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14th ISMB 2006: Fortaleza, Brazil (Supplement of Bioinformatics)
- Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, Fortaleza, Brazil, August 6-10, 2006. 2006
- Philip E. Bourne, Søren Brunak
:
ISMB 2006. 1-2 - ISMB 2006 Organization. 3-7
- Andrey Alexeyenko
Automatic clustering of orthologs and inparalogs shared by multiple proteomes. 9-15 - Iris Antes, Shirley W. I. Siu, Thomas Lengauer:
DynaPred: A structure and sequence based method for the prediction of MHC class I binding peptide sequences and conformations. 16-24 - Kiyoko F. Aoki-Kinoshita
ProfilePSTMM: capturing tree-structure motifs in carbohydrate sugar chains. 25-34 - Fabrice Armougom, Sébastien Moretti
The iRMSD: a local measure of sequence alignment accuracy using structural information. 35-39 - Sitaram Asur, Pichai Raman, Matthew Eric Otey, Srinivasan Parthasarathy
A model-based approach for mining membrane protein crystallization trials. 40-48 - Karsten M. Borgwardt
Integrating structured biological data by Kernel Maximum Mean Discrepancy. 49-57 - Giovanni Bottegoni
AClAP, Autonomous hierarchical agglomerative Cluster Analysis based protocol to partition conformational datasets. 58-65 - Patryk Burek, Robert Hoehndorf
A top-level ontology of functions and its application in the Open Biomedical Ontologies. 66-73 - Bruno Contreras-Moreira
Comparative footprinting of DNA-binding proteins. 74-80 - Frank DiMaio, Jude W. Shavlik, George N. Phillips:
A probabilistic approach to protein backbone tracing in electron density maps. 81-89 - Chuong B. Do, Daniel A. Woods, Serafim Batzoglou:
CONTRAfold: RNA secondary structure prediction without physics-based models. 90-98 - Timothy M. D. Ebbels
springScape: visualisation of microarray and contextual bioinformatic data using spring embedding and an "information landscape". 99-107 - Elena J. Edelman, Alessandro Porrello, Justin Guinney
Analysis of sample set enrichment scores: assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles. 122-116 - Logan Everett, Li-San Wang, Sridhar Hannenhalli:
Dense subgraph computation via stochastic search: application to detect transcriptional modules. 117-123 - Adrien Fauré
Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle. 124-131 - Bernd Fischer
Semi-supervised LC/MS alignment for differential proteomics. 132-140 - Barrett C. Foat, Alexandre V. Morozov
Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE. 141-149 - Eugene Fratkin, Brian T. Naughton, Douglas L. Brutlag, Serafim Batzoglou:
MotifCut: regulatory motifs finding with maximum density subgraphs. 156-157 - Hendrik Fuß, Werner Dubitzky, C. Stephen Downes, Mary Jo Kurth:
Bistable switching and excitable behaviour in the activation of Src at mitosis. 164-165 - Benjamin Georgi, Alexander Schliep
Context-specific independence mixture modeling for positional weight matrices. 166-173 - Ivelin Georgiev, Ryan H. Lilien, Bruce Randall Donald:
Improved Pruning algorithms and Divide-and-Conquer strategies for Dead-End Elimination, with application to protein design. 174-183 - Olivier Gevaert
Predicting the prognosis of breast cancer by integrating clinical and microarray data with Bayesian networks. 184-190 - Erik Granseth, Håkan Viklund, Arne Elofsson
ZPRED: Predicting the distance to the membrane center for residues in alpha-helical membrane proteins. 191-196 - Jana Hertel
Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data. 197-202 - Fabien P. E. Huard, Charlotte M. Deane
Modelling sequential protein folding under kinetic control. 203-210 - Phil Hyoun Lee, Hagit Shatkay:
BNTagger: improved tagging SNP selection using Bayesian networks. 211-219 - Hyunchul Jang, Jaesoo Lim, Joon-Ho Lim, Soo-Jun Park, Kyu-Chul Lee
Finding the evidence for protein-protein interactions from PubMed abstracts. 234-226 - Nebojsa Jojic, Manuel Reyes-Gomez, David Heckerman, Carl Myers Kadie, Ora Schueler-Furman
Learning MHC I - peptide binding. 227-235 - Neil Christopher Jones, Pavel A. Pevzner:
Comparative genomics reveals unusually long motifs in mammalian genomes. 236-242 - Emre Karakoç, Artem Cherkasov, Süleyman Cenk Sahinalp:
Distance based algorithms for small biomolecule classification and structural similarity search. 243-251 - Firas Khatib, Matthew T. Weirauch, Carol A. Rohl:
Rapid knot detection and application to protein structure prediction. 258-259 - Mustafa Kirac
Annotating proteins by mining protein interaction networks. 260-270 - Geoffrey Koh, Huey Fern Carol Teong, Marie-Véronique Clément, David Hsu, P. S. Thiagarajan:
A decompositional approach to parameter estimation in pathway modeling: a case study of the Akt and MAPK pathways and their crosstalk. 271-280 - Lutz Krause
Finding novel genes in bacterial communities isolated from the environment. 281-289 - Gorka Lasso
A combinatorial pattern discovery approach for the prediction of membrane dipping (re-entrant) loops. 290-297 - Tien-ho Lin, Eugene W. Myers, Eric P. Xing:
Interpreting anonymous DNA samples from mass disasters - probabilistic forensic inference using genetic markers. 298-306 - Chunmei Liu, Bo Yan, Yinglei Song, Ying Xu, Liming Cai:
Peptide sequence tag-based blind identification of post-translational modifications with point process model. 307-313 - Yong Lu, Ronald Rosenfeld
Identifying cycling genes by combining sequence homology and expression data. 314-322 - Daniel L. Mace, Jiyoung Lee
Quantification of transcription factor expression from Arabidopsis images. 323-331 - Reuma Magori-Cohen, Yoram Louzoun, Steven H. Kleinstein:
Mutation parameters from DNA sequence data using graph theoretic measures on lineage trees. 332-340 - Denise Y. F. Mak, Yevgeniy Gelfand, Gary Benson:
Indel seeds for homology search. 341-349 - Tobias P. Mann, William Stafford Noble:
Efficient identification of DNA hybridization partners in a sequence database. 350-358 - Victor M. Markowitz, Natalia Ivanova
An experimental metagenome data management and analysis system. 359-367 - Joe Mellor, Charles DeLisi:
An equilibrium partitioning model connecting gene expression and cis-motif content. 368-374 - Jose C. Nacher, Jean-Marc Schwartz
Identification of metabolic units induced by environmental signals. 375-383 - Leelavati Narlikar, Raluca Gordân, Uwe Ohler, Alexander J. Hartemink:
Informative priors based on transcription factor structural class improve de novo motif discovery. 384-392 - Patrick Ng, Niranjan Nagarajan
Apples to apples: improving the performance of motif finders and their significance analysis in the Twilight Zone. 393-401 - Yanay Ofran, Guy Yachdav, Eyal Mozes, Ta-tsen Soong, Rajesh Nair, Burkhard Rost
Create and assess protein networks through molecular characteristics of individual proteins. 402-407 - Andrea Pierleoni
BaCelLo: a balanced subcellular localization predictor. 415-416 - Yuan (Alan) Qi, Patrycja E. Missiuro, Ashish Kapoor, Craig P. Hunter, Tommi S. Jaakkola, David K. Gifford, Hui Ge:
Semi-supervised analysis of gene expression profiles for lineage-specific development in the Caenorhabditis elegans embryo. 417-423 - Alexander Schliep
Decoding non-unique oligonucleotide hybridization experiments of targets related by a phylogenetic tree. 424-430 - Sohrab P. Shah, Xiang Xuan, Ronald J. deLeeuw, Mehrnoush Khojasteh, Wan L. Lam, Raymond T. Ng, Kevin P. Murphy:
Integrating copy number polymorphisms into array CGH analysis using a robust HMM. 431-439 - Boris E. Shakhnovich:
Relative contributions of structural designability and functional diversity in molecular evolution of duplicates. 440-445 - Hagit Shatkay, Nawei Chen, Dorothea Blostein:
Integrating image data into biomedical text categorization. 446-453 - Saurabh Sinha:
On counting position weight matrix matches in a sequence, with application to discriminative motif finding. 454-463 - Larisa N. Soldatova
An ontology for a Robot Scientist. 464-471 - Sören Sonnenburg, Alexander Zien, Gunnar Rätsch
ARTS: accurate recognition of transcription starts in human. 472-480 - Haixu Tang, Randy J. Arnold, Pedro Alves, Zhiyin Xun, David E. Clemmer, Milos V. Novotny, James P. Reilly, Predrag Radivojac:
A computational approach toward label-free protein quantification using predicted peptide detectability. 481-488 - Zhidong Tu, Li Wang, Michelle N. Arbeitman, Ting Chen, Fengzhu Sun:
An integrative approach for causal gene identification and gene regulatory pathway inference. 489-496 - Vinay Varadan, David M. Miller III, Dimitris Anastassiou:
Computational inference of the molecular logic for synaptic connectivity in C. elegans. 497-506 - Roy Varshavsky, Assaf Gottlieb, Michal Linial
Novel Unsupervised Feature Filtering of Biological Data. 507-513 - Ravi Vijaya Satya, Amar Mukherjee, Gabriela Alexe, Laxmi Parida, Gyan Bhanot:
Constructing Near-Perfect Phylogenies with multiple homoplasy events. 514-522 - Pinglang Wang, Manhong Dai, Weijian Xuan, Richard C. McEachin, Anne U. Jackson, Laura J. Scott, Brian D. Athey
SNP Function Portal: a web database for exploring the function implication of SNP alleles. 523-529 - Katy Wolstencroft
Protein classification using ontology classification. 530-538 - Nir Yosef, Alon Kaufman, Eytan Ruppin:
Inferring Functional Pathways from Multi-Perturbation Data. 539-546 - Hong Yu, Minsuk Lee:
Accessing bioscience images from abstract sentences. 547-556 - Shaojie Zhang
A sequence-based filtering method for ncRNA identification and its application to searching for riboswitch elements. 557-565
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