Volume 4,
Number 1,
January 2007
- Dan Gusfield:
State of the Journal.
1
Electronic Edition (ACM DL) BibTeX
- Dan Gusfield:
Associate Editor Appreciation and Welcome.
2
Electronic Edition (ACM DL) BibTeX
- Rita Casadio:
Guest Editor's Introduction to the Special Section on Computational Biology and Bioinformatics (WABI) - Part 2.
3
Electronic Edition (ACM DL) BibTeX
- Sèverine Bérard, Anne Bergeron, Cedric Chauve, Christophe Paul:
Perfect Sorting by Reversals Is Not Always Difficult.
4-16
Electronic Edition (ACM DL) BibTeX
- Akshay Vashist, Casimir A. Kulikowski, Ilya B. Muchnik:
Ortholog Clustering on a Multipartite Graph.
17-27
Electronic Edition (ACM DL) BibTeX
- Keren Lasker, Oranit Dror, Maxim Shatsky, Ruth Nussinov, Haim J. Wolfson:
EMatch: Discovery of High Resolution Structural Homologues of Protein Domains in Intermediate Resolution Cryo-EM Maps.
28-39
Electronic Edition (ACM DL) BibTeX
- Lipo Wang, Feng Chu, Wei Xie:
Accurate Cancer Classification Using Expressions of Very Few Genes.
40-53
Electronic Edition (ACM DL) BibTeX
- Degui Zhi, Uri Keich, Pavel A. Pevzner, Steffen Heber, Haixu Tang:
Correcting Base-Assignment Errors in Repeat Regions of Shotgun Assembly.
54-64
Electronic Edition (ACM DL) BibTeX
- Rui Xu, Georgios C. Anagnostopoulos, Donald C. Wunsch:
Multiclass Cancer Classification Using Semisupervised Ellipsoid ARTMAP and Particle Swarm Optimization with Gene Expression Data.
65-77
Electronic Edition (ACM DL) BibTeX
- Chengbang Huang, Faruck Morcos, Simon P. Kanaan, Stefan Wuchty, Danny Z. Chen, Jesús A. Izaguirre:
Predicting Protein-Protein Interactions from Protein Domains Using a Set Cover Approach.
78-87
Electronic Edition (ACM DL) BibTeX
- Jong Hyun Kim, Michael S. Waterman, Lei M. Li:
Accuracy Assessment of Diploid Consensus Sequences.
88-97
Electronic Edition (ACM DL) BibTeX
- Max A. Alekseyev, Pavel A. Pevzner:
Colored de Bruijn Graphs and the Genome Halving Problem.
98-107
Electronic Edition (ACM DL) BibTeX
- Elchanan Mossel:
Distorted Metrics on Trees and Phylogenetic Forests.
108-116
Electronic Edition (ACM DL) BibTeX
- Kimberly A. Aeling, Nicholas R. Steffen, Matthew Johnson, G. Wesley Hatfield, Richard H. Lathrop, Donald F. Senear:
DNA Deformation Energy as an Indirect Recognition Mechanism in Protein-DNA Interactions.
117-125
Electronic Edition (ACM DL) BibTeX
- Jing Yang, Sarawan Wongsa, Visakan Kadirkamanathan, Stephen A. Billings, Phillip C. Wright:
Metabolic Flux Estimation-A Self-Adaptive Evolutionary Algorithm with Singular Value Decomposition.
126-138
Electronic Edition (ACM DL) BibTeX
- Gang Wu, Jia-Huai You, Guohui Lin:
Quartet-Based Phylogeny Reconstruction with Answer Set Programming.
139-152
Electronic Edition (ACM DL) BibTeX
- Gesine Reinert, Michael S. Waterman:
On the Length of the Longest Exact Position Match in a Random Sequence.
153-156
Electronic Edition (ACM DL) BibTeX
- Wai-Ho Au, Keith C. C. Chan, Andrew K. C. Wong, Yang Wang:
Correction to "Attribute Clustering for Grouping, Selection, and Classification of Gene Expression Data".
157
Electronic Edition (ACM DL) BibTeX
Volume 4,
Number 2,
April 2007
- Jagath C. Rajapakse, Yan-Qing Zhang, Gary B. Fogel:
Guest Editors' Introduction to the Special Section: Computational Intelligence Approaches in Computational Biology and Bioinformatics.
161-162
Electronic Edition (ACM DL) BibTeX
- Haiying Wang, Huiru Zheng, Francisco Azuaje:
Poisson-Based Self-Organizing Feature Maps and Hierarchical Clustering for Serial Analysis of Gene Expression Data.
163-175
Electronic Edition (ACM DL) BibTeX
- Ozy Sjahputera, James M. Keller, J. Wade Davis, Kristen H. Taylor, Farahnaz Rahmatpanah, Huidong Shi, Derek Anderson, Samuel Blisard, Robert H. Luke III, Mihail Popescu, Gerald C. Arthur, Charles William Caldwell:
Relational Analysis of CpG Islands Methylation and Gene Expression in Human Lymphomas Using Possibilistic C-Means Clustering and Modified Cluster Fuzzy Density.
176-189
Electronic Edition (ACM DL) BibTeX
- Yijuan Lu, Qi Tian, Feng Liu, Maribel Sanchez, Yufeng Wang:
Interactive Semisupervised Learning for Microarray Analysis.
190-203
Electronic Edition (ACM DL) BibTeX
- Boaz Lerner, Josepha Yeshaya, Lev Koushnir:
On the Classification of a Small Imbalanced Cytogenetic Image Database.
204-215
Electronic Edition (ACM DL) BibTeX
- Christian Igel, Tobias Glasmachers, Britta Mersch, Nico Pfeifer, Peter Meinicke:
Gradient-Based Optimization of Kernel-Target Alignment for Sequence Kernels Applied to Bacterial Gene Start Detection.
216-226
Electronic Edition (ACM DL) BibTeX
- Hasan Ogul, Erkan U. Mumcuoglu:
Subcellular Localization Prediction with New Protein Encoding Schemes.
227-232
Electronic Edition (ACM DL) BibTeX
- Wenyuan Li, Ying Liu, Hung-Chung Huang, Yanxiong Peng, Yongjing Lin, Wee Keong Ng, Kok-Leong Ong:
Dynamical Systems for Discovering Protein Complexes and Functional Modules from Biological Networks.
233-250
Electronic Edition (ACM DL) BibTeX
- Xiaohua Hu, Daniel Duanqing Wu:
Data Mining and Predictive Modeling of Biomolecular Network from Biomedical Literature Databases.
251-263
Electronic Edition (ACM DL) BibTeX
- Ferrante Neri, Jari Toivanen, Giuseppe Leonardo Cascella, Yew-Soon Ong:
An Adaptive Multimeme Algorithm for Designing HIV Multidrug Therapies.
264-278
Electronic Edition (ACM DL) BibTeX
- Julia Handl, Douglas B. Kell, Joshua D. Knowles:
Multiobjective Optimization in Bioinformatics and Computational Biology.
279-292
Electronic Edition (ACM DL) BibTeX
- Gianluca Bontempi:
A Blocking Strategy to Improve Gene Selection for Classification of Gene Expression Data.
293-300
Electronic Edition (ACM DL) BibTeX
- Yoan Diekmann, Marie-France Sagot, Eric Tannier:
Evolution under Reversals: Parsimony and Conservation of Common Intervals.
301-309
Electronic Edition (ACM DL) BibTeX
- Nils Weskamp, Eyke Hüllermeier, Daniel Kuhn, Gerhard Klebe:
Multiple Graph Alignment for the Structural Analysis of Protein Active Sites.
310-320
Electronic Edition (ACM DL) BibTeX
Volume 4,
Number 3,
July 2007
- Dan Gusfield:
Associate Editor Appreciation and Welcome.
321
Electronic Edition (ACM DL) BibTeX
- Krzysztof Fujarewicz, Marek Kimmel, Tomasz Lipniacki, Andrzej Swierniak:
Adjoint Systems for Models of Cell Signaling Pathways and their Application to Parameter Fitting.
322-335
Electronic Edition (ACM DL) BibTeX
- Xiang Wan, Guohui Lin:
CISA: Combined NMR Resonance Connectivity Information Determination and Sequential Assignment.
336-348
Electronic Edition (ACM DL) BibTeX
- Michael Cameron, Hugh E. Williams:
Comparing Compressed Sequences for Faster Nucleotide BLAST Searches.
349-364
Electronic Edition (ACM DL) BibTeX
- Yuchun Tang, Yan-Qing Zhang, Zhen Huang:
Development of Two-Stage SVM-RFE Gene Selection Strategy for Microarray Expression Data Analysis.
365-381
Electronic Edition (ACM DL) BibTeX
- Lydia Ng, Sayan D. Pathak, Chihchau Kuan, Christopher Lau, Hong-wei Dong, Andrew Sodt, Chinh Dang, Brian B. Avants, Paul A. Yushkevich, James C. Gee, David R. Haynor, Ed Lein, Allan Jones, Michael Hawrylycz:
Neuroinformatics for Genome-Wide 3-D Gene Expression Mapping in the Mouse Brain.
382-393
Electronic Edition (ACM DL) BibTeX
- C. Thach Nguyen, Nguyen Bao Nguyen, Wing-Kin Sung, Louxin Zhang:
Reconstructing Recombination Network from Sequence Data: The Small Parsimony Problem.
394-402
Electronic Edition (ACM DL) BibTeX
- Michael A. Lones, Andy M. Tyrrell:
Regulatory Motif Discovery Using a Population Clustering Evolutionary Algorithm.
403-414
Electronic Edition (ACM DL) BibTeX
- Andy M. Yip, Michael K. Ng, Edmond HaoCun Wu, Tony F. Chan:
Strategies for Identifying Statistically Significant Dense Regions in Microarray Data.
415-429
Electronic Edition (ACM DL) BibTeX
- Kuo-ching Liang, Xiaodong Wang, Dimitris Anastassiou:
Bayesian Basecalling for DNA Sequence Analysis Using Hidden Markov Models.
430-440
Electronic Edition (ACM DL) BibTeX
- Trias Thireou, Martin Reczko:
Bidirectional Long Short-Term Memory Networks for Predicting the Subcellular Localization of Eukaryotic Proteins.
441-446
Electronic Edition (ACM DL) BibTeX
- Gergely Korodi, Ioan Tabus:
Compression of Annotated Nucleotide Sequences.
447-457
Electronic Edition (ACM DL) BibTeX
- Magnus Bordewich, Charles Semple:
Computing the Hybridization Number of Two Phylogenetic Trees Is Fixed-Parameter Tractable.
458-466
Electronic Edition (ACM DL) BibTeX
- D. Huang, Tommy W. S. Chow:
Effective Gene Selection Method With Small Sample Sets Using Gradient-Based and Point Injection Techniques.
467-475
Electronic Edition (ACM DL) BibTeX
- David Hecht, Gary B. Fogel:
High-Throughput Ligand Screening via Preclustering and Evolved Neural Networks.
476-484
Electronic Edition (ACM DL) BibTeX
- Runxuan Zhang, Guang-Bin Huang, N. Sundararajan, P. Saratchandran:
Multicategory Classification Using An Extreme Learning Machine for Microarray Gene Expression Cancer Diagnosis.
485-495
Electronic Edition (ACM DL) BibTeX
- Louxin Zhang:
Superiority of Spaced Seeds for Homology Search.
496-505
Electronic Edition (ACM DL) BibTeX
- Frederick A. Matsen III:
Optimization Over a Class of Tree Shape Statistics.
506-512
Electronic Edition (ACM DL) BibTeX
Volume 4,
Number 4,
October 2007
- Ion I. Mandoiu, Yi Pan, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications.
513-514
Electronic Edition (ACM DL) BibTeX
- Chunfang Zheng, Qian Zhu, David Sankoff:
Removing Noise and Ambiguities from Comparative Maps in Rearrangement Analysis.
515-522
Electronic Edition (ACM DL) BibTeX
- Guillaume Blin, Cedric Chauve, Guillaume Fertin, Romeo Rizzi, Stéphane Vialette:
Comparing Genomes with Duplications: A Computational Complexity Point of View.
523-534
Electronic Edition (ACM DL) BibTeX
- Paola Bonizzoni, Gianluca Della Vedova, Riccardo Dondi, Guillaume Fertin, Raffaella Rizzi, Stéphane Vialette:
Exemplar Longest Common Subsequence.
535-543
Electronic Edition (ACM DL) BibTeX
- Jaime Davila, Sudha Balla, Sanguthevar Rajasekaran:
Fast and Practical Algorithms for Planted (l, d) Motif Search.
544-552
Electronic Edition (ACM DL) BibTeX
- Adrian Schneider, Gaston H. Gonnet, Gina Cannarozzi:
SynPAM-A Distance Measure Based on Synonymous Codon Substitutions.
553-560
Electronic Edition (ACM DL) BibTeX
- Srinath Sridhar, Kedar Dhamdhere, Guy E. Blelloch, Eran Halperin, R. Ravi, Russell Schwartz:
Algorithms for Efficient Near-Perfect Phylogenetic Tree Reconstruction in Theory and Practice.
561-571
Electronic Edition (ACM DL) BibTeX
- Jinmiao Chen, Narendra S. Chaudhari:
Cascaded Bidirectional Recurrent Neural Networks for Protein Secondary Structure Prediction.
572-582
Electronic Edition (ACM DL) BibTeX
- Huilin Xiong, Ya Zhang, Xue-wen Chen:
Data-Dependent Kernel Machines for Microarray Data Classification.
583-595
Electronic Edition (ACM DL) BibTeX
- Shahar Michal, Tor Ivry, Omer Cohen, Moshe Sipper, Danny Barash:
Finding a Common Motif of RNA Sequences Using Genetic Programming: The GeRNAMo System.
596-610
Electronic Edition (ACM DL) BibTeX
- Tara McIntosh, Sanjay Chawla:
High Confidence Rule Mining for Microarray Analysis.
611-623
Electronic Edition (ACM DL) BibTeX
- Ignacio Ponzoni, Francisco Azuaje, Juan Augusto, David Glass:
Inferring Adaptive Regulation Thresholds and Association Rules from Gene Expression Data through Combinatorial Optimization Learning.
624-634
Electronic Edition (ACM DL) BibTeX
- Nasimul Noman, Hitoshi Iba:
Inferring Gene Regulatory Networks using Differential Evolution with Local Search Heuristics.
634-647
Electronic Edition (ACM DL) BibTeX
- Shinn-Ying Ho, Chih-Hung Hsieh, Fu-Chieh Yu, Hui-Ling Huang:
An Intelligent Two-Stage Evolutionary Algorithm for Dynamic Pathway Identification From Gene Expression Profiles.
648-704
Electronic Edition (ACM DL) BibTeX
- Sergey Bereg, Yuanyi Zhang:
Phylogenetic Networks Based on the Molecular Clock Hypothesis.
661-667
Electronic Edition (ACM DL) BibTeX
- Jacek Blazewicz, Edmund K. Burke, Marta Kasprzak, Alexandr Kovalev, Mikhail Y. Kovalyov:
Simplified Partial Digest Problem: Enumerative and Dynamic Programming Algorithms.
668-680
Electronic Edition (ACM DL) BibTeX
- Rui Xu, Donald C. Wunsch II, Ronald Frank:
Inference of Genetic Regulatory Networks with Recurrent Neural Network Models Using Particle Swarm Optimization.
681-692
Electronic Edition (ACM DL) BibTeX
- Phaedra Agius, Barry Kreiswirth, Steve Naidich, Kristin Bennett:
Typing Staphylococcus aureus Using the spa Gene and Novel Distance Measures.
693-704
Electronic Edition (ACM DL) BibTeX
Copyright © Sun May 17 00:23:21 2009
by Michael Ley (ley@uni-trier.de)