| 2145 | -- | 2160 | Svava Ósk Jónsdóttir, Flemming Steen Jørgensen, Søren Brunak. Prediction methods and databases within chemoinformatics: emphasis on drugs and drug candidates |
| 2161 | -- | 2166 | Prachee Prakash, Sailu Yellaboina, Akash Ranjan, Seyed Ehetsham Hasnain. Computational prediction and experimental verification of novel IdeR binding sites in the upstream sequences of Mycobacterium tuberculosis open reading frames |
| 2167 | -- | 2170 | Akira R. Kinjo, Ken Nishikawa. Recoverable one-dimensional encoding of three-dimensional protein structures |
| 2171 | -- | 2176 | C. Thach Nguyen, Y. C. Tay, Louxin Zhang. Divide-and-conquer approach for the exemplar breakpoint distance |
| 2177 | -- | 2184 | Jayson Falkner, Philip Andrews. Fast tandem mass spectra-based protein identification regardless of the number of spectra or potential modifications examined |
| 2185 | -- | 2190 | Lei Bao, Yan Cui. Prediction of the phenotypic effects of non-synonymous single nucleotide polymorphisms using structural and evolutionary information |
| 2191 | -- | 2199 | Lee Lancashire, O. Schmid, H. Shah, Graham R. Ball. Classification of bacterial species from proteomic data using combinatorial approaches incorporating artificial neural networks, cluster analysis and principal components analysis |
| 2200 | -- | 2209 | J. S. Yu, S. Ongarello, R. Fiedler, X. W. Chen, Gianna Toffolo, Claudio Cobelli, Zlatko Trajanoski. Ovarian cancer identification based on dimensionality reduction for high-throughput mass spectrometry data |
| 2210 | -- | 2224 | Halima Bensmail, Jennifer Golek, Michelle M. Moody, John O. Semmes, Abdelali Haoudi. A novel approach for clustering proteomics data using Bayesian fast Fourier transform |
| 2225 | -- | 2229 | Valerio Freschi, Alessandro Bogliolo. Using sequence compression to speedup probabilistic profile matching |
| 2230 | -- | 2239 | Robert G. Beiko, Cheong Xin Chan, Mark A. Ragan. A word-oriented approach to alignment validation |
| 2240 | -- | 2245 | Alexander V. Favorov, Mikhail S. Gelfand, Anna V. Gerasimova, Dmitry A. Ravcheev, Andrey A. Mironov, Vsevolod Makeev. A Gibbs sampler for identification of symmetrically structured, spaced DNA motifs with improved estimation of the signal length |
| 2246 | -- | 2253 | David H. Mathews. Predicting a set of minimal free energy RNA secondary structures common to two sequences |
| 2254 | -- | 2263 | Ruadhan A. O Flanagan, Guillaume Paillard, Richard Lavery, Anirvan M. Sengupta. Non-additivity in protein-DNA binding |
| 2264 | -- | 2270 | Kyounghwa Bae, Bani K. Mallick, Christine G. Elsik. Prediction of protein interdomain linker regions by a hidden Markov model |
| 2271 | -- | 2278 | Ho-Leung Chan, Tak Wah Lam, Wing-Kin Sung, Prudence W. H. Wong, Siu-Ming Yiu, X. Fan. The mutated subsequence problem and locating conserved genes |
| 2279 | -- | 2286 | Mikael Bodén, John Hawkins. Prediction of subcellular localization using sequence-biased recurrent networks |
| 2287 | -- | 2293 | Robel Y. Kahsay, Guoli Wang, Guang R. Gao, Li Liao, Roland L. Dunbrack Jr.. Quasi-consensus-based comparison of profile hidden Markov models for protein sequences |
| 2294 | -- | 2300 | Ian Holmes. Using evolutionary Expectation Maximization to estimate indel rates |
| 2301 | -- | 2308 | Dan Tsafrir, Ilan Tsafrir, Liat Ein-Dor, Or Zuk, Daniel A. Notterman, Eytan Domany. Sorting points into neighborhoods (SPIN): data analysis and visualization by ordering distance matrices |
| 2309 | -- | 2314 | George M. Garrity, Timothy G. Lilburn. Self-organizing and self-correcting classifications of biological data |
| 2315 | -- | 2321 | Andrew J. Bordner, Ruben Abagyan. REVCOM: a robust Bayesian method for evolutionary rate estimation |
| 2322 | -- | 2328 | Peter F. Arndt, Terence Hwa. Identification and measurement of neighbor-dependent nucleotide substitution processes |
| 2329 | -- | 2335 | Stefan R. Henz, Daniel H. Huson, Alexander F. Auch, Kay Nieselt-Struwe, Stephan C. Schuster. Whole-genome prokaryotic phylogeny |
| 2336 | -- | 2346 | Fabrizio Ferrè, Peter Clote. Disulfide connectivity prediction using secondary structure information and diresidue frequencies |
| 2347 | -- | 2355 | Richard J. Morris, Rafael Najmanovich, Abdullah Kahraman, Janet M. Thornton. Real spherical harmonic expansion coefficients as 3D shape descriptors for protein binding pocket and ligand comparisons |
| 2356 | -- | 2361 | Jacek Blazewicz, Marta Szachniuk, Adam Wojtowicz. RNA tertiary structure determination: NOE pathways construction by tabu search |
| 2362 | -- | 2369 | Yuzhen Ye, Adam Godzik. Multiple flexible structure alignment using partial order graphs |
| 2370 | -- | 2374 | Qidong Zhang, Sukjoon Yoon, William J. Welsh. Improved method for predicting ?-turn using support vector machine |
| 2375 | -- | 2382 | Markus Leber, Lars Kaderali, Alexander Schönhuth, Rainer Schrader. A fractional programming approach to efficient DNA melting temperature calculation |
| 2383 | -- | 2393 | Örjan Carlborg, D. J. De Koning, Kenneth F. Manly, Elissa J. Chesler, Robert W. Williams, C. S. Haley. Methodological aspects of the genetic dissection of gene expression |
| 2394 | -- | 2402 | Ka Yee Yeung, Roger Eugene Bumgarner, Adrian E. Raftery. Bayesian model averaging: development of an improved multi-class, gene selection and classification tool for microarray data |
| 2403 | -- | 2409 | Hongzhe Li, Yihui Luan. Boosting proportional hazards models using smoothing splines, with applications to high-dimensional microarray data |
| 2410 | -- | 2416 | Wotao Yin, Terrence Chen, Xiang Sean Zhou, Amit Chakraborty. Background correction for cDNA microarray images using the TV+::::L:::::::1::: model |
| 2417 | -- | 2423 | Muhammad Shoaib B. Sehgal, Iqbal Gondal, Laurence Dooley. Collateral missing value imputation: a new robust missing value estimation algorithm for microarray data |
| 2424 | -- | 2429 | Christian H. Busold, Stefan Winter, Nicole C. Hauser, Andrea Bauer, Jürgen Dippon, Jörg D. Hoheisel, Kurt Fellenberg. Integration of GO annotations in Correspondence Analysis: facilitating the interpretation of microarray data |
| 2430 | -- | 2437 | K. K. Dobbin, Ernest S. Kawasaki, D. W. Petersen, R. M. Simon. Characterizing dye bias in microarray experiments |
| 2438 | -- | 2446 | Jörg Rahnenführer, Niko Beerenwinkel, Wolfgang A. Schulz, Christian Hartmann, Andreas von Deimling, Bernd Wullich, Thomas Lengauer. Estimating cancer survival and clinical outcome based on genetic tumor progression scores |
| 2447 | -- | 2455 | Yuehua Cui, Rongling Wu. Mapping genome-genome epistasis: a high-dimensional model |
| 2456 | -- | 2462 | Rui-Sheng Wang, Ling-Yun Wu, Zhen-Ping Li, Xiang-Sun Zhang. Haplotype reconstruction from SNP fragments by minimum error correction |
| 2463 | -- | 2468 | Dmitry A. Konovalov, Bruce E. Litow, Nigel Bajema. Partition-distance via the assignment problem |
| 2469 | -- | 2477 | Wei Zhao, Ying Q. Chen, George Casella, James M. Cheverud, Rongling Wu. A non-stationary model for functional mapping of complex traits |
| 2478 | -- | 2487 | Nobukazu Ohki, Masatoshi Hagiwara. Bio-Object, a stochastic simulator for post-transcriptional regulation |
| 2488 | -- | 2495 | Tsuyoshi Kato, Koji Tsuda, Kiyoshi Asai. Selective integration of multiple biological data for supervised network inference |
| 2496 | -- | 2501 | I. Res, I. Mihalek, Olivier Lichtarge. An evolution based classifier for prediction of protein interfaces without using protein structures |
| 2502 | -- | 2509 | Daniel Shegogue, W. Jim Zheng. Object-oriented biological system integration: a SARS coronavirus example |
| 2510 | -- | 2513 | Feng-Chi Chen, Trees-Juen Chuang. ESTviewer: a web interface for visualizing mouse, rat, cattle, pig and chicken conserved ESTs in human genes and human alternatively spliced variants |
| 2514 | -- | 2516 | Kwangmin Choi, Yu Ma, Jeong-Hyeon Choi, Sun Kim. PLATCOM: a Platform for Computational Comparative Genomics |
| 2517 | -- | 2519 | Fengkai Zhang, Zhongming Zhao. SNPNB: analyzing neighboring-nucleotide biases on single nucleotide polymorphisms (SNPs) |
| 2520 | -- | 2521 | Igor V. Tetko, Barbara Brauner, Irmtraud Dunger-Kaltenbach, Goar Frishman, Corinna Montrone, Gisela Fobo, Andreas Ruepp, Alexey V. Antonov, Dimitrij Surmeli, Hans-Werner Mewes. MIPS bacterial genomes functional annotation benchmark dataset |
| 2522 | -- | 2524 | Manoj Bhasin, Aarti Garg, G. P. S. Raghava. PSLpred: prediction of subcellular localization of bacterial proteins |
| 2525 | -- | 2527 | Dariusz Plewczynski, Adrian Tkacz, Lucjan Stanislaw Wyrwicz, Leszek Rychlewski. AutoMotif server: prediction of single residue post-translational modifications in proteins |
| 2528 | -- | 2530 | Per Unneberg, Michael Strömberg, Fredrik Sterky. SNP discovery using advanced algorithms and neural networks |
| 2531 | -- | 2533 | Sergei L. Kosakovsky Pond, Simon D. W. Frost. Datamonkey: rapid detection of selective pressure on individual sites of codon alignments |
| 2534 | -- | 2536 | Carlos J. Camacho, Chao Zhang. FastContact: rapid estimate of contact and binding free energies |
| 2537 | -- | 2538 | Gilleain M. Torrance, David R. Gilbert, Ioannis Michalopoulos, David R. Westhead. Protein structure topological comparison, discovery and matching service |
| 2539 | -- | 2540 | Jason E. Donald, Isaac A. Hubner, Veronica Rotemberg, Eugene I. Shakhnovich, Leonid A. Mirny. CoC: a database of universally conserved residues in protein folds |
| 2541 | -- | 2543 | Sungsam Gong, Giseok Yoon, Insoo Jang, Dan M. Bolser, Panos Dafas, Michael Schroeder, Hansol Choi, Yoobok Cho, Kyungsook Han, Sunghoon Lee, Hwanho Choi, Michael Lappe, Liisa Holm, Sangsoo Kim, Donghoon Oh, Jonghwa Bhak. PSIbase: a database of Protein Structural Interactome map (PSIMAP) |
| 2544 | -- | 2545 | Ivan G. Costa, Alexander Schönhuth, Alexander Schliep. The Graphical Query Language: a tool for analysis of gene expression time-courses |
| 2546 | -- | 2547 | Nadia Bolshakova, Francisco Azuaje, Padraig Cunningham. A knowledge-driven approach to cluster validity assessment |
| 2548 | -- | 2549 | Alexei A. Sharov, Dawood B. Dudekula, Minoru S. H. Ko. A web-based tool for principal component and significance analysis of microarray data |
| 2550 | -- | 2551 | John Boyle. Gene-Expression Omnibus integration and clustering Tools in SeqExpress |
| 2552 | -- | 2553 | Hui Sun Leong, Tim Yates, Claire L. Wilson, Crispin J. Miller. ADAPT: a database of affymetrix probesets and transcripts |
| 2554 | -- | 2555 | Su Young Kim, Suk Woo Nam, Sug Hyung Lee, Won Sang Park, Nam Jin Yoo, Jung Young Lee, Yeun-Jun Chung. ArrayCyGHt: a web application for analysis and visualization of array-CGH data |
| 2556 | -- | 2557 | Nandita Mukhopadhyay, Lee Almasy, Mark Schroeder, William P. Mulvihill, Daniel E. Weeks. Mega2: data-handling for facilitating genetic linkage and association analyses |
| 2558 | -- | 2559 | Shailesh V. Date, Edward M. Marcotte. Protein function prediction using the Protein Link EXplorer (PLEX) |
| 2560 | -- | 2562 | Jing Ding, Karthikeyan Viswanathan, Daniel Berleant, Laron M. Hughes, Eve Syrkin Wurtele, Daniel A. Ashlock, Julie A. Dickerson, Andy W. Fulmer, Patrick S. Schnable. Using the biological taxonomy to access biological literature with PathBinderH |
| 2563 | -- | 2565 | Pierre-Étienne Jacques, Alain L. Gervais, Mathieu Cantin, Jean-François Lucier, Guillaume Dallaire, Geneviève Drouin, Luc Gaudreau, Jean Goulet, Ryszard Brzezinski. MtbRegList, a database dedicated to the analysis of transcriptional regulation in Mycobacterium tuberculosis |
| 2566 | -- | 2567 | Ana Tereza R. Vasconcelos, Ana Carolina R. Guimarães, Carlos Henrique M. Castelletti, Célia S. Caruso, Cristina Ribeiro, Fabiano Yokaichiya, Geraldo R. G. Armôa, Gislaine da Silva P. Pereira, Israel T. da Silva, Carlos G. Schrago, Adélia L. V. Fernandes, Aline R. da Silveira, André G. Carneiro, Bruno M. Carvalho, Carlos Juliano M. Viana, Daniel Gramkow, Franklin J. Lima, Luiz G. G. Corrêa, Maurício de Alvarenga Mudado, Pablo Nehab-Hess, Rangel de Souza, Régis L. Corrêa, Claudia A. M. Russo. MamMiBase: a mitochondrial genome database for mammalian phylogenetic studies |
| 2568 | -- | 2569 | Anyuan Guo, Kun He, Di Liu, Shunong Bai, Xiaocheng Gu, Liping Wei, Jingchu Luo. DATF: a database of Arabidopsis transcription factors |
| 2570 | -- | 2571 | Tariq Riaz, Hen Ley Hor, Arun Krishnan, Francis Tang, Kuo-Bin Li. WebAllergen: a web server for predicting allergenic proteins |