14. 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 BibTeX
Original Papers
- Andrey Alexeyenko, Ivica Tamas, Gang Liu, Erik L. L. Sonnhammer:
Automatic clustering of orthologs and inparalogs shared by multiple proteomes.
9-15
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- Kiyoko F. Aoki-Kinoshita, Nobuhisa Ueda, Hiroshi Mamitsuka, Minoru Kanehisa:
ProfilePSTMM: capturing tree-structure motifs in carbohydrate sugar chains.
25-34
Electronic Edition (link) BibTeX
- Fabrice Armougom, Sébastien Moretti, Vladimir Keduas, Cédric Notredame:
The iRMSD: a local measure of sequence alignment accuracy using structural information.
35-39
Electronic Edition (link) BibTeX
- Sitaram Asur, Pichai Raman, Matthew Eric Otey, Srinivasan Parthasarathy:
A model-based approach for mining membrane protein crystallization trials.
40-48
Electronic Edition (link) BibTeX
- Karsten M. Borgwardt, Arthur Gretton, Malte J. Rasch, Hans-Peter Kriegel, Bernhard Schölkopf, Alexander J. Smola:
Integrating structured biological data by Kernel Maximum Mean Discrepancy.
49-57
Electronic Edition (link) BibTeX
- Giovanni Bottegoni, Walter Rocchia, Maurizio Recanatini, Andrea Cavalli:
AClAP, Autonomous hierarchical agglomerative Cluster Analysis based protocol to partition conformational datasets.
58-65
Electronic Edition (link) BibTeX
- Patryk Burek, Robert Hoehndorf, Frank Loebe, Johann Visagie, Heinrich Herre, Janet Kelso:
A top-level ontology of functions and its application in the Open Biomedical Ontologies.
66-73
Electronic Edition (link) BibTeX
- Bruno Contreras-Moreira, Julio Collado-Vides:
Comparative footprinting of DNA-binding proteins.
74-80
Electronic Edition (link) BibTeX
- Frank DiMaio, Jude W. Shavlik, George N. Phillips:
A probabilistic approach to protein backbone tracing in electron density maps.
81-89
Electronic Edition (link) BibTeX
- Chuong B. Do, Daniel A. Woods, Serafim Batzoglou:
CONTRAfold: RNA secondary structure prediction without physics-based models.
90-98
Electronic Edition (link) BibTeX
- Timothy M. D. Ebbels, Bernard F. Buxton, David T. Jones:
springScape: visualisation of microarray and contextual bioinformatic data using spring embedding and an "information landscape".
99-107
Electronic Edition (link) BibTeX
- Elena Edelman, Alessandro Porrello, Justin Guinney, Bala Balakumaran, Andrea Bild, Phillip G. Febbo, Sayan Mukherjee:
Analysis of sample set enrichment scores: assaying the enrichment of sets of genes for individual samples in genome-wide expression profiles.
122-116
Electronic Edition (link) BibTeX
- Logan Everett, Li-San Wang, Sridhar Hannenhalli:
Dense subgraph computation via stochastic search: application to detect transcriptional modules.
117-123
Electronic Edition (link) BibTeX
- Adrien Fauré, Aurélien Naldi, Claudine Chaouiya, Denis Thieffry:
Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle.
124-131
Electronic Edition (link) BibTeX
- Bernd Fischer, Jonas Grossmann, Volker Roth, Wilhelm Gruissem, Sacha Baginsky, Joachim M. Buhmann:
Semi-supervised LC/MS alignment for differential proteomics.
132-140
Electronic Edition (link) BibTeX
- Barrett C. Foat, Alexandre V. Morozov, Harmen J. Bussemaker:
Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE.
141-149
Electronic Edition (link) BibTeX
- Eugene Fratkin, Brian T. Naughton, Douglas L. Brutlag, Serafim Batzoglou:
MotifCut: regulatory motifs finding with maximum density subgraphs.
156-157
Electronic Edition (link) BibTeX
- Hendrik Fuß, Werner Dubitzky, C. Stephen Downes, Mary Jo Kurth:
Bistable switching and excitable behaviour in the activation of Src at mitosis.
164-165
Electronic Edition (link) BibTeX
- Benjamin Georgi, Alexander Schliep:
Context-specific independence mixture modeling for positional weight matrices.
166-173
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- Olivier Gevaert, Frank De Smet, Dirk Timmerman, Yves Moreau, Bart De Moor:
Predicting the prognosis of breast cancer by integrating clinical and microarray data with Bayesian networks.
184-190
Electronic Edition (link) BibTeX
- Erik Granseth, Håkan Viklund, Arne Elofsson:
ZPRED: Predicting the distance to the membrane center for residues in alpha-helical membrane proteins.
191-196
Electronic Edition (link) BibTeX
- Jana Hertel, Peter F. Stadler:
Hairpins in a Haystack: recognizing microRNA precursors in comparative genomics data.
197-202
Electronic Edition (link) BibTeX
- Fabien P. E. Huard, Charlotte M. Deane, Graham R. Wood:
Modelling sequential protein folding under kinetic control.
203-210
Electronic Edition (link) BibTeX
- Phil Hyoun Lee, Hagit Shatkay:
BNTagger: improved tagging SNP selection using Bayesian networks.
211-219
Electronic Edition (link) BibTeX
- Hyunchul Jang, Jaesoo Lim, Joon-Ho Lim, Soo-Jun Park, Kyu-Chul Lee, Seon-Hee Park:
Finding the evidence for protein-protein interactions from PubMed abstracts.
234-226
Electronic Edition (link) BibTeX
- Nebojsa Jojic, Manuel Reyes-Gomez, David Heckerman, Carl Myers Kadie, Ora Schueler-Furman:
Learning MHC I - peptide binding.
227-235
Electronic Edition (link) BibTeX
- Neil C. Jones, Pavel A. Pevzner:
Comparative genomics reveals unusually long motifs in mammalian genomes.
236-242
Electronic Edition (link) BibTeX
- Emre Karakoç, Artem Cherkasov, Süleyman Cenk Sahinalp:
Distance based algorithms for small biomolecule classification and structural similarity search.
243-251
Electronic Edition (link) BibTeX
- Firas Khatib, Matthew T. Weirauch, Carol A. Rohl:
Rapid knot detection and application to protein structure prediction.
258-259
Electronic Edition (link) BibTeX
- Mustafa Kirac, Gultekin Özsoyoglu, Jiong Yang:
Annotating proteins by mining protein interaction networks.
260-270
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- Lutz Krause, Naryttza N. Diaz, Daniela Bartels, Robert A. Edwards, Alfred Pühler, Forest Rohwer, Folker Meyer, Jens Stoye:
Finding novel genes in bacterial communities isolated from the environment.
281-289
Electronic Edition (link) BibTeX
- Gorka Lasso, John F. Antoniw, Jonathan G. L. Mullins:
A combinatorial pattern discovery approach for the prediction of membrane dipping (re-entrant) loops.
290-297
Electronic Edition (link) BibTeX
- Tien-ho Lin, Eugene W. Myers, Eric P. Xing:
Interpreting anonymous DNA samples from mass disasters - probabilistic forensic inference using genetic markers.
298-306
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- Yong Lu, Ronald Rosenfeld, Ziv Bar-Joseph:
Identifying cycling genes by combining sequence homology and expression data.
314-322
Electronic Edition (link) BibTeX
- Daniel L. Mace, Ji-Young Lee, Richard W. Twigg, Juliette Colinas, Philip N. Benfey, Uwe Ohler:
Quantification of transcription factor expression from Arabidopsis images.
323-331
Electronic Edition (link) BibTeX
- Reuma Magori-Cohen, Yoram Louzoun, Steven H. Kleinstein:
Mutation parameters from DNA sequence data using graph theoretic measures on lineage trees.
332-340
Electronic Edition (link) BibTeX
- Denise Y. F. Mak, Yevgeniy Gelfand, Gary Benson:
Indel seeds for homology search.
341-349
Electronic Edition (link) BibTeX
- Tobias P. Mann, William Stafford Noble:
Efficient identification of DNA hybridization partners in a sequence database.
350-358
Electronic Edition (link) BibTeX
- Victor M. Markowitz, Natalia Ivanova, Krishna Palaniappan, Ernest Szeto, Frank Korzeniewski, Athanasios Lykidis, Iain Anderson, Konstantinos Mavrommatis, Victor Kunin, Hector Garcia Martin, Inna Dubchak, Philip Hugenholtz, Nikos Kyrpides:
An experimental metagenome data management and analysis system.
359-367
Electronic Edition (link) BibTeX
- Joe Mellor, Charles DeLisi:
An equilibrium partitioning model connecting gene expression and cis-motif content.
368-374
Electronic Edition (link) BibTeX
- Jose C. Nacher, Jean-Marc Schwartz, Minoru Kanehisa, Tatsuya Akutsu:
Identification of metabolic units induced by environmental signals.
375-383
Electronic Edition (link) BibTeX
- Leelavati Narlikar, Raluca Gordân, Uwe Ohler, Alexander J. Hartemink:
Informative priors based on transcription factor structural class improve de novo motif discovery.
384-392
Electronic Edition (link) BibTeX
- Patrick Ng, Niranjan Nagarajan, Neil Jones, Uri Keich:
Apples to apples: improving the performance of motif finders and their significance analysis in the Twilight Zone.
393-401
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- Andrea Pierleoni, Pier Luigi Martelli, Piero Fariselli, Rita Casadio:
BaCelLo: a balanced subcellular localization predictor.
415-416
Electronic Edition (link) BibTeX
- Yuan (Alan) Qi, Patrycja E. Missiuro, Ashish Kapoor, Craig P. Hunter, Tommi Jaakkola, David K. Gifford, Hui Ge:
Semi-supervised analysis of gene expression profiles for lineage-specific development in the Caenorhabditis elegans embryo.
417-423
Electronic Edition (link) BibTeX
- Alexander Schliep, Sven Rahmann:
Decoding non-unique oligonucleotide hybridization experiments of targets related by a phylogenetic tree.
424-430
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- Boris E. Shakhnovich:
Relative contributions of structural designability and functional diversity in molecular evolution of duplicates.
440-445
Electronic Edition (link) BibTeX
- Hagit Shatkay, Nawei Chen, Dorothea Blostein:
Integrating image data into biomedical text categorization.
446-453
Electronic Edition (link) BibTeX
- Saurabh Sinha:
On counting position weight matrix matches in a sequence, with application to discriminative motif finding.
454-463
Electronic Edition (link) BibTeX
- Larisa N. Soldatova, Amanda Clare, Andrew Sparkes, Ross D. King:
An ontology for a Robot Scientist.
464-471
Electronic Edition (link) BibTeX
- Sören Sonnenburg, Alexander Zien, Gunnar Rätsch:
ARTS: accurate recognition of transcription starts in human.
472-480
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- 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
Electronic Edition (link) BibTeX
- Vinay Varadan, David M. Miller III, Dimitris Anastassiou:
Computational inference of the molecular logic for synaptic connectivity in C. elegans.
497-506
Electronic Edition (link) BibTeX
- Roy Varshavsky, Assaf Gottlieb, Michal Linial, David Horn:
Novel Unsupervised Feature Filtering of Biological Data.
507-513
Electronic Edition (link) BibTeX
- Ravi Vijaya Satya, Amar Mukherjee, Gabriela Alexe, Laxmi Parida, Gyan Bhanot:
Constructing Near-Perfect Phylogenies with multiple homoplasy events.
514-522
Electronic Edition (link) BibTeX
- Pinglang Wang, Manhong Dai, Weijian Xuan, Richard C. McEachin, Anne U. Jackson, Laura J. Scott, Brian Athey, Stanley J. Watson, Fan Meng:
SNP Function Portal: a web database for exploring the function implication of SNP alleles.
523-529
Electronic Edition (link) BibTeX
- Katy Wolstencroft, Phillip W. Lord, Lydia Tabernero, Andy Brass, Robert Stevens:
Protein classification using ontology classification.
530-538
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- Nir Yosef, Alon Kaufman, Eytan Ruppin:
Inferring Functional Pathways from Multi-Perturbation Data.
539-546
Electronic Edition (link) BibTeX
- Hong Yu, Minsuk Lee:
Accessing bioscience images from abstract sentences.
547-556
Electronic Edition (link) BibTeX
- Shaojie Zhang, Ilya Borovok, Yair Aharonowitz, Roded Sharan, Vineet Bafna:
A sequence-based filtering method for ncRNA identification and its application to searching for riboswitch elements.
557-565
Electronic Edition (link) BibTeX
Copyright © Sat May 16 23:25:47 2009
by Michael Ley (ley@uni-trier.de)
