Volume 12,
Number 1,
Februar 2005
- Andrei S. Rodin, Thomas H. Mosley Jr., Andrew G. Clark, Charles F. Sing, Eric Boerwinkle:
Mining Genetic Epidemiology Data with Bayesian Networks Application to APOE Gene Variation and Plasma Lipid Levels.
1-11
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- Golan Yona, Klara Kedem:
The URMS-RMS Hybrid Algorithm for Fast and Sensitive Local Protein Structure Alignment.
12-32
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- Elodie Nédélec, Thomas Moncion, Elisabeth Gassiat, Bruno Bossard, Guillemette Duchateau-Nguyen, Alain Denise, Michel Termier:
A Pairwise Alignment Algorithm Which Favors Clusters of Blocks.
33-47
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- Jason W. Zwolak, John J. Tyson, Layne T. Watson:
Parameter Estimation for a Mathematical Model of the Cell Cycle in Frog Eggs.
48-63
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- Konstantinos Blekas, Dimitrios I. Fotiadis, Aristidis Likas:
Motif-Based Protein Sequence Classification Using Neural Networks.
64-82
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- Peter Clote:
An Efficient Algorithm to Compute the Landscape of Locally Optimal RNA Secondary Structures with Respect to the NussinovJacobson Energy Model.
83-101
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- Ying Chih Lin, Chin Lung Lu, Hwan-You Chang, Chuan Yi Tang:
An Efficient Algorithm for Sorting by Block-Interchanges and Its Application to the Evolution of Vibrio Species.
102-112
Electronic Edition (link) BibTeX
Volume 12,
Number 2,
March 2005
- Joël R. Pradines, Victor Farutin, Steve Rowley, Vlado Dancík:
Analyzing Protein Lists with Large Networks: Edge-Count Probabilities in Random Graphs with Given Expected Degrees.
113-128
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- Zhi-Zhong Chen, Guohui Lin, Romeo Rizzi, Jianjun Wen, Dong Xu, Ying Xu, Tao Jiang:
More Reliable Protein NMR Peak Assignment via Improved 2-Interval Scheduling.
129-146
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- Yun S. Song, Jotun Hein:
Constructing Minimal Ancestral Recombination Graphs.
147-169
Electronic Edition (link) BibTeX
- Lei M. Li, Henry Horng-Shing Lu:
Explore Biological Pathways from Noisy Array Data by Directed Acyclic Boolean Networks.
170-185
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- Asger Hobolth, Jens Ledet Jensen:
Applications of Hidden Markov Models for Characterization of Homologous DNA Sequences with a Common Gene.
186-203
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- Bernd Sturmfels, Seth Sullivant:
Toric Ideals of Phylogenetic Invariants.
204-228
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- Biao Xing, Mark J. van der Laan:
A Statistical Method for Constructing Transcriptional Regulatory Networks Using Gene Expression and Sequence Data.
229-246
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- Yuval Nov, Lawrence M. Wein:
Modeling and Analysis of Protein Design under Resource Constraints.
247-282
Electronic Edition (link) BibTeX
Volume 12,
Number 3,
April 2005
- Michael C. Wendl:
Probabilistic Assessment of Clone Overlaps in DNA Fingerprint Mapping via a Priori Models.
283-297
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- Yuting Jia, T. Gregory Dewey:
A Random Polymer Model of the Statistical Significance of Structure Alignment.
298-313
Electronic Edition (link) BibTeX
- Libi Hertzberg, Or Zuk, Gad Getz, Eytan Domany:
Finding Motifs in Promoter Regions.
314-330
Electronic Edition (link) BibTeX
- Ming-Ying Leung, Kwok Pui Choi, Aihua Xia, Louis H. Y. Chen:
Nonrandom Clusters of Palindromes in Herpesvirus Genomes.
331-354
Electronic Edition (link) BibTeX
- Michael Wagner, Rafal Adamczak, Aleksey A. Porollo, Jaroslaw Meller:
Linear Regression Models for Solvent Accessibility Prediction in Proteins.
355-369
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- Lang Li, Huidong Shi, Constantin Yiannoutsos, Tim Hui-Ming Huang, Kenneth P. Nephew:
Epigenetic Hypothesis Tests for Methylation and Acetylation in a Triple Microarray System.
370-390
Electronic Edition (link) BibTeX
Volume 12,
Number 4,
May 2005
Volume 12,
Number 5,
June 2005
- Ian M. Dew, Brian Walenz, Granger G. Sutton:
A Tool for Analyzing Mate Pairs in Assemblies (TAMPA).
497-513
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- Roded Sharan, Jens Gramm, Zohar Yakhini, Amir Ben-Dor:
Multiplexing Schemes for Generic SNP Genotyping Assays.
514-533
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- Daniel P. Berrar, Brian Sturgeon, Ian Bradbury, C. Stephen Downes, Werner Dubitzky:
Survival Trees for Analyzing Clinical Outcome in Lung Adenocarcinomas Based on Gene Expression Profiles: Identification of Neogenin and Diacylglycerol Kinase Expression as Critical Factors.
534-544
Electronic Edition (link) BibTeX
- Manuel Dehnert, Rainer Plaumann, Werner E. Helm, Marc-Thorsten Hütt:
Genome Phylogeny Based on Short-Range Correlations in DNA Sequences.
545-553
Electronic Edition (link) BibTeX
- Martijn J. Schuemie, Jan A. Kors, Barend Mons:
Word Sense Disambiguation in the Biomedical Domain: An Overview.
554-565
Electronic Edition (link) BibTeX
Volume 12,
Number 6,
July 2005
- Dan Gusfield:
Preface: Special RECOMB 2004 Issue.
567-568
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- Chris Bailey-Kellogg, Sheetal Chainraj, Gopal Pandurangan:
A Random Graph Approach to NMR Sequential Assignment.
569-583
Electronic Edition (link) BibTeX
- Niko Beerenwinkel, Jörg Rahnenführer, Martin Däumer, Daniel Hoffmann, Rolf Kaiser, Joachim Selbig, Thomas Lengauer:
Learning Multiple Evolutionary Pathways from Cross-Sectional Data.
584-598
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- Sourav Chatterji, Lior Pachter:
Large Multiple Organism Gene Finding by Collapsed Gibbs Sampling.
599-608
Electronic Edition (link) BibTeX
- Michael A. Erdmann:
Protein Similarity from Knot Theory: Geometric Convolution and Line Weavings.
609-637
Electronic Edition (link) BibTeX
- Xin He, Michael H. Goldwasser:
Identifying Conserved Gene Clusters in the Presence of Homology Families.
638-656
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- Jun Huan, Deepak Bandyopadhyay, Wei Wang, Jack Snoeyink, Jan Prins, Alexander Tropsha:
Comparing Graph Representations of Protein Structure for Mining Family-Specific Residue-Based Packing Motifs.
657-671
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- Henry C. M. Leung, Francis Y. L. Chin, Siu-Ming Yiu, Ronald Rosenfeld, Wai Wan Tsang:
Finding Motifs with Insufficient Number of Strong Binding Sites.
686-701
Electronic Edition (link) BibTeX
- Haifeng Li, Tao Jiang:
A Class of Edit Kernels for SVMs to Predict Translation Initiation Sites in Eukaryotic mRNAs.
702-718
Electronic Edition (link) BibTeX
- Jing Li, Tao Jiang:
Computing the Minimum Recombinant Haplotype Configuration from Incomplete Genotype Data on a Pedigree by Integer Linear Programming.
719-739
Electronic Edition (link) BibTeX
- Ryan H. Lilien, Brian W. Stevens, Amy C. Anderson, Bruce Randall Donald:
A Novel Ensemble-Based Scoring and Search Algorithm for Protein Redesign and Its Application to Modify the Substrate Specificity of the Gramicidin Synthetase A Phenylalanine Adenylation Enzyme.
740-761
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- Ross A. Lippert, Xiaoyue Zhao, Liliana Florea, Clark M. Mobarry, Sorin Istrail:
Finding Anchors for Genomic Sequence Comparison.
762-776
Electronic Edition (link) BibTeX
- Matthew Menke, Jonathan King, Bonnie Berger, Lenore Cowen:
Wrap-and-Pack: A New Paradigm for Beta Structural Motif Recognition with Application to Recognizing Beta Trefoils.
777-795
Electronic Edition (link) BibTeX
- Luay Nakhleh, Tandy Warnow, C. Randal Linder, Katherine St. John:
Reconstructing Reticulate Evolution in SpeciesTheory and Practice.
796-811
Electronic Edition (link) BibTeX
- David Sankoff, Phil Trinh:
Chromosomal Breakpoint Reuse in Genome Sequence Rearrangement.
812-821
Electronic Edition (link) BibTeX
- Eran Segal, Roded Sharan:
A Discriminative Model for Identifying Spatial cis-Regulatory Modules.
822-834
Electronic Edition (link) BibTeX
- Roded Sharan, Trey Ideker, Brian P. Kelley, Ron Shamir, Richard M. Karp:
Identification of Protein Complexes by Comparative Analysis of Yeast and Bacterial Protein Interaction Data.
835-846
Electronic Edition (link) BibTeX
- Yanni Sun, Jeremy Buhler:
Designing Multiple Simultaneous Seeds for DNA Similarity Search.
847-861
Electronic Edition (link) BibTeX
- Xinyu Tang, Bonnie Kirkpatrick, Shawna L. Thomas, Guang Song, Nancy M. Amato:
Using Motion Planning to Study RNA Folding Kinetics.
862-881
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- Zhijin Wu, Rafael A. Irizarry:
Stochastic Models Inspired by Hybridization Theory for Short Oligonucleotide Arrays.
882-893
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- Xiaoyue Zhao, Haiyan Huang, Terence P. Speed:
Finding Short DNA Motifs Using Permuted Markov Models.
894-906
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Volume 12,
Number 7,
September 2005
- Alexis Battle, Eran Segal, Daphne Koller:
Probabilistic Discovery of Overlapping Cellular Processes and Their Regulation.
909-927
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- Ydo Wexler, Zohar Yakhini, Yechezkel Kashi, Dan Geiger:
Finding Approximate Tandem Repeats in Genomic Sequences.
928-942
Electronic Edition (link) BibTeX
- Ross A. Lippert, Clark M. Mobarry, Brian Walenz:
A Space-Efficient Construction of the Burrows-Wheeler Transform for Genomic Data.
943-951
Electronic Edition (link) BibTeX
- Jun Xie, Nak-Kyeong Kim:
Bayesian Models and Markov Chain Monte Carlo Methods for Protein Motifs with the Secondary Characteristics.
952-970
Electronic Edition (link) BibTeX
- Jian Liu, Ming Li:
Finding Cancer Biomarkers from Mass Spectrometry Data by Decision Lists.
971-979
Electronic Edition (link) BibTeX
- Itai Sharon, Aaron Birkland, Kuan Chang, Ran El-Yaniv, Golan Yona:
Correcting BLAST e-Values for Low-Complexity Segments.
980-1003
Electronic Edition (link) BibTeX
- Robert F. Tichy, Stephan Wagner:
Extremal Problems for Topological Indices in Combinatorial Chemistry.
1004-1013
Electronic Edition (link) BibTeX
- Menachem Kaufman, David Blokh, Naomi Zurgil, Yana Shafran, Mordechai Deutsch:
A Cluster Pattern Algorithm for the Analysis of Multiparametric Cell Assays.
1014-1028
Electronic Edition (link) BibTeX
- Dongxiao Zhu, Alfred O. Hero, Zhaohui S. Qin, Anand Swaroop:
High Throughput Screening of Co-Expressed Gene Pairs with Controlled False Discovery Rate (FDR) and Minimum Acceptable Strength (MAS).
1029-1045
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Volume 12,
Number 8,
October 2005
- Sheng Zhao, Russell D. Fernald:
Comprehensive Algorithm for Quantitative Real-Time Polymerase Chain Reaction.
1047-1064
Electronic Edition (link) BibTeX
- Michele Morgante, Alberto Policriti, Nicola Vitacolonna, Andrea Zuccolo:
Structured Motifs Search.
1065-1082
Electronic Edition (link) BibTeX
- Rose Hoberman, David Sankoff, Dannie Durand:
The Statistical Analysis of Spatially Clustered Genes under the Maximum Gap Criterion.
1083-1102
Electronic Edition (link) BibTeX
- Albert C.-C. Yang, Ary L. Goldberger, C.-K. Peng:
Genomic Classification Using an Information-Based Similarity Index: Application to the SARS Coronavirus.
1103-1116
Electronic Edition (link) BibTeX
- Sanguthevar Rajasekaran, Sudha Balla, Chun-Hsi Huang:
Exact Algorithms for Planted Motif Problems.
1117-1128
Electronic Edition (link) BibTeX
- Arkadii G. D'yachkov, Frank K. Hwang, Anthony J. Macula, Pavel A. Vilenkin, Chih-Wen Weng:
A Construction of Pooling Designs with Some Happy Surprises.
1129-1136
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Volume 12,
Number 9,
November 2005
Volume 12,
Number 10,
December 2005
- Gad Kimmel, Ron Shamir:
A Block-Free Hidden Markov Model for Genotypes and Its Application to Disease Association.
1243-1260
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- Yao-Ting Huang, Kun-Mao Chao, Ting Chen:
An Approximation Algorithm for Haplotype Inference by Maximum Parsimony.
1261-1274
Electronic Edition (link) BibTeX
- Daniel M. Dunlavy, Dianne P. O'Leary, Dmitri Klimov, D. Thirumalai:
HOPE: A Homotopy Optimization Method for Protein Structure Prediction.
1275-1288
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- Gad M. Landau, Laxmi Parida, Oren Weimann:
Gene Proximity Analysis across Whole Genomes via PQ Trees1.
1289-1306
Electronic Edition (link) BibTeX
- Wolfram Liebermeister:
Predicting Physiological Concentrations of Metabolites from Their Molecular Structure.
1307-1315
Electronic Edition (link) BibTeX
- Silvio C. E. Tosatto:
The Victor/FRST Function for Model Quality Estimation.
1316-1327
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- Arvind Gupta, Ján Manuch, Ladislav Stacho:
Structure-Approximating Inverse Protein Folding Problem in the 2D HP Model.
1328-1345
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Copyright © Sun May 17 00:07:08 2009
by Michael Ley (ley@uni-trier.de)
