Journals in DBLP
Andrew Butterfield , Vivek Vedagiri , Edward Lang , Cath Lawrence , Matthew J. Wakefield , Alexander Isaev , Gavin A. Huttley PyEvolve: a toolkit for statistical modelling of molecular evolution. [Citation Graph (0, 0)][DBLP ] Journal ] Vadim Alexandrov , Mark Gerstein Using 3D Hidden Markov Models that explicitly represent spatial coordinates to model and compare protein structures. [Citation Graph (0, 0)][DBLP ] Journal ] Bin Li , Warren J. Gallin VKCDB: Voltage-gated potassium channel database. [Citation Graph (0, 0)][DBLP ] Journal ] France Denoeud , Gilles Vergnaud Identification of polymorphic tandem repeats by direct comparison of genome sequence from different bacterial strains : a web-based resource. [Citation Graph (0, 0)][DBLP ] Journal ] Tomokazu Konishi Three-parameter lognormal distribution ubiquitously found in cDNA microarray data and its application to parametric data treatment. [Citation Graph (0, 0)][DBLP ] Journal ] Daniel A. Pollard , Casey M. Bergman , Jens Stoye , Susan E. Celniker , Michael B. Eisen Benchmarking tools for the alignment of functional noncoding DNA. [Citation Graph (0, 0)][DBLP ] Journal ] Benjamin Schuster-Böckler , Jörg Schultz , Sven Rahmann HMM Logos for visualization of protein families. [Citation Graph (0, 0)][DBLP ] Journal ] Estienne C. Swart , Winston A. Hide , Cathal Seoighe FRAGS: estimation of coding sequence substitution rates from fragmentary data. [Citation Graph (0, 0)][DBLP ] Journal ] Radu Dobrin , Qasim K. Beg , Albert-László Barabási , Zoltán N. Oltvai Aggregation of topological motifs in the Escherichia coli transcriptional regulatory network. [Citation Graph (0, 0)][DBLP ] Journal ] Erich J. Baker , Leslie Galloway , Barbara Jackson , Denise Schmoyer , Jay Snoddy MuTrack: a genome analysis system for large-scale mutagenesis in the mouse. [Citation Graph (0, 0)][DBLP ] Journal ] Andreas Petri , Jan Fleckner , Mads Wichmann Matthiessen Array-A-Lizer: A serial DNA microarray quality analyzer. [Citation Graph (0, 0)][DBLP ] Journal ] Bryan Chi , Ronald J. deLeeuw , Bradley P. Coe , Calum MacAulay , Wan L. Lam SeeGH - A software tool for visualization of whole genome array comparative genomic hybridization data. [Citation Graph (0, 0)][DBLP ] Journal ] Afshin Nadershahi , Scott C. Fahrenkrug , Lynda B. M. Ellis Comparison of computational methods for identifying translation initiation sites in EST data. [Citation Graph (0, 0)][DBLP ] Journal ] Sara Light , Per Kraulis Network analysis of metabolic enzyme evolution in Escherichia coli . [Citation Graph (0, 0)][DBLP ] Journal ] Bing Zhang , Denise Schmoyer , Stefan Kirov , Jay Snoddy GOTree Machine (GOTM): a web-based platform for interpreting sets of interesting genes using Gene Ontology hierarchies. [Citation Graph (0, 0)][DBLP ] Journal ] Zhenjun Hu , Joseph C. Mellor , Jie Wu , Charles DeLisi VisANT: an online visualization and analysis tool for biological interaction data. [Citation Graph (0, 0)][DBLP ] Journal ] Dominic J. Allocco , Isaac S. Kohane , Atul J. Butte Quantifying the relationship between co-expression, co-regulation and gene function. [Citation Graph (0, 0)][DBLP ] Journal ] Jules J. Berman , Milton Datta , Andre Kajdacsy-Balla , Jonathan Melamed , Jan Orenstein , Kevin Dobbin , Ashok Patel , Rajiv Dhir , Michael J. Becich The tissue microarray data exchange specification: implementation by the Cooperative Prostate Cancer Tissue Resource. [Citation Graph (0, 0)][DBLP ] Journal ] Gaëlle Lelandais , Philippe Marc , Pierre Vincens , Claude Jacq , Stéphane Vialette MiCoViTo: a tool for gene-centric comparison and visualization of yeast transcriptome states. [Citation Graph (0, 0)][DBLP ] Journal ] Kamesh Munagala , Robert Tibshirani , Patrick O. Brown Cancer characterization and feature set extraction by discriminative margin clustering. [Citation Graph (0, 0)][DBLP ] Journal ] Rainer Merkl SIGI: score-based identification of genomic islands. [Citation Graph (0, 0)][DBLP ] Journal ] Shaun Mahony , James O. McInerney , Terry J. Smith , Aaron Golden Gene prediction using the Self-Organizing Map: automatic generation of multiple gene models. [Citation Graph (0, 0)][DBLP ] Journal ] David Adalsteinsson , David McMillen , Timothy C. Elston Biochemical Network Stochastic Simulator (BioNetS): software for stochastic modeling of biochemical networks. [Citation Graph (0, 0)][DBLP ] Journal ] Remko de Knikker , Youjun Guo , Jin-Long Li , Albert K. H. Kwan , Kevin Y. Yip , David W. Cheung , Kei-Hoi Cheung A web services choreography scenario for interoperating bioinformatics applications. [Citation Graph (0, 0)][DBLP ] Journal ] Henry R. Bigelow , Adam S. Wenick , Allan Wong , Oliver Hobert CisOrtho: A program pipeline for genome-wide identification of transcription factor target genes using phylogenetic footprinting. [Citation Graph (0, 0)][DBLP ] Journal ] Shashi B. Pandit , Rana Bhadra , V. S. Gowri , S. Balaji , B. Anand , Narayanaswamy Srinivasan SUPFAM: A database of sequence superfamilies of protein domains. [Citation Graph (0, 0)][DBLP ] Journal ] Pantelis G. Bagos , Theodore Liakopoulos , Ioannis C. Spyropoulos , Stavros J. Hamodrakas A Hidden Markov Model method, capable of predicting and discriminating beta-barrel outer membrane proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Jan C. Biro , Josephine M. K. Biro Frequent occurrence of recognition Site-like sequences in the restriction endonucleases. [Citation Graph (0, 0)][DBLP ] Journal ] Feng Gao , Barrett C. Foat , Harmen J. Bussemaker Defining transcriptional networks through integrative modeling of mRNA expression and transcription factor binding data. [Citation Graph (0, 0)][DBLP ] Journal ] Petri Törönen Selection of informative clusters from hierarchical cluster tree with gene classes. [Citation Graph (0, 0)][DBLP ] Journal ] Alberto Riva , Isaac S. Kohane A SNP-centric database for the investigation of the human genome. [Citation Graph (0, 0)][DBLP ] Journal ] Rainer Breitling , Anna Amtmann , Pawel Herzyk Iterative Group Analysis (iGA): A simple tool to enhance sensitivity and facilitate interpretation of microarray experiments. [Citation Graph (0, 0)][DBLP ] Journal ] Anirban Bhaduri , Ganesan Pugalenthi , Ramanathan Sowdhamini PASS2: an automated database of protein alignments organised as structural superfamilies. [Citation Graph (0, 0)][DBLP ] Journal ] Ching Yu Austin Huang , Joel F. Studebaker , Anton Yuryev , Jianping Huang , Kathryn E. Scott , Jennifer Kuebler , Shobha Varde , Steven Alfisi , Craig A. Gelfand , Mark Pohl , Michael T. Boyce-Jacino Auto-validation of fluorescent primer extension genotyping assay using signal clustering and neural networks. [Citation Graph (0, 0)][DBLP ] Journal ] Artem Cherkasov , Steven J. M. Jones Structural characterization of genomes by large scale sequence-structure threading. [Citation Graph (0, 0)][DBLP ] Journal ] Lan V. Zhang , Sharyl L. Wong , Oliver D. King , Frederick P. Roth Predicting co-complexed protein pairs using genomic and proteomic data integration. [Citation Graph (0, 0)][DBLP ] Journal ] Alexander V. Diemand , Holger Scheib MolTalk - a programming library for protein structures and structure analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Sohrab P. Shah , David Y. M. He , Jessica N. Sawkins , Jeffrey C. Druce , Gerald Quon , Drew Lett , Grace X. Y. Zheng , Tao Xu , B. F. Francis Ouellette Pegasys: software for executing and integrating analyses of biological sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Marc N. Offman , Ramil N. Nurtdinov , Mikhail S. Gelfand , Dmitrij Frishman No statistical support for correlation between the positions of protein interaction sites and alternatively spliced regions. [Citation Graph (0, 0)][DBLP ] Journal ] Leah Barrera , Chris Benner , Yong-Chuan Tao , Elizabeth A. Winzeler , Yingyao Zhou Leveraging two-way probe-level block design for identifying differential gene expression with high-density oligonucleotide arrays. [Citation Graph (0, 0)][DBLP ] Journal ] J. Daniel Navarro , Naveen Talreja , Suraj Peri , B. M. Vrushabendra , B. P. Rashmi , N. Padma , Vineeth Surendranath , Chandra Kiran Jonnalagadda , P. S. Kousthub , Nandan Deshpande , K. Shanker , Akhilesh Pandey BioBuilder as a database development and functional annotation platform for proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Olga V. Matveeva , Brian T. Foley , Vladimir A. Nemtsov , Raymond F. Gesteland , Senya Matsufuji , John F. Atkins , Aleksey Y. Ogurtsov , Svetlana A. Shabalina Identification of regions in multiple sequence alignments thermodynamically suitable for targeting by consensus oligonucleotides: application to HIV genome. [Citation Graph (0, 0)][DBLP ] Journal ] Timothy J. Harlow , J. Peter Gogarten , Mark A. Ragan A hybrid clustering approach to recognition of protein families in 114 microbial genomes. [Citation Graph (0, 0)][DBLP ] Journal ] Guohui Zhou , Xinyu Wen , Hang Liu , Michael J. Schlicht , Martin J. Hessner , Peter J. Tonellato , Milton W. Datta B.E.A.R. GeneInfo: A tool for identifying gene-related biomedical publications through user modifiable queries. [Citation Graph (0, 0)][DBLP ] Journal ] Jörg Rahnenführer , Daniel Bozinov Hybrid clustering for microarray image analysis combining intensity and shape features. [Citation Graph (0, 0)][DBLP ] Journal ] Timothy Hughes , Young Hyun , David A. Liberles Visualising very large phylogenetic trees in three dimensional hyperbolic space. [Citation Graph (0, 0)][DBLP ] Journal ] Christopher S. Coffey , Patricia R. Hebert , Marylyn D. Ritchie , Harlan M. Krumholz , J. Michael Gaziano , Paul M. Ridker , Nancy J. Brown , Douglas E. Vaughan , Jason H. Moore An application of conditional logistic regression and multifactor dimensionality reduction for detecting gene-gene Interactions on risk of myocardial infarction: The importance of model validation. [Citation Graph (0, 0)][DBLP ] Journal ] Allegra Via , Manuela Helmer-Citterich A structural study for the optimisation of functional motifs encoded in protein sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Shandar Ahmad , M. Michael Gromiha , Hamed Fawareh , Akinori Sarai ASAView : Database and tool for solvent accessibility representation in proteins.Citation Graph (0, 0)][DBLP ] Journal ] Srikanth Celamkoti , Sashidhara Kundeti , Anjan Purkayastha , Raja Mazumder , Charles Buck , Donald Seto GeneOrder3.0: Software for comparing the order of genes in pairs of small bacterial genomes. [Citation Graph (0, 0)][DBLP ] Journal ] Igor Dozmorov , Nicholas Knowlton , Yuhong Tang , Michael Centola Statistical monitoring of weak spots for improvement of normalization and ratio estimates in microarrays. [Citation Graph (0, 0)][DBLP ] Journal ] Jeffrey P. Townsend Resolution of large and small differences in gene expression using models for the Bayesian analysis of gene expression levels and spotted DNA microarrays. [Citation Graph (0, 0)][DBLP ] Journal ] Davide Corà , Ferdinando Di Cunto , Paolo Provero , Lorenzo Silengo , Michele Caselle Computational identification of transcription factor binding sites by functional analysis of sets of genes sharing overrep-resented upstream motifs. [Citation Graph (0, 0)][DBLP ] Journal ] Laurent Fourrier , Cristina Benros , Alexandre G. de Brevern Use of a structural alphabet for analysis of short loops connecting repetitive structures. [Citation Graph (0, 0)][DBLP ] Journal ] Ian Korf Gene finding in novel genomes. [Citation Graph (0, 0)][DBLP ] Journal ] Kellie J. Archer , Catherine I. Dumur , Viswanathan Ramakrishnan Graphical technique for identifying a monotonic variance stabilizing transformation for absolute gene intensity signals. [Citation Graph (0, 0)][DBLP ] Journal ] Artem Cherkasov , Steven J. M. Jones An approach to large scale identification of non-obvious structural similarities between proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Gavin C. Conant , Andreas Wagner A fast algorithm for determining the best combination of local alignments to a query sequence. [Citation Graph (0, 0)][DBLP ] Journal ] Tristan Mary-Huard , Jean-Jacques Daudin , Stéphane Robin , Frédérique Bitton , Eric Cabannes , Pierre Hilson Spotting effect in microarray experiments. [Citation Graph (0, 0)][DBLP ] Journal ] Yvan Saeys , Sven Degroeve , Dirk Aeyels , Pierre Rouzé , Yves Van de Peer Feature selection for splice site prediction: A new method using EDA-based feature ranking. [Citation Graph (0, 0)][DBLP ] Journal ] Gordana Pavlovic-Lazetic , Nenad S. Mitic , Milos V. Beljanski Bioinformatics analysis of SARS coronavirus genome polymorphism. [Citation Graph (0, 0)][DBLP ] Journal ] Qinghua Cui , Tianzi Jiang , Bing Liu , Songde Ma Esub8: A novel tool to predict protein subcellular localizations in eukaryotic organisms. [Citation Graph (0, 0)][DBLP ] Journal ] Meena K. Sakharkar , Pandjassarame Kangueane Genome SEGE: A database for 'intronless' genes in eukaryotic genomes. [Citation Graph (0, 0)][DBLP ] Journal ] Andrea Bisognin , Stefania Bortoluzzi , Gian Antonio Danieli Detection of chromosomal regions showing differential gene expression in human skeletal muscle and in alveolar rhabdomyosarcoma. [Citation Graph (0, 0)][DBLP ] Journal ] Thomas Lütteke , Claus-Wilhelm von der Lieth pdb-care (PDB CArbohydrate REsidue check): a program to support annotation of complex carbohydrate structures in PDB files. [Citation Graph (0, 0)][DBLP ] Journal ] Yingchun Liu , Markus Ringnér Multiclass discovery in array data. [Citation Graph (0, 0)][DBLP ] Journal ] Robin D. Dowell , Sean R. Eddy Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction. [Citation Graph (0, 0)][DBLP ] Journal ] Lars Kiemer , Ole Lund , Søren Brunak , Nikolaj Blom Coronavirus 3CLpro [Citation Graph (0, 0)][DBLP ] Journal ] Daniel A. Pollard , Casey M. Bergman , Jens Stoye , Susan E. Celniker , Michael B. Eisen Correction: Benchmarking tools for the alignment of functional noncodingDNA. [Citation Graph (0, 0)][DBLP ] Journal ] Junbai Wang , Leonardo A. Meza-Zepeda , Stine H. Kresse , Ola Myklebost M-CGH: Analysing microarray-based CGH experiments. [Citation Graph (0, 0)][DBLP ] Journal ] Drew Lett , Michael Hsing , Frederic Pio Interaction profile-based protein classification of death domain. [Citation Graph (0, 0)][DBLP ] Journal ] Michelle L. Green , Peter D. Karp A Bayesian method for identifying missing enzymes in predicted metabolic pathway databases. [Citation Graph (0, 0)][DBLP ] Journal ] Helene H. Thygesen , Aeilko H. Zwinderman Comparing transformation methods for DNA microarray data. [Citation Graph (0, 0)][DBLP ] Journal ] Kai Huang , Robert F. Murphy Boosting accuracy of automated classification of fluorescence microscope images for location proteomics. [Citation Graph (0, 0)][DBLP ] Journal ] Francesca Diella , Scott Cameron , Christine Gemünd , Rune Linding , Allegra Via , Bernhard Küster , Thomas Sicheritz-Pontén , Nikolaj Blom , Toby J. Gibson Phospho.ELM: A database of experimentally verified phosphorylation sites in eukaryotic proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Barry Zeeberg , Joseph Riss , David W. Kane , Kimberly J. Bussey , Edward Uchio , W. Marston Linehan , J. Carl Barrett , John N. Weinstein Mistaken Identifiers: Gene name errors can be introduced inadvertently when using Excel in bioinformatics. [Citation Graph (0, 0)][DBLP ] Journal ] Hongying Jiang , Youping Deng , Huann-Sheng Chen , Lin Tao , Qiuying Sha , Jun Chen , Chung-Jui Tsai , Shuanglin Zhang Joint analysis of two microarray gene-expression data sets to select lung adenocarcinoma marker genes. [Citation Graph (0, 0)][DBLP ] Journal ] Tomokazu Konishi Correction: Three-parameter lognormal distribution ubiquitously found in cDNA microarray data and its application to parametric data treatment. [Citation Graph (0, 0)][DBLP ] Journal ] Lisa C. Romero , Thanh Vinh Nguyen , Benoit Deville , Oluwasanmi Ogunjumo , Anthony A. James The MB2 gene family of Plasmodium species has a unique combination of S1 and GTP-binding domains. [Citation Graph (0, 0)][DBLP ] Journal ] Eric H. Baehrecke , Niem Dang , Ketan Babaria , Ben Shneiderman Visualization and analysis of microarray and gene ontology data with treemaps. [Citation Graph (0, 0)][DBLP ] Journal ] Hao Zhu , Peter Y. H. Pang , Yan Sun , Pawan Dhar Asynchronous adaptive time step in quantitative cellular automata modeling. [Citation Graph (0, 0)][DBLP ] Journal ] Keith A. Jolley , Man-Suen Chan , Martin C. J. Maiden mlstdbNet - distributed multi-locus sequence typing (MLST) databases. [Citation Graph (0, 0)][DBLP ] Journal ] R. Henrik Nilsson , Balaji Rajashekar , Karl-Henrik Larsson , Björn M. Ursing galaxieEST: addressing EST identity through automated phylogenetic analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Daniela Fera , Namhee Kim , Nahum Shiffeldrim , Julie Zorn , Uri Laserson , Hin Hark Gan , Tamar Schlick RAG: RNA-As-Graphs web resource. [Citation Graph (0, 0)][DBLP ] Journal ] Peisen Zhang , Huitao Sheng , Ryuhei Uehara A double classification tree search algorithm for index SNP selection. [Citation Graph (0, 0)][DBLP ] Journal ] Oleg N. Reva , Burkhard Tümmler Global features of sequences of bacterial chromosomes, plasmids and phages revealed by analysis of oligonucleotide usage patterns. [Citation Graph (0, 0)][DBLP ] Journal ] Luis Sánchez-Pulido , Ana María Rojas , Karel H. M. van Wely , Carlos Martínez-A , Alfonso Valencia SPOC: A widely distributed domain associated with cancer, apoptosis and transcription. [Citation Graph (0, 0)][DBLP ] Journal ] Matthias Wjst Target SNP selection in complex disease association studies. [Citation Graph (0, 0)][DBLP ] Journal ] Matthew J. Cockerill Delayed impact: ISI's citation tracking choices are keeping scientists in the dark. [Citation Graph (0, 0)][DBLP ] Journal ] Olivier Andrieu , Anna-Sophie Fiston , Dominique Anxolabéhère , Hadi Quesneville Detection of transposable elements by their compositional bias. [Citation Graph (0, 0)][DBLP ] Journal ] Christine Brun , Carl Herrmann , Alain Guénoche Clustering proteins from interaction networks for the prediction of cellular functions. [Citation Graph (0, 0)][DBLP ] Journal ] Ryan Brodie , Alex J. Smith , Rachel L. Roper , Vasily Tcherepanov , Chris Upton Base-By-Base: Single nucleotide-level analysis of whole viral genome alignments. [Citation Graph (0, 0)][DBLP ] Journal ] Dankyu Yoon , Sung-Gon Yi , Ju-Han Kim , Taesung Park Two-stage normalization using background intensities in cDNA microarray data. [Citation Graph (0, 0)][DBLP ] Journal ] Dariusz Plewczynski , Leszek Rychlewski , Yuzhen Ye , Lukasz Jaroszewski , Adam Godzik Integrated web service for improving alignment quality based on segments comparison. [Citation Graph (0, 0)][DBLP ] Journal ] Bin Yao , Sanjay N. Rakhade , Qunfang Li , Sharlin Ahmed , Raul Krauss , Sorin Draghici , Jeffrey A. Loeb Accuracy of cDNA microarray methods to detect small gene expression changes induced by neuregulin on breast epithelial cells. [Citation Graph (0, 0)][DBLP ] Journal ] Rainer Breitling , Anna Amtmann , Pawel Herzyk Graph-based iterative Group Analysis enhances microarray interpretation. [Citation Graph (0, 0)][DBLP ] Journal ] Artem Cherkasov , Shannan J. Ho Sui , Robert C. Brunham , Steven J. M. Jones Structural characterization of genomes by large scale sequence-structure threading: application of reliability analysis in structural genomics. [Citation Graph (0, 0)][DBLP ] Journal ] Baozhen Qiao , Ronald M. Weigel A computer simulation analysis of the accuracy of partial genome sequencing and restriction fragment analysis in estimating genetic relationships: an application to papillomavirus DNA sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Chao Lu Improving the scaling normalization for high-density oligonucleotide GeneChip expression microarrays. [Citation Graph (0, 0)][DBLP ] Journal ] Jens Reeder , Robert Giegerich Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics. [Citation Graph (0, 0)][DBLP ] Journal ] Kishore J. Doshi , Jamie J. Cannone , Christian W. Cobaugh , Robin Ray Gutell Evaluation of the suitability of free-energy minimization using nearest-neighbor energy parameters for RNA secondary structure prediction. [Citation Graph (0, 0)][DBLP ] Journal ] Ruslan Sadreyev , Nick V. Grishin Estimates of statistical significance for comparison of individual positions in multiple sequence alignments. [Citation Graph (0, 0)][DBLP ] Journal ] Roberto H. Higa , Roberto C. Togawa , Arnaldo J. Montagner , Juliana F. Palandrani , Igor K. S. Okimoto , Paula R. Kuser , Michel E. B. Yamagishi , Adauto L. Mancini , Goran Neshich STING Millennium Suite: integrated software for extensive analyses of 3d structures of proteins and their complexes. [Citation Graph (0, 0)][DBLP ] Journal ] Bahrad A. Sokhansanj , J. Patrick Fitch , Judy N. Quong , Andrew A. Quong Linear fuzzy gene network models obtained from microarray data by exhaustive search. [Citation Graph (0, 0)][DBLP ] Journal ] Shane C. Dillon , Alex Bateman The Hotdog fold: wrapping up a superfamily of thioesterases and dehydratases. [Citation Graph (0, 0)][DBLP ] Journal ] James Lyons-Weiler , Satish Patel , Michael J. Becich , Tony E. Godfrey Tests for finding complex patterns of differential expression in cancers: towards individualized medicine. [Citation Graph (0, 0)][DBLP ] Journal ] Laurent Gautier , Morten Møller , Lennart Friis-Hansen , Steen Knudsen Alternative mapping of probes to genes for Affymetrix chips. [Citation Graph (0, 0)][DBLP ] Journal ] Jibin Sun , An-Ping Zeng IdentiCS - Identification of coding sequence and in silico reconstruction of the metabolic network directly from unannotated low-coverage bacterial genome sequence. [Citation Graph (0, 0)][DBLP ] Journal ] Robert C. Edgar MUSCLE: a multiple sequence alignment method with reduced time and space complexity. [Citation Graph (0, 0)][DBLP ] Journal ] Alexandre G. de Brevern , Serge A. Hazout , Alain Malpertuy Influence of microarrays experiments missing values on the stability of gene groups by hierarchical clustering. [Citation Graph (0, 0)][DBLP ] Journal ] Arunachalam Vinayagam , Rainer König , Jutta Moormann , Falk Schubert , Roland Eils , Karl-Heinz Glatting , Sándor Suhai Applying Support Vector Machines for Gene ontology based gene function prediction. [Citation Graph (0, 0)][DBLP ] Journal ] Kristian Flikka , Fekadu Yadetie , Astrid Lægreid , Inge Jonassen XHM: A system for detection of potential cross hybridizations in DNA microarrays. [Citation Graph (0, 0)][DBLP ] Journal ] Carsten O. Daub , Ralf Steuer , Joachim Selbig , Sebastian Kloska Estimating mutual information using B-spline functions - an improved similarity measure for analysing gene expression data. [Citation Graph (0, 0)][DBLP ] Journal ] Yasuyuki Tomita , Shuta Tomida , Yuko Hasegawa , Yoichi Suzuki , Taro Shirakawa , Takeshi Kobayashi , Hiroyuki Honda Artificial neural network approach for selection of susceptible single nucleotide polymorphisms and construction of prediction model on childhood allergic asthma. [Citation Graph (0, 0)][DBLP ] Journal ] Huajun Wang , Hui Huang SED, a normalization free method for DNA microarray data analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Xinghua Lu , ChengXiang Zhai , Vanathi Gopalakrishnan , Bruce G. Buchanan Automatic annotation of protein motif function with Gene Ontology terms. [Citation Graph (0, 0)][DBLP ] Journal ] Richard J. Edwards , Denis C. Shields GASP: Gapped Ancestral Sequence Prediction for proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Michael V. Osier , Hongyu Zhao , Kei-Hoi Cheung Handling multiple testing while interpreting microarrays with the Gene Ontology Database. [Citation Graph (0, 0)][DBLP ] Journal ] Sudhir Varma , Richard Simon Iterative class discovery and feature selection using Minimal Spanning Trees. [Citation Graph (0, 0)][DBLP ] Journal ] Anuradha Vivekanandan Giri , Sharmila Anishetty , Pennathur Gautam Functionally specified protein signatures distinctive for each of the different blue copper proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Martin Schmollinger , Kay Nieselt , Michael Kaufmann , Burkhard Morgenstern DIALIGN P: Fast pair-wise and multiple sequence alignment using parallel processors. [Citation Graph (0, 0)][DBLP ] Journal ] Saurabh Sinha , Mark D. Schroeder , Ulrich Unnerstall , Ulrike Gaul , Eric D. Siggia Cross-species comparison significantly improves genome-wide prediction of cis-regulatory modules in Drosophila. [Citation Graph (0, 0)][DBLP ] Journal ] Sook Jung , Christopher Jesudurai , Margaret Staton , Zhidian Du , Stephen Ficklin , Ilhyung Cho , Albert Abbott , Jeffrey Tomkins , Dorrie Main GDR (G enome D atabase for R osaceae): integrated web resources for Rosaceae genomics and genetics research. [Citation Graph (0, 0)][DBLP ] Journal ] Thomas A. Down , Tim J. P. Hubbard What can we learn from noncoding regions of similarity between genomes? [Citation Graph (0, 0)][DBLP ] Journal ] Michael P. Cummings , Daniel S. Myers Simple statistical models predict C-to-U edited sites in plant mitochondrial RNA. [Citation Graph (0, 0)][DBLP ] Journal ] Mark W. E. J. Fiers , Gijs A. Kleter , Herman Nijland , Jan Peter Nap , Roeland C. H. J. van Ham Allermatch(tm), a webtool for the prediction of potential allergenicity according to current FAO/WHO Codex alimentarius guidelines. [Citation Graph (0, 0)][DBLP ] Journal ] Yanlin Huang , David Kowalski PATTERNFINDER: combined analysis of DNA regulatory sequences and double-helix stability. [Citation Graph (0, 0)][DBLP ] Journal ] Gustavo Camps-Valls , Alistair M. Chalk , Antonio J. Serrano-López , José David Martín-Guerrero , Erik L. L. Sonnhammer Profiled support vector machines for antisense oligonucleotide efficacy prediction. [Citation Graph (0, 0)][DBLP ] Journal ] Bing Liu , Qinghua Cui , Tianzi Jiang , Songde Ma A combinational feature selection and ensemble neural network method for classification of gene expression data. [Citation Graph (0, 0)][DBLP ] Journal ] Michael P. Cummings , Mark R. Segal Few amino acid positions in rpoB are associated with most of the rifampin resistance in Mycobacterium tuberculosis . [Citation Graph (0, 0)][DBLP ] Journal ] Christiana K. Magkrioti , Ioannis C. Spyropoulos , Vassiliki A. Iconomidou , Judith H. Willis , Stavros J. Hamodrakas cuticleDB: a relational database of Arthropod cuticular proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Neil R. Smalheiser , Vetle I. Torvik A population-based statistical approach identifies parameters characteristic of human microRNA-mRNA interactions. [Citation Graph (0, 0)][DBLP ] Journal ] Paul P. Gardner , Robert Giegerich A comprehensive comparison of comparative RNA structure prediction approaches. [Citation Graph (0, 0)][DBLP ] Journal ] Christian A. Rees , Janos Demeter , John C. Matese , David Botstein , Gavin Sherlock GeneXplorer: an interactive web application for microarray data visualization and analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Anu Sharma , Gyan Prakash Srivastava , Vineet K. Sharma , Srinivasan Ramachandran ArrayD: A general purpose software for Microarray design. [Citation Graph (0, 0)][DBLP ] Journal ] Céline Keime , Francesca Damiola , Dominique Mouchiroud , Laurent Duret , Olivier Gandrillon Identitag, a relational database for SAGE tag identification and interspecies comparison of SAGE libraries. [Citation Graph (0, 0)][DBLP ] Journal ] Keith A. Baggerly , Li Deng , Jeffrey S. Morris , C. Marcelo Aldaz Overdispersed logistic regression for SAGE: Modelling multiple groups and covariates. [Citation Graph (0, 0)][DBLP ] Journal ] Jonathan D. Wren Extending the mutual information measure to rank inferred literature relationships. [Citation Graph (0, 0)][DBLP ] Journal ] Diane E. Oliver , Gaurav Bhalotia , Ariel S. Schwartz , Russ B. Altman , Marti A. Hearst Tools for loading MEDLINE into a local relational database. [Citation Graph (0, 0)][DBLP ] Journal ] Hao Chen , Burt M. Sharp Content-rich biological network constructed by mining PubMed abstracts. [Citation Graph (0, 0)][DBLP ] Journal ] Dietmar E. Martin , Philippe Demougin , Michael N. Hall , Michel Bellis Rank Difference Analysis of Microarrays (RDAM), a novel approach to statistical analysis of microarray expression profiling data. [Citation Graph (0, 0)][DBLP ] Journal ] Laurent Noé , Gregory Kucherov Improved hit criteria for DNA local alignment. [Citation Graph (0, 0)][DBLP ] Journal ] Florian Meereis , Michael Kaufmann PCOGR: Phylogenetic COG ranking as an online tool to judge the specificity of COGs with respect to freely definable groups of organisms. [Citation Graph (0, 0)][DBLP ] Journal ] Ihab A. B. Awad , Christian A. Rees , Tina Hernandez-Boussard , Catherine A. Ball , Gavin Sherlock Caryoscope: An Open Source Java application for viewing microarray data in a genomic context. [Citation Graph (0, 0)][DBLP ] Journal ] Sergey V. Anisimov , Alexei A. Sharov Incidence of "quasi-ditags" in catalogs generated by Serial Analysis of Gene Expression (SAGE). [Citation Graph (0, 0)][DBLP ] Journal ] Gareth Williams , Patrick Doherty Inter-residue distances derived from fold contact propensities correlate with evolutionary substitution costs. [Citation Graph (0, 0)][DBLP ] Journal ] Nan Lin , Baolin Wu , Ronald Jansen , Mark Gerstein , Hongyu Zhao Information assessment on predicting protein-protein interactions. [Citation Graph (0, 0)][DBLP ] Journal ] Tuangthong Wattarujeekrit , Parantu K. Shah , Nigel Collier PASBio: predicate-argument structures for event extraction in molecular biology. [Citation Graph (0, 0)][DBLP ] Journal ] Michael Hsing , Joel L. Bellenson , Conor Shankey , Artem Cherkasov Modeling of cell signaling pathways in macrophages by semantic networks. [Citation Graph (0, 0)][DBLP ] Journal ] Andrew F. Neuwald , Jun S. Liu Gapped alignment of protein sequence motifs through Monte Carlo optimization of a hidden Markov model. 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