- 2004
- Louigi Addario-Berry, Benny Chor, Michael T. Hallett, Jens Lagergren, Alessandro Panconesi, Todd Wareham:
Ancestral Maximum Likelihood of Evolutionary Trees Is Hard. J. Bioinform. Comput. Biol. 2(2): 257-272 (2004) - Dag G. Ahrén, Christos A. Ouzounis:
Robustness of Metabolic Map Reconstruction. J. Bioinform. Comput. Biol. 2(3): 589-593 (2004) - Rolf Backofen, Sebastian Will:
Local Sequence-structure Motifs in Rna. J. Bioinform. Comput. Biol. 2(4): 681-698 (2004) - Hideo Bannai, Shunsuke Inenaga, Ayumi Shinohara, Masayuki Takeda, Satoru Miyano:
Efficiently Finding Regulatory Elements Using Correlation with Gene Expression. J. Bioinform. Comput. Biol. 2(2): 273-288 (2004) - Guillaume Bourque, David Sankoff:
Improving Gene Network Inference by Comparing Expression Time-series across Species, Developmental Stages or Tissues. J. Bioinform. Comput. Biol. 2(4): 765-784 (2004) - Daniel G. Brown, Ming Li, Bin Ma:
A Tutorial of Recent Developments in the Seeding of Local Alignment. J. Bioinform. Comput. Biol. 2(4): 819-842 (2004) - Orhan Çamoglu, Tamer Kahveci, Ambuj K. Singh:
Index-based Similarity Search for Protein Structure Databases. J. Bioinform. Comput. Biol. 2(1): 99-126 (2004) - Tolga Can, Yuan-Fang Wang:
Protein Structure Alignment and Fast Similarity Search Using Local Shape Signatures. J. Bioinform. Comput. Biol. 2(1): 215-239 (2004) - Nadia El-Mabrouk:
Deriving Haplotypes through Recombination and Gene Conversion Pathways. J. Bioinform. Comput. Biol. 2(2): 241-256 (2004) - Robert L. Grossman, Pavan Kasturi, Donald Hamelberg, Bing Liu:
An Empirical Study of the Universal Chemical Key Algorithm for Assigning Unique Keys to Chemical Compounds. J. Bioinform. Comput. Biol. 2(1): 155-172 (2004) - Alain Guénoche:
Supersequences of Masks for Oligo-chips. J. Bioinform. Comput. Biol. 2(3): 459-470 (2004) - Dan Gusfield, Satish Eddhu, Charles H. Langley:
Optimal, Efficient Reconstruction of Phylogenetic Networks with Constrained Recombination. J. Bioinform. Comput. Biol. 2(1): 173-214 (2004) - Simon Hardy, Pierre N. Robillard:
Modeling and Simulation of Molecular Biology Systems Using Petri Nets: Modeling Goals of Various Approaches. J. Bioinform. Comput. Biol. 2(4): 619-638 (2004) - Yoshiharu Hayashi, Mime Kobayashi, Katsuyoshi Sakaguchi, Nao Iwata, Masaki Kobayashi, Yo Kikuchi, Yoshimasa Takahashi:
Protein Classification Using Comparative Molecular Interaction Profile Analysis System. J. Bioinform. Comput. Biol. 2(3): 497-510 (2004) - Seiya Imoto, Tomoyuki Higuchi, Takao Goto, Kousuke Tashiro, Satoru Kuhara, Satoru Miyano:
Combining Microarrays and Biological Knowledge for Estimating Gene Networks via Bayesian Networks. J. Bioinform. Comput. Biol. 2(1): 77-98 (2004) - Masato Inoue, Shin-ichi Nishimura, Gen Hori, Hiroyuki Nakahara, Michiko Saito, Yoshihiro Yoshihara, Shun-ichi Amari:
Improved Parameter Estimation for Variance-stabilizing Transformation of Gene-expression Microarray Data. J. Bioinform. Comput. Biol. 2(4): 669-680 (2004) - Jan T. Kim, Jan E. Gewehr, Thomas Martinetz:
Binding Matrix: a Novel Approach for Binding Site Recognition. J. Bioinform. Comput. Biol. 2(2): 289-308 (2004) - Jung-Jae Kim, Jong-Chan Park:
Bioie: Retargetable Information Extraction and Ontological Annotation of Biological Interactions from the Literature. J. Bioinform. Comput. Biol. 2(3): 551-568 (2004) - Sumie Kitamura-Abe, Hitomi Itoh, Takanori Washio, Akihiro Tsutsumi, Masaru Tomita:
Characterization of the Splice Sites in Gt-ag and Gc-ag Introns in Higher Eukaryotes Using Full-length Cdnas. J. Bioinform. Comput. Biol. 2(2): 309-332 (2004) - Arun Siddharth Konagurthu, James C. Whisstock, Peter J. Stuckey:
Progressive Multiple Alignment Using Sequence Triplet Optimizations and Three-residue Exchange Costs. J. Bioinform. Comput. Biol. 2(4): 719-746 (2004) - Werner G. Krebs, Philip E. Bourne:
Statistical and Visual Morph Movie Analysis of Crystallographic Mutant Selection Bias in Protein Mutation Resource Data. J. Bioinform. Comput. Biol. 2(1): 61-76 (2004) - William Krivan:
Searching for Transcription Factor Binding Site Clusters: How True Are True Positives? J. Bioinform. Comput. Biol. 2(2): 413-416 (2004) - Zoé Lacroix, Louiqa Raschid, Barbara A. Eckman:
Techniques for Optimization of Queries on Integrated Biological Resources. J. Bioinform. Comput. Biol. 2(2): 375-412 (2004) - Ming Li, Bin Ma, Derek Kisman, John Tromp:
Patternhunter Ii: Highly Sensitive and Fast Homology Search. J. Bioinform. Comput. Biol. 2(3): 417-440 (2004) - S. Liang, Manoj Pratim Samanta, B. A. Biegel:
Cwinnower Algorithm for Finding Fuzzy DNA Motifs. J. Bioinform. Comput. Biol. 2(1): 47-60 (2004) - Xin Liu, Li-Mei Zhang, Wei-Mou Zheng:
Prediction of Protein Secondary Structure Based on Residue Pairs. J. Bioinform. Comput. Biol. 2(2): 343-352 (2004) - Yukihiro Maki, Yoriko Takahashi, Yuji Arikawa, Shoji Watanabe, Ken Aoshima, Yukihiro Eguchi, Takanori Ueda, Sachiyo Aburatani, Satoru Kuhara, Masahiro Okamoto:
An Integrated Comprehensive Workbench for Inferring Genetic Networks: voyagene. J. Bioinform. Comput. Biol. 2(3): 533-550 (2004) - Zheng-Qing Ouyang, Huaiqiu Zhu, Jin Wang, Zhen-Su She:
Multivariate Entropy Distance Method for Prokaryotic Gene Identification. J. Bioinform. Comput. Biol. 2(2): 353-374 (2004) - Luigi Palopoli, Giorgio Terracina:
Coopps: a System for the Cooperative Prediction of Protein Structures. J. Bioinform. Comput. Biol. 2(3): 471-496 (2004) - Youlian Pan, Jeffrey D. Pylatuik, Junjun Ouyang, A. Fazel Famili, Pierre R. Fobert:
Discovery of Functional Genes for Systemic Acquired Resistance in arabidopsis Thaliana through Integrated Data Mining. J. Bioinform. Comput. Biol. 2(4): 639-656 (2004)