| 2007 | A Fast and Accurate Heuristic for the Single Individual SNP Haplotyping Problem with Many Gaps, High Reading Error Rate and Low Coverage. Loredana M. Genovese, Filippo Geraci, Marco Pellegrini |
| 2007 | A Graph Clustering Approach to Weak Motif Recognition. Christina Boucher, Daniel G. Brown, Paul Church |
| 2007 | A Novel Method for Signal Transduction Network Inference from Indirect Experimental Evidence. Réka Albert, Bhaskar DasGupta, Riccardo Dondi, Sema Kachalo, Eduardo D. Sontag, Alexander Zelikovsky, Kelly Westbrooks |
| 2007 | Algorithms for the Extraction of Synteny Blocks from Comparative Maps. Vicky Choi, Chunfang Zheng, Qian Zhu, David Sankoff |
| 2007 | Algorithms in Bioinformatics, 7th International Workshop, WABI 2007, Philadelphia, PA, USA, September 8-9, 2007, Proceedings Raffaele Giancarlo, Sridhar Hannenhalli |
| 2007 | Alignment-Free Local Structural Search by Writhe Decomposition. Degui Zhi, Maxim Shatsky, Steven E. Brenner |
| 2007 | An Mukul S. Bansal, Oliver Eulenstein |
| 2007 | Bringing Folding Pathways into Strand Pairing Prediction. Jieun K. Jeong, Piotr Berman, Teresa M. Przytycka |
| 2007 | Composing Globally Consistent Pathway Parameter Estimates Through Belief Propagation. Geoffrey Koh, Lisa Tucker-Kellogg, David Hsu, P. S. Thiagarajan |
| 2007 | Computability of Models for Sequence Assembly. Paul Medvedev, Konstantinos Georgiou, Gene Myers, Michael Brudno |
| 2007 | Defining and Computing Optimum RMSD for Gapped Multiple Structure Alignment. Xueyi Wang, Jack Snoeyink |
| 2007 | Efficient Algorithms to Explore Conformation Spaces of Flexible Protein Loops. Ankur Dhanik, Peggy Yao, Nathan Marz, Ryan Propper, Charles Kou, Guanfeng Liu, Henry van den Bedem, Jean-Claude Latombe |
| 2007 | Efficient Computational Design of Tiling Arrays Using a Shortest Path Approach. Alexander Schliep, Roland Krause |
| 2007 | Efficient and Accurate Construction of Genetic Linkage Maps from Noisy and Missing Genotyping Data. Yonghui Wu, Prasanna Bhat, Timothy J. Close, Stefano Lonardi |
| 2007 | Fast Algorithms for Selecting Specific siRNA in Complete mRNA Data. Jaime I. Dávila, Sudha Balla, Sanguthevar Rajasekaran |
| 2007 | Fast Computation of Good Multiple Spaced Seeds. Lucian Ilie, Silvana Ilie |
| 2007 | Fast Kernel Methods for SVM Sequence Classifiers. Pavel P. Kuksa, Vladimir Pavlovic |
| 2007 | Fault Tolerance for Large Scale Protein 3D Reconstruction from Contact Maps. Marco Vassura, Luciano Margara, Pietro di Lena, Filippo Medri, Piero Fariselli, Rita Casadio |
| 2007 | Generalized Pattern Search and Mesh Adaptive Direct Search Algorithms for Protein Structure Prediction. Giuseppe Nicosia, Giovanni Stracquadanio |
| 2007 | Genomic Signatures in De Bruijn Chains. Lenwood S. Heath, Amrita Pati |
| 2007 | Genotype Error Detection Using Hidden Markov Models of Haplotype Diversity. Justin Kennedy, Ion I. Mandoiu, Bogdan Pasaniuc |
| 2007 | HFold: RNA Pseudoknotted Secondary Structure Prediction Using Hierarchical Folding. Hosna Jabbari, Anne Condon, Ana Pop, Cristina Pop, Yinglei Zhao |
| 2007 | Haplotype Inference Via Hierarchical Genotype Parsing. Pasi Rastas, Esko Ukkonen |
| 2007 | Homology Search with Fragmented Nucleic Acid Sequence Patterns. Axel Mosig, Julian J.-L. Chen, Peter F. Stadler |
| 2007 | Incremental Discovery of Irredundant Motif Bases in Time Alberto Apostolico, Claudia Tagliacollo |
| 2007 | Inferring Models of Rearrangements, Recombinations, and Horizontal Transfers by the Minimum Evolution Criterion. Hadas Birin, Zohar Gal-Or, Isaac Elias, Tamir Tuller |
| 2007 | Informative Motifs in Protein Family Alignments. Hatice Gulcin Ozer, William C. Ray |
| 2007 | Inverse Sequence Alignment from Partial Examples. Eagu Kim, John D. Kececioglu |
| 2007 | Locality Kernels for Protein Classification. Evgeni Tsivtsivadze, Jorma Boberg, Tapio Salakoski |
| 2007 | Novel Approaches in Psychiatric Genomics. Maja Bucan |
| 2007 | On-Line Viterbi Algorithm for Analysis of Long Biological Sequences. Rastislav Srámek, Brona Brejová, Tomás Vinar |
| 2007 | Predicting Protein Folding Kinetics Via Temporal Logic Model Checking. Christopher James Langmead, Sumit Kumar Jha |
| 2007 | RNA Folding Including Pseudoknots: A New Parameterized Algorithm and Improved Upper Bound. Chunmei Liu, Yinglei Song, Louis W. Shapiro |
| 2007 | Seeded Tree Alignment and Planar Tanglegram Layout. Antoni Lozano, Ron Y. Pinter, Oleg Rokhlenko, Gabriel Valiente, Michal Ziv-Ukelson |
| 2007 | Shotgun Protein Sequencing. Pavel A. Pevzner |
| 2007 | The Point Placement Problem on a Line - Improved Bounds for Pairwise Distance Queries. Francis Y. L. Chin, Henry C. M. Leung, Wing-Kin Sung, Siu-Ming Yiu |
| 2007 | Topology Independent Protein Structural Alignment. Joe Dundas, T. Andrew Binkowski, Bhaskar DasGupta, Jie Liang |
| 2007 | Two Birds, One Stone: Selecting Functionally Informative Tag SNPs for Disease Association Studies. Phil Hyoun Lee, Hagit Shatkay |
| 2007 | Using Protein Domains to Improve the Accuracy of Mihaela Pertea, Steven Salzberg |
| 2007 | When Less Is More: Improving Classification of Protein Families with a Minimal Set of Global Features. Roy Varshavsky, Menachem Fromer, Amit Man, Michal Linial |