| 1295 | -- | 1300 | Naum I. Gershenzon, Ilya P. Ioshikhes. Synergy of human Pol II core promoter elements revealed by statistical sequence analysis |
| 1301 | -- | 1303 | Alex Bateman, Matthew T. G. Holden, Corin Yeats. The G5 domain: a potential N-acetylglucosamine recognition domain involved in biofilm formation |
| 1304 | -- | 1307 | Francesca Ciccarelli, Peer Bork. The WHy domain mediates the response to desiccation in plants and bacteria |
| 1308 | -- | 1310 | S. Sri Krishna, Nick V. Grishin. Structural drift: a possible path to protein fold change |
| 1311 | -- | 1315 | Antonio del Sol, Hirotomo Fujihashi, Paul O Meara. Topology of small-world networks of protein?Cprotein complex structures |
| 1316 | -- | 1324 | Tomoyuki Yamada, Shinichi Morishita. Accelerated off-target search algorithm for siRNA |
| 1325 | -- | 1331 | Melissa D. Krebs, Robert D. Tingley, Julie E. Zeskind, Joung-Mo Kang, Maria E. Holmboe, Cristina E. Davis. Autoregressive modeling of analytical sensor data can yield classifiers in the predictor coefficient parameter space |
| 1332 | -- | 1338 | Sven Degroeve, Yvan Saeys, Bernard De Baets, Pierre Rouzé, Yves Van de Peer. SpliceMachine: predicting splice sites from high-dimensional local context representations |
| 1339 | -- | 1348 | Steven E. Hampson, B. S. Gaut, Pierre Baldi. Statistical detection of chromosomal homology using shared-gene density alone |
| 1349 | -- | 1357 | John R. Rose, William H. Turkett, Iulia C. Oroian, William W. Laegreid, John W. Keele. Correlation of amino acid preference and mammalian viral genome type |
| 1358 | -- | 1364 | Yun Lian, Harold R. Garner. Evidence for the regulation of alternative splicing via complementary DNA sequence repeats |
| 1365 | -- | 1370 | Eric K. Nordberg. YODA: selecting signature oligonucleotides |
| 1371 | -- | 1375 | Ketil Malde, Eivind Coward, Inge Jonassen. A graph based algorithm for generating EST consensus sequences |
| 1376 | -- | 1382 | Javier Santoyo, Juan M. Vaquerizas, Joaquín Dopazo. Highly specific and accurate selection of siRNAs for high-throughput functional assays |
| 1383 | -- | 1388 | Caroline C. Friedel, Katharina H. V. Jahn, Selina Sommer, Stephen Rudd, Hans-Werner Mewes, Igor V. Tetko. Support vector machines for separation of mixed plant?Cpathogen EST collections based on codon usage |
| 1389 | -- | 1392 | Matthias B. Wahl, Ulrich Heinzmann, Kenji Imai. LongSAGE analysis revealed the presence of a large number of novel antisense genes in the mouse genome |
| 1393 | -- | 1400 | Matthias B. Wahl, Ulrich Heinzmann, Kenji Imai. LongSAGE analysis significantly improves genome annotation: identifications of novel genes and alternative transcripts in the mouse |
| 1401 | -- | 1402 | Xiaochen Bo, Shengqi Wang. TargetFinder: a software for antisense oligonucleotide target site selection based on MAST and secondary structures of target mRNA |
| 1403 | -- | 1407 | Elizabeth Jacob, Roschen Sasikumar, K. N. Ramachandran Nair. A fuzzy guided genetic algorithm for operon prediction |
| 1408 | -- | 1414 | Iain M. Wallace, Orla O Sullivan, Desmond G. Higgins. Evaluation of iterative alignment algorithms for multiple alignment |
| 1415 | -- | 1420 | East Zhao, Hsuan-Liang Liu, Chi-Hung Tsai, Huai-Kuang Tsai, Chen-hsiung Chan, Cheng-Yan Kao. Cysteine separations profiles on protein sequences infer disulfide connectivity |
| 1421 | -- | 1428 | Yasuyuki Nozaki, Matthew I. Bellgard. Statistical evaluation and comparison of a pairwise alignment algorithm that a priori assigns the number of gaps rather than employing gap penalties |
| 1429 | -- | 1436 | Volkan Atalay, Rengül Çetin-Atalay. Implicit motif distribution based hybrid computational kernel for sequence classification |
| 1437 | -- | 1442 | Veronique Prigent, Jean-Claude Thierry, Olivier Poch, Frédéric Plewniak. DbW: automatic update of a functional family-specific multiple alignment |
| 1443 | -- | 1450 | Antonio Cavallo, Andrew C. R. Martin. Mapping SNPs to protein sequence and structure data |
| 1451 | -- | 1456 | Maricel G. Kann, Paul A. Thiessen, Anna R. Panchenko, Alejandro A. Schäffer, Stephen F. Altschul, Stephen H. Bryant. A structure-based method for protein sequence alignment |
| 1457 | -- | 1463 | Kiyoko F. Aoki, Hiroshi Mamitsuka, Tatsuya Akutsu, Minoru Kanehisa. A score matrix to reveal the hidden links in glycans |
| 1464 | -- | 1471 | Julian Gough. Convergent evolution of domain architectures (is rare) |
| 1472 | -- | 1478 | Brian Pierce, Weiwei Tong, Zhiping Weng. M-ZDOCK: a grid-based approach for C::n:: symmetric multimer docking |
| 1479 | -- | 1486 | Hyun S. Moon, Jonghwa Bhak, Kwang Hyung Lee, Doheon Lee. Architecture of basic building blocks in protein and domain structural interaction networks |
| 1487 | -- | 1494 | James R. Bradford, David R. Westhead. Improved prediction of protein-Cprotein binding sites using a support vector machines approach |
| 1495 | -- | 1501 | Ugis Sarkans, Helen E. Parkinson, Gonzalo Garcia Lara, Ahmet Oezcimen, Anjan Sharma, Niran Abeygunawardena, Sergio Contrino, Ele Holloway, Philippe Rocca-Serra, Gaurab Mukherjee, Mohammadreza Shojatalab, Misha Kapushesky, Susanna-Assunta Sansone, Anna Farne, Tim F. Rayner, Alvis Brazma. The ArrayExpress gene expression database: a software engineering and implementation perspective |
| 1502 | -- | 1508 | Chen-An Tsai, Sue-Jane Wang, Dung-Tsa Chen, James J. Chen. Sample size for gene expression microarray experiments |
| 1509 | -- | 1515 | Jianping Hua, Zixiang Xiong, James Lowey, Edward Suh, Edward R. Dougherty. Optimal number of features as a function of sample size for various classification rules |
| 1516 | -- | 1529 | Rongwei Fu, Dipak K. Dey, Kent E. Holsinger. Bayesian models for the analysis of genetic structure when populations are correlated |
| 1530 | -- | 1537 | Yuhang Wang, Fillia Makedon, James C. Ford, Justin D. Pearlman. HykGene: a hybrid approach for selecting marker genes for phenotype classification using microarray gene expression data |
| 1538 | -- | 1541 | Qinghua Cui, Bing Liu, Tianzi Jiang, Songde Ma. Characterizing the dynamic connectivity between genes by variable parameter regression and Kalman filtering based on temporal gene expression data |
| 1542 | -- | 1549 | Ranadip Pal, Aniruddha Datta, Albert J. Fornace, Michael L. Bittner, Edward R. Dougherty. Boolean relationships among genes responsive to ionizing radiation in the NCI 60 ACDS |
| 1550 | -- | 1558 | Céline Lefebvre, Jean-Christophe Aude, Eric Glémet, Christian Néri. Balancing protein similarity and gene co-expression reveals new links between genetic conservation and developmental diversity in invertebrates |
| 1559 | -- | 1564 | Xin Zhou, K. Z. Mao. LS Bound based gene selection for DNA microarray data |
| 1565 | -- | 1571 | Baolin Wu. Differential gene expression detection using penalized linear regression models: the improved SAM statistics |
| 1572 | -- | 1578 | Ursula Sauer, Claudia Preininger, Robert Hany-Schmatzberger. Quick and simple: quality control of microarray data |
| 1592 | -- | 1595 | Hans A. Kestler, André Müller, Thomas M. Gress, Malte Buchholz. Generalized Venn diagrams: a new method of visualizing complex genetic set relations |
| 1596 | -- | 1602 | Matthew Holford, Naixin Li, Prakash M. Nadkarni, Hongyu Zhao. VitaPad: visualization tools for the analysis of pathway data |
| 1603 | -- | 1609 | Vassily Hatzimanikatis, Chunhui Li, Justin A. Ionita, Christopher S. Henry, Matthew D. Jankowski, Linda J. Broadbelt. Exploring the diversity of complex metabolic networks |
| 1610 | -- | 1616 | A. Beyer, T. Wilhelm. Dynamic simulation of protein complex formation on a genomic scale |
| 1617 | -- | 1625 | Marc Daniel Haunschild, Bernd Freisleben, Ralf Takors, Wolfgang Wiechert. Investigating the dynamic behavior of biochemical networks using model families |
| 1626 | -- | 1634 | Reinhard Guthke, Ulrich Möller, Martin Hoffmann, Frank Thies, Susanne Töpfer. Dynamic network reconstruction from gene expression data applied to immune response during bacterial infection |
| 1635 | -- | 1638 | Joachim Kopka, Nicolas Schauer, Stephan Krueger, Claudia Birkemeyer, Björn Usadel, Eveline Bergmüller, Peter Dörmann, Wolfram Weckwerth, Yves Gibon, Mark Stitt, Lothar Willmitzer, Alisdair R. Fernie, Dirk Steinhauser. GMD@CSB.DB: the Golm Metabolome Database |
| 1639 | -- | 1643 | Paolo Tieri, Silvana Valensin, Vito Latora, Gastone C. Castellani, Massimo Marchiori, Daniel Remondini, Claudio Franceschi. Quantifying the relevance of different mediators in the human immune cell network |
| 1644 | -- | 1652 | Patrick Kemmeren, Thessa T. J. P. Kockelkorn, Theo Bijma, Rogier Donders, Frank Holstege. Predicting gene function through systematic analysis and quality assessment of high-throughput data |
| 1653 | -- | 1658 | Carlos Santos, Daniela Eggle, David J. States. Wnt pathway curation using automated natural language processing: combining statistical methods with partial and full parse for knowledge extraction |
| 1659 | -- | 1667 | Ying Tao, Carol Friedman, Yves A. Lussier. Visualizing information across multidimensional post-genomic structured and textual databases |
| 1668 | -- | 1677 | Andrea L. Knorr, Ranjan Srivastava. Evaluation of HIV-1 kinetic models using quantitative discrimination analysis |
| 1678 | -- | 1684 | Rasmus H. Fogh, Wayne Boucher, Wim F. Vranken, Anne Pajon, Tim J. Stevens, T. N. Bhat, John D. Westbrook, John M. C. Ionides, Ernest D. Laue. A framework for scientific data modeling and automated software development |
| 1685 | -- | 1692 | Katy Wolstencroft, Robin McEntire, Robert Stevens, Lydia Tabernero, Andy Brass. Constructing ontology-driven protein family databases |
| 1693 | -- | 1694 | Jin Billy Li, Miao Zhang, Susan K. Dutcher, Gary D. Stormo. Procom: a web-based tool to compare multiple eukaryotic proteomes |
| 1695 | -- | 1698 | Weixi Li, Cathryn J. Rehmeyer, Chuck Staben, Mark L. Farman. TERMINUS - Telomeric End-Read Mining IN Unassembled Sequences |
| 1699 | -- | 1700 | Tae Hyung Kim, Yeo-Jin Jeon, Woo-Yeon Kim, Heui-Soo Kim. HESAS: HERVs Expression and Structure Analysis System |
| 1701 | -- | 1702 | Lauris Kaplinski, Reidar Andreson, Tarmo Puurand, Maido Remm. MultiPLX: automatic grouping and evaluation of PCR primers |
| 1703 | -- | 1704 | Simon de Givry, Martin Bouchez, Patrick Chabrier, Denis Milan, Thomas Schiex. CAR::H:::::T:::A GENE: multipopulation integrated genetic and radiation hybrid mapping |
| 1705 | -- | 170 | Thomas M. Keane, Thomas J. Naughton. DSEARCH: sensitive database searching using distributed computing |
| 1707 | -- | 1708 | Richard J. D. Rouse, Jesus M. Castagnetto, Roland H. Niedner. PatGen - a consolidated resource for searching genetic patent sequences |
| 1709 | -- | 1710 | Kai M. A. Chan, Brian R. Moore. SYMMETREE: whole-tree analysis of differential diversification rates |
| 1711 | -- | 1712 | Søren Besenbacher, Thomas Mailund, Lasse Westh-Nielsen, Christian N. S. Pedersen. RBT - a tool for building refined Buneman trees |
| 1713 | -- | 1714 | Xun Gu, Wei Huang, Dongping Xu, Hongmei Zhang. GeneContent: software for whole-genome phylogenetic analysis |
| 1715 | -- | 1716 | Franck Dupuis, Jean-François Sadoc, Rémi Jullien, Borislav Angelov, Jean Paul Mornon. Voro3D: 3D Voronoi tessellations applied to protein structures |
| 1717 | -- | 1718 | Norihiro Kikuchi, Akihiko Kameyama, Shuuichi Nakaya, Hiromi Ito, Takashi Sato, Toshihide Shikanai, Yoriko Takahashi, Hisashi Narimatsu. The carbohydrate sequence markup language (CabosML): an XML description of carbohydrate structures |
| 1719 | -- | 1720 | Gianluca Pollastri, Aoife McLysaght. Porter: a new, accurate server for protein secondary structure prediction |
| 1721 | -- | 1723 | Yuko Tsuchiya, Kengo Kinoshita, Haruki Nakamura. PreDs: a server for predicting dsDNA-binding site on protein molecular surfaces |
| 1724 | -- | 1726 | Matthias E. Futschik, Toni Crompton. OLIN: optimized normalization, visualization and quality testing of two-channel microarray data |
| 1727 | -- | 1729 | Christian Schwager, Jonathon Blake. Bloader - a batch loader application for MIAMExpress |
| 1730 | -- | 1732 | Holger Thiele, Peter J. Nürnberg. HaploPainter: a tool for drawing pedigrees with complex haplotypes |
| 1733 | -- | 1734 | Christian N. K. Anderson, Uma Ramakrishnan, Yvonne L. Chan, Elizabeth A. Hadly. Serial SimCoal: A population genetics model for data from multiple populations and points in time |
| 1735 | -- | 1736 | Sio Iong Ao, Kevin Y. Yip, Michael K. Ng, David Wai-Lok Cheung, Pui-Yee Fong, Ian Melhado, Pak Chung Sham. CLUSTAG: hierarchical clustering and graph methods for selecting tag SNPs |
| 1737 | -- | 1738 | Pablo Serrano-Fernández, Saleh M. Ibrahim, Dirk Koczan, Uwe K. Zettl, Steffen Möller. In silico fine-mapping: narrowing disease-associated loci by intergenomics |
| 1739 | -- | 1740 | Steven L. Bell, Bernhard O. Palsson. expa: a program for calculating extreme pathways in biochemical reaction networks |
| 1741 | -- | 1742 | Aaron N. Chang, Jason McDermott, Ram Samudrala. An enhanced Java graph applet interface for visualizing interactomes |
| 1743 | -- | 1744 | Violaine Pillet, Marc Zehnder, Alexander K. Seewald, Anne-Lise Veuthey, Johann Petrak. GPSDB: a new database for synonyms expansion of gene and protein names |
| 1745 | -- | 1746 | G. Finak, N. Godin, M. Hallett, F. Pepin, Z. Rajabi, V. Srivastava, Z. Tang. BIAS: Bioinformatics Integrated Application Software |
| 1747 | -- | 1749 | Casey M. Bergman, Joseph W. Carlson, Susan E. Celniker. Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster |