Journal: Bioinformatics

Volume 26, Issue 18

0 -- 0Nha Nguyen, Heng Huang, Soontorn Oraintara, An P. N. Vo. Mass spectrometry data processing using zero-crossing lines in multi-scale of Gaussian derivative wavelet
0 -- 0Alexander Goncearenco, Igor N. Berezovsky. Prototypes of elementary functional loops unravel evolutionary connections between protein functions
0 -- 0Rosario M. Piro, Ivan Molineris, Ugo Ala, Paolo Provero, Ferdinando Di Cunto. Candidate gene prioritization based on spatially mapped gene expression: an application to XLMR
0 -- 0Edwin Villanueva, Carlos Dias Maciel. Modeling associations between genetic markers using Bayesian networks
0 -- 0Tiago Rito, Zi Wang, Charlotte M. Deane, Gesine Reinert. How threshold behaviour affects the use of subgraphs for network comparison
0 -- 0An P. N. Vo, Nha Nguyen, Heng Huang. Solenoid and non-solenoid protein recognition using stationary wavelet packet transform
0 -- 0Steven Gay, Sylvain Soliman, François Fages. A graphical method for reducing and relating models in systems biology
0 -- 0Eric Bonnet, Tom Michoel, Yves Van de Peer. Prediction of a gene regulatory network linked to prostate cancer from gene expression, microRNA and clinical data
0 -- 0Osnat Ravid-Amir, Saharon Rosset. Maximum likelihood estimation of locus-specific mutation rates in Y-chromosome short tandem repeats
0 -- 0Christian Höner zu Siederdissen, Ivo L. Hofacker. Discriminatory power of RNA family models
0 -- 0Ryo Yoshida, Masaya M. Saito, Hiromichi Nagao, Tomoyuki Higuchi. Bayesian experts in exploring reaction kinetics of transcription circuits
0 -- 0Christian Bender, Frauke Henjes, Holger Fröhlich, Stefan Wiemann, Ulrike Korf, Tim Beißbarth. Dynamic deterministic effects propagation networks: learning signalling pathways from longitudinal protein array data
0 -- 0Dougu Nam. De-correlating expression in gene-set analysis
0 -- 0Terri K. Attwood, Douglas B. Kell, Philip McDermott, James Marsh, Stephen Pettifer, David Thorne. Utopia documents: linking scholarly literature with research data
0 -- 0Phuong Dao, Recep Colak, Raheleh Salari, Flavia Moser, Elai Davicioni, Alexander Schönhuth, Martin Ester. Inferring cancer subnetwork markers using density-constrained biclustering
0 -- 0Yuki Kato, Kengo Sato, Michiaki Hamada, Yoshihide Watanabe, Kiyoshi Asai, Tatsuya Akutsu. RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming
0 -- 0Kuan-Bei Chen, Yu Zhang. A varying threshold method for ChIP peak-calling using multiple sources of information
0 -- 0Jurgen F. Nijkamp, Wynand Winterbach, Marcel van den Broek, Jean-Marc Daran, Marcel J. T. Reinders, Dick de Ridder. Integrating genome assemblies with MAIA
0 -- 0Marcin J. Mizianty, Wojciech Stach, Ke Chen 0003, Kanaka Durga Kedarisetti, Fatemeh Miri Disfani, Lukasz A. Kurgan. Improved sequence-based prediction of disordered regions with multilayer fusion of multiple information sources
0 -- 0Sofie Van Landeghem, Thomas Abeel, Yvan Saeys, Yves Van de Peer. Discriminative and informative features for biomolecular text mining with ensemble feature selection
0 -- 0Susanne Balzer, Ketil Malde, Anders Lanzén, Animesh Sharma, Inge Jonassen. Characteristics of 454 pyrosequencing data - enabling realistic simulation with flowsim
0 -- 0Yanjun Qi, Oznur Tastan, Jaime G. Carbonell, Judith Klein-Seetharaman, Jason Weston. Semi-supervised multi-task learning for predicting interactions between HIV-1 and human proteins
0 -- 0Luis Tari, Saadat Anwar, Shanshan Liang, James Cai, Chitta Baral. Discovering drug-drug interactions: a text-mining and reasoning approach based on properties of drug metabolism
0 -- 0Florian Erhard, Ralf Zimmer. Classification of ncRNAs using position and size information in deep sequencing data
0 -- 0Grégory Batt, Michel Page, Irene Cantone, Gregor Goessler, Pedro T. Monteiro, Hidde de Jong. Efficient parameter search for qualitative models of regulatory networks using symbolic model checking
0 -- 0Crystal L. Kahn, Borislav H. Hristov, Benjamin J. Raphael. Parsimony and likelihood reconstruction of human segmental duplications
0 -- 0Ali Shojaie, George Michailidis. Discovering graphical Granger causality using the truncating lasso penalty
0 -- 0Carlo Vittorio Cannistraci, Timothy Ravasi, Franco Maria Montevecchi, Trey Ideker, Massimo Alessio. Nonlinear dimension reduction and clustering by Minimum Curvilinearity unfold neuropathic pain and tissue embryological classes
0 -- 0Matús Kalas, Pål Puntervoll, Alexandre Joseph, Edita Bartaseviciute, Armin Töpfer, Prabakar Venkataraman, Steve Pettifer, Jan Christian Bryne, Jon Ison, Christophe Blanchet, Kristoffer Rapacki, Inge Jonassen. BioXSD: the common data-exchange format for everyday bioinformatics web services
0 -- 0Apichat Suratanee, Ilka Rebhan, Petr Matula, Anil Kumar, Lars Kaderali, Karl Rohr, Ralf Bartenschlager, Roland Eils, Rainer König. Detecting host factors involved in virus infection by observing the clustering of infected cells in siRNA screening images
0 -- 0Geoff Macintyre, James Bailey, Izhak Haviv, Adam Kowalczyk. is-rSNP: a novel technique for ::::in silico:::: regulatory SNP detection
0 -- 0Guy Naamati, Manor Askenazi, Michal Linial. A predictor for toxin-like proteins exposes cell modulator candidates within viral genomes
0 -- 0Andreas Schlicker, Thomas Lengauer, Mario Albrecht. Improving disease gene prioritization using the semantic similarity of Gene Ontology terms
0 -- 0Abhilash Srikantha, Ajit S. Bopardikar, Kalyan Kumar Kaipa, Parthasarathy Venkataraman, Kyusang Lee, Taejin Ahn, Rangavittal Narayanan. A fast algorithm for exact sequence search in biological sequences using polyphase decomposition
0 -- 0Gergely Csaba, Ralf Zimmer. Vorescore - fold recognition improved by rescoring of protein structure models
0 -- 0Max Sajitz-Hermstein, Zoran Nikoloski. A novel approach for determining environment-specific protein costs: the case of ::::Arabidopsis thaliana::::
2217 -- 2225Filippo Geraci. A comparison of several algorithms for the single individual SNP haplotyping reconstruction problem
2226 -- 2234Anthony Mathelier, Alessandra Carbone. MIReNA: finding microRNAs with high accuracy and no learning at genome scale and from deep sequencing data
2235 -- 2241Rao M. Kotamarti, Michael Hahsler, Douglas Raiford, Monnie McGee, Margaret H. Dunham. Analyzing taxonomic classification using extensible Markov models
2242 -- 2249PengHao Wang, Pengyi Yang, Jonathan Arthur, Jean Yee Hwa Yang. A dynamic wavelet-based algorithm for pre-processing tandem mass spectrometry data
2250 -- 2258Pietro di Lena, Piero Fariselli, Luciano Margara, Marco Vassura, Rita Casadio. Fast overlapping of protein contact maps by alignment of eigenvectors
2259 -- 2265Mu Gao, Jeffrey Skolnick. iAlign: a method for the structural comparison of protein-protein interfaces
2266 -- 2272Menachem Fromer, Michal Linial. Exposing the co-adaptive potential of protein-protein interfaces through computational sequence design
2273 -- 2280Inken Wohlers, Francisco S. Domingues, Gunnar W. Klau. Towards optimal alignment of protein structure distance matrices
2281 -- 2288Numanul Subhani, Luis Rueda, Alioune Ngom, Conrad J. Burden. Multiple gene expression profile alignment for microarray time-series data clustering
2289 -- 2297Jianfei Hu, Jun Wan, Laszlo Hackler Jr., Donald J. Zack, Jiang Qian. Computational analysis of tissue-specific gene networks: application to murine retinal functional studies
2298 -- 2304Stéphanie Rialle, Liza Felicori, Camila Dias-Lopes, Sabine Pérès, Sanaå El Atia, Alain R. Thierry, Patrick Amar, Franck Molina. BioNetCAD: design, simulation and experimental validation of synthetic biochemical networks
2305 -- 2312Edward R. Morrissey, M. A. Juárez, Katherine J. Denby, N. J. Burroughs. On reverse engineering of gene interaction networks using time course data with repeated measurements
2313 -- 2320Ze Tian, Rui Kuang. Integrative classification and analysis of multiple arrayCGH datasets with probe alignment
2321 -- 2327Jiannan Wang, Inci Cetindil, Shengyue Ji, Chen Li, Xiaohui Xie, Guoliang Li, Jianhua Feng. Interactive and fuzzy search: a dynamic way to explore MEDLINE
2328 -- 2333Pascal Gellert, Katharina Jenniches, Thomas Braun, Shizuka Uchida. C-It: a knowledge database for tissue-enriched genes
2334 -- 2335Lionel Guy, Jens Roat Kultima, Siv G. E. Andersson. genoPlotR: comparative gene and genome visualization in R
2336 -- 2337Randall J. Pruim, Ryan P. Welch, Serena Sanna, Tanya M. Teslovich, Peter S. Chines, Terry P. Gliedt, Michael Boehnke, Gonçalo R. Abecasis, Cristen J. Willer. LocusZoom: regional visualization of genome-wide association scan results
2338 -- 2339San-Yuan Wang, Tsung-Jung Ho, Ching-Hua Kuo, Yufeng J. Tseng. Chromaligner: a web server for chromatogram alignment
2340 -- 2341Tobias Czauderna, Christian Klukas, Falk Schreiber. Editing, validating and translating of SBGN maps
2342 -- 2344Jianguo Xia, David S. Wishart. MetPA: a web-based metabolomics tool for pathway analysis and visualization
2345 -- 2346John L. Van Hemert, Julie A. Dickerson. PathwayAccess: CellDesigner plugins for pathway databases
2347 -- 2348Christian T. Lopes, Max Franz, Farzana Kazi, Sylva L. Donaldson, Quaid Morris, Gary D. Bader. Cytoscape Web: an interactive web-based network browser
2349 -- 2351André Fujita, Kaname Kojima, Alexandre G. Patriota, João Ricardo Sato, Patricia Severino, Satoru Miyano. A fast and robust statistical test based on likelihood ratio with Bartlett correction to identify Granger causality between gene sets
2352 -- 2353Thomas Forth, Glenn A. McConkey, David R. Westhead. MetNetMaker: a free and open-source tool for the creation of novel metabolic networks in SBML format
2354 -- 2356Philippe Rocca-Serra, Marco Brandizi, Eamonn Maguire, Nataliya Sklyar, Chris F. Taylor, Kimberly Begley, Dawn Field, Stephen C. Harris, Winston Hide, Oliver Hofmann, Steffen Neumann, Peter Sterk, Weida Tong, Susanna-Assunta Sansone. ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level
2357 -- 2358Edward A. Kawas, Mark D. Wilkinson. OWL2Perl: creating Perl modules from OWL class definitions
2359 -- 2360Hyunchul Jang, Jinhyun Kim, Sang-Kyun Kim, Chul Kim, Soon-Hee Bae, Anna Kim, Dong-Myung Eom, Mi-Young Song. Ontology for medicinal materials based on traditional Korean medicine
2361 -- 2362Mileidy W. Gonzalez, William R. Pearson. RefProtDom: a protein database with improved domain boundaries and homology relationships