliger: Towards Alignment Independent Quantitative Assessment of Homology Detection Methods Late-Breaking Results
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L: Simulation & system dynamics
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L04 |
Gil Hornung, Brian Berkowitz, Naama Barkai: Morphogen Gradient Formation in a Complex Environment: An Anomalous Diffusion Model
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L05 |
Sivan Pearl, Chana Gabay, Amos Oppenheim, Nathalie Q. Balaban: Non Genetic Individuality in Host-Phage Interaction
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L06 |
Matej Butala, Milan Hodoscek, Darja Zgur-Bertok: LexA Repressor - DNA Model, Binding Characteristics
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L07 |
Tal El-Hay, Nir Friedman, Daphne Koller, Raz Kupferman: Continuous Time Markov Networks
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L08 |
Yossi Tsfadia, Jonathan Kadmon, Anna Seltzer, Ran Friedman, Esther Nachliel, Menachem Gutman: Molecular Dynamics Simulation for the Complete Entry of Fatty Acid-Ligand of Toad Liver FABP through the Portal Region
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L09 |
Yuri Porozov, Raluca Andrei, Monica Zoppe': Visualization and Modelling of Moving Biomolecules: A New Approach Based on Professional 3D Animation Software
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L10 |
Anna Feldman-Salit, Domantas Motiejunas, Razif Gabdoulline, Markus Wirtz, Rudiger Hell, Rebecca Wade: Protein Recognition Processes: The "Cysteine Synthase" Complex
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L11 |
Mali Salmon-Divon, Sofia Johansson, Maria Johansson, Marjet Elemans, Petter Hoglund, Ramit Mehr: Modeling Natural Killer Cell Development and Repertoire Formation
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L14 |
Dan Fishelovitch, Haim J. Wolfson, Ruth Nussinov: Structural Dynamics of the Cooperative Binding of the Human Cytochrome P450 (Cyp450) 3A4
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L15 |
Vladimir Vainstein, Yuval Ginosar, Meir Shoham, Anton Ianovski, Alexander Rabinovich, Yuri Kogan, Vera Selitser, Zvia Agur: Improving Cancer Therapy by Doxorubicin and GCSF: Insights from a Computerized Mathematical Model of Granulopoiesis
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L17 |
Barbara Di Camillo, Gianna Toffolo, Claudio Cobelli: A Gene Network Simulator Integrating Boolean Regulation in a Continuous Dynamic Model
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L18 |
Dace Ruklisa, Alvis Brazma, Karlis Cerans, Juris Viksna: Analysis of Dynamics of Gene Regulatory Networks under Finite State Linear Model
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M: Structural bioinformatics
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M03 |
Angelo Favia, Janet Thornton, Rafael Najmanovich, Fabian Glaser, Irene Nobeli: A Computational Study of Substrate Specificity in the Family of Short-Chain Dehydrogenases
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M05 |
Masha Y. Niv, Lucy Skrabanek, Richard J. Roberts, Harold Scheraga, Harel Weinstein: Scan2S: Regular Expression Scan Algorithm for Detection of Type II Restriction Endonucleases
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M06 |
Ofer Rahat, Gideon Schreiber: Evolutionary Cluster Conservation of Proteins
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M08 |
Marcin Krol, Paul A. Bates: Scoring Protein-Protein Complexes using MD-Generated Ensembles
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M09 |
Daniel Barthel, Jonathan D. Hirst, Natalio Krasnogor: The ProCKSi-Server: A Server for Similarity Comparisons of Protein Structures
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M10 |
Mickey Kosloff, Barry Honig: Computational Investigations of the Reversible Interactions of G-proteins with Membranes Surfaces
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M11 |
Mickey Kosloff, Rachel Kolodny, Barry Honig: Sequence-Similar, Structure-Dissimilar Protein Pairs in the PDB
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M12 |
Leon Peshkin, Virginia Savova: Hierarchical Structure Induction by Compression in Graphs
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M13 |
Mati Cohen, Dana Reichmann, Gideon Schreiber: Protein-Protein Interactions: De-Novo Rational Protein-Interface Design
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M15 |
Michal Rabani, Michael Kertesz: Systematic Discovery of Functional RNA Structural Motifs
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M16 |
Milana Frenkel-Morgenstern, Shmuel Pietrokovski: Refining Intra-Protein Contact Predictions using Graph Analysis
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M17 |
Chen Yanover, Tomer Hertz, Ora Schueler-Furman: "Learning to Learn" HLA-Peptide Binding Specificity using Supertypes
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M18 |
Hani Neuvirth, David Birnbaum, Uri Heinemann, Naftali Tishby, Gideon Schreiber: ProMateus: An Open Research Approach to Protein Binding Sites Analysis
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M19 |
Javier Garcia-Garcia, Baldomero Oliva: A WebServer Integrative Approach for the Combination and Validation of Inter-residue Contacts
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M20 |
Inna Myslyuk, Avihay Apatoff, Avraham Hury, Ron Unger, Shulamit Michaeli: Analysis of Sequence and Structure Features of H/ACA Like Box SnoRNA in Trypanosomatids
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M21 |
Hector Romero, Martin Grana, Pablo Dans, Hugo Naya: Scaling in Biology: Exploring Surface-to-Volume Ratios and other Properties within Thousands of X-ray Structures
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M22 |
Nir London, Ora Furman Schueler: Funnel Hunting in a Rough Terrain: Learning and Discriminating Energy Funnels
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M23 |
Einat Sitbon, Shmuel Pietrokovski: Effects of Protein Sequence Conservation on Protein Secondary Structure Patterns
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M25 |
Vladimir Potapov, Dana Reichmann, Vladimir Sobolev, Marvin Edelman, Gideon Schreiber: High Affinity and Binding Specificity of Computationally Redesigned Protein Interfaces
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M26 |
Alexander Churkin, Ofer Peleg, Danny Barash: Predictions of Single Point Mutations that Substantially Alter the RNA Secondary Structure
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M27 |
Shula Shazman, Yael Mandel-Gutfreund: A Machine Learning Approach for Predicting RNA-Binding Proteins from Three Dimensional Structure
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M28 |
Idan Gabdank, Assaf Avihoo, Danny Barash, Michal Shapira: In Search of Short RNA Thermoswitches Using Computational and Experimental Analyses
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M29 |
Marian Novotny, Henrik Hansson, Helena Strombergsson, Gerard J. Kleywegt: Detection of Out-Of-Register Errors in Protein Crystal Structures
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M30 |
Benjamin Schuster-Boeckler, Robert D. Finn, Alex Bateman: Are There More Structural Interaction Types than Previously Thought?
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M32 |
Mariana Babor, Sergey Gerzon, Barak Raveh, Vladimir Sobolev, Marvin Edelman: Efficient Prediction of Metal Binding Sites in Apo-Protein Structures
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M33 |
Chan-Yong Park, Sung-Hee Park, Dae-Hee Kim, Soo-Jun Park, Man-Kyu Sung, Hongro-Lee, Chi-Jung Hwang: Fast Protein Structure Alignment by Joining Similar Substructure Pair
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M34 |
Noga Kowalsman, Miriam Eisenstein: Inherent Limitations in Protein-Protein Docking Procedures
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M35 |
Dina Schneidman, Yuval Inbar, Ruth Nussinov, Haim Wolfson: Prediction of Symmetric Assemblies by Docking
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M36 |
Oranit Dror, Yuval Inbar, Dina Schneidman, Ruth Nussinov, Haim Wolfson: Pharmacophore Detection: Multiple Flexible Alignment of Drug-Like Molecules
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M38 |
Michal J. Gajda, Marta Kaczor, Alan M. Friedman, Chris Bailey-Kellogg, Janusz M. Bujnicki: FILTREST3D: A Simple Method for Discrimination of Multiple Structural Models against Spatial Restraints
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M39 |
Yuval Inbar, Ruth Nussinov, Haim J. Wolfson: 3D Segmentation of Low and Intermediate Resolution EM Density Maps
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M40 |
Jan E. Gewehr, Fabian Birzele, Ralf Zimmer: Optimizing Scoring Matrices for Alignment Ranking
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M43 |
Michal J. Gajda, Janusz M. Bujnicki, Chris Bailey-Kellogg: Contact Prediction using Secondary Structure Pairings
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M44 |
Majid Masso, Iosif I. Vaisman: Accurate Prediction of Enzyme Mutant Activity based on a Multibody Statistical Potential
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M45 |
Gregory M. Reck, Iosif I. Vaisman: A Novel Approach to Protein-Water Interaction Characteristics Using Computational Geometry
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M46 |
Todd Taylor, Iosif I. Vaisman: Protein Structural Domain Assignment Using a Delaunay-Tessellation Derived Lattice
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M47 |
Dietlind Gerloff, Shakir Ali, Xueping Quan, Rupert Koenig: A Simplified Representation of Electrostatic Model Surfaces for Addressing Protein-Protein Interaction Problems
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M48 |
Ami Levy-Moonshine, Tatiana Maximova, Chen Keasar: A Cooperative Energy Term for Hydrogen Bonds
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N: Text mining
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N01 |
Irena I. Artamonova, Goar Frishman, Mikhail S. Gelfand, Dmitrij Frishman: Association Rule Mining and Protein Databases: Exceptions Point to Annotation Errors
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N02 |
David Alarcon Gallego, Baldomero Oliva: Finding Optimal Microarray Platform to Analyze High-Risk Pathologies
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N04 |
Evangelos Pafilis: Cross-Discipline Knowledge Integration
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P: Transcriptomics
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P01 |
Itay Tirosh, Adina Weinberger, Naama Barkai: A Conserved Genetic Signature of Gene Expression Divergence
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P02 |
Carmiya Bar-Or, Eugene Novikov, Anat Reiner, Henryk Czosnek, Hinanit Koltai: Derivation of Valid Biological Data from Cross-Species Hybridizations (CSHs) to cDNA Microarrays
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P03 |
Bruno Zeitouni, Bruno Monier, Michel Semeriva, Laurent Perrin: Expression Profiling of Drosophila Heart Remodelling during Metamorphosis
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P04 |
Paz Polak, Eytan Domany: Regulating Signals on Alu Play a Significant Role in Development
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P07 |
Roi Gilat, Dorit Shweiki: Embryonic Genes are Reactivated in Human Cancers
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P09 |
Levent Carkacioglu, Ozlen Konu, Tolga Can, Volkan Atalay, Rengul Cetin-Atalay: Expression Pattern Analysis of Housekeeping Genes Across Large Number of Microarray Experiments
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P10 |
V Strumba, T Blackwell, E Sliwerska, R Bernard, J Li, AJ Schatzberg, EG Jones, WE Bunney, RM Myers, H Akil, SJ Watson, M Burmeister: Effect of Functional Variants on Gene Expression in Human Brain
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P11 |
Hadar Less, Gad Galili: Elucidating Factors Influencing Probes Sensitivity and Specificity in High Density Micro Arrays Using Affymetrix Setup
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P12 |
Yuval Tabach, Anat Reiner, Ran Brosh, Assif Yitzhaky, Varda Rotter, Eytan Domany: Over Represented and Functional Human Transcription Factor Binding Motifs Appear Mainly Within 200bp from the TSS
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P13 |
Tali Sadka, Ulrike Gaul, Eran Segal: A Thermodynamic Model for Understanding Spatio-Temporal Control of Gene Expression
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P14 |
Ananyo Choudhury, Ansuman Lahiri: Analysis of Regulatory Element and Functional Class Associations: Comparison in Arabidopsis and Other Plants
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P16 |
Merja Oja, Jaakko Peltonen, Samuel Kaski: A Hidden Markov Model Mixture for Estimating Human Endogenous Retrovirus Activities from Expressed Sequence Databases
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P17 |
Or Zuk, Liat Ein-Dor, Eytan Domany: Thousands of Samples are Needed to Generate a Robust Gene List for Predicting Outcome in Cancer
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P18 |
Roy Varshavsky, David Horn, Michal Linial: Clustering Algorithms Optimizer - A Framework for Large Datasets
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P19 |
Ophir Shalem, Yitzhak Pilpel, Eran Segal: Genome-Wide mRNA Decay Profiles Modeled by First-Principles Kinetics
|
P20 |
Henning Redestig, Dirk Repsilber, Florian Sohler, Joachim Selbig: Integrating Functional Knowledge during Sample Clustering for Microarray Data using Unsupervised Decision Trees
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P22 |
Dikla Dotan Cohen, Avraham A. Melkman, Simon Kasif: Seeing the Forest for Hierarchical Subtrees: Improving Cluster Coherence and Functional Prediction by Tree Snipping
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P23 |
Guy Horev, Greg I. Elmer, Ilan Golani, Neri Kafkafi, Norman H. Lee, Anat Reiner, Daniel Yekutieli, Yoav Benjamini: Wall-Guidance and Attraction in Mice Correlate With Gene-Expression Patterns in Specific Brain Areas
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Q: Other
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Q01 |
Andreas Grote, Alex Dalpiaz, Guido Melzer, Ursula Rinas, Bernd Northemann, Petra Dersch, Dietmar C. Hempel, Dieter Jahn: Investigations on the Systems Biology of Aspergillus niger
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Q02 |
Hugo Ceulemans, Lijs Beke, Mathieu Bollen: The Stability of the Ancestral Eukaryotic Protein Complexome in Extant Eukaryotes and its Implications
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Q03 |
Tanya Y. Berger-Wolf, Ilya R. Fischhoff, Daniel I. Rubenstein, Jared Saia, Siva R. Sundaresan: A Computational Framework for Analysis of Dynamic Social Structures
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Q04 |
Avital Sadot, Jasmin Fisher, Dan Barak, Yishai Admanit, Michael J. Stern, E. Jane Albert Hubbard, David Harel: Towards Verified Biological Models
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Q05 |
Tessa E. Pronk , Simon Polstra, Andy D. Pimentel, Marco Roos, Timo M. Breit: Evaluating the Design of Biological Cells Using a Computer Workbench
|
Q08 |
Fernando Martinez, Junaid Gamieldien, Darren Otgaar, Dan Jacobson: BioFrame: A Java-based Software Development framework for Bioinformatics
|
Q09 |
Michael Levitt, Peter S. Stern: Sequence Dependence of DNA Conformation and Deformation Calculated by Normal Mode Dynamics
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Q11 |
Dan Jacobson, Nicky Mulder, Trushar Shah: Building Bioinformatics across Africa
|
Q18 |
Michael J. Moorhouse, Bert Eussen, Tobias A. Knoch, Michael Lesnussa, Albert D. M. E. Osterhaus, Frank Grosveld, Annelies deKlein: G3DV: A New 3D Genome Browser and Experimental Data Viewer Late-Breaking Results
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