Journal: Briefings in Bioinformatics

Volume 11, Issue 6

535 -- 536Indra Neil Sarkar. Editorial: Bioinformatics education in the 21st century
537 -- 543Michael P. Cummings, Glena G. Temple. Broader incorporation of bioinformatics in education: opportunities and challenges
544 -- 551Maria Victoria Schneider, James Watson, Teresa K. Attwood, Kristian Rother, Aidan Budd, Jennifer McDowall, Allegra Via, Pedro Fernandes, Tommi H. Nyrönen, Thomas Blicher, Phil Jones, Marie-Claude Blatter, Javier De Las Rivas, David Phillip Judge, Wouter van der Gool, Catherine Brooksbank. Bioinformatics training: a review of challenges, actions and support requirements
552 -- 562Victoria Ann Wright, Brendan W. Vaughan, Thomas Laurent, Rodrigo Lopez, Catherine Brooksbank, Maria Victoria Schneider. Bioinformatics training: selecting an appropriate learning content management system - an example from the European Bioinformatics Institute
563 -- 569Peter S. Cooper, Dawn Lipshultz, Wayne Matten, Scott D. McGinnis, Steven Pechous, Monica L. Romiti, Tao Tao, Majda Valjavec-Gratian, Eric W. Sayers. Education resources of the National Center for Biotechnology Information
570 -- 581John R. Jungck, Samuel S. Donovan, Anton E. Weisstein, Noppadon Khiripet, Stephen J. Everse. Bioinformatics education dissemination with an evolutionary problem solving perspective
582 -- 586Kristian Rother, Magdalena Rother, Alexandra Pleus, Annette Upmeier zu Belzen. Multi-stage learning aids applied to hands-on software training
587 -- 597Pier Luigi Buttigieg. Perspectives on presentation and pedagogy in aid of bioinformatics education
598 -- 609Jennifer M. Williams, Mary E. Mangan, Cynthia Perreault-Micale, Scott Lathe, Neeraj Sirohi, Warren C. Lathe. OpenHelix: bioinformatics education outside of a different box
610 -- 615Grant Yamashita, Holly Miller, Anthony Goddard, Cathy Norton. A model for Bioinformatics training: the marine biological laboratory
616 -- 625Urmila Kulkarni-Kale, Sangeeta Sawant, Vishwas Chavan. Bioinformatics education in India
626 -- 634Pedro L. Fernandes. The GTPB training programme in Portugal

Volume 11, Issue 5

455 -- 456Keith Robison. Editorial: Second-generation sequencing
457 -- 472Konrad H. Paszkiewicz, David J. Studholme. ::::De novo:::: assembly of short sequence reads
473 -- 483Heng Li, Nils Homer. A survey of sequence alignment algorithms for next-generation sequencing
484 -- 498Daniel C. Koboldt, Li Ding, Elaine R. Mardis, Richard K. Wilson. Challenges of sequencing human genomes
499 -- 511Thomas Werner. Next generation sequencing in functional genomics
512 -- 523Mikael Huss. Introduction into the analysis of high-throughput-sequencing based epigenome data
524 -- 534Keith Robison. Application of second-generation sequencing to cancer genomics

Volume 11, Issue 4

375 -- 384Franck Valentin, Silvano Squizzato, Mickael Goujon, Hamish McWilliam, Juri Paern, Rodrigo Lopez. Fast and efficient searching of biological data resources - using EB-eye
385 -- 393Shuangge Ma, Jian Huang, Mingyu Shi, Yang Li, Ben-Chang Shia. Semiparametric prognosis models in genomic studies
394 -- 402Emma M. B. Weeding, Jason Houle, Yiannis N. Kaznessis. SynBioSS designer: a web-based tool for the automated generation of kinetic models for synthetic biological constructs
403 -- 416Daniël B. van Schalkwijk, Kees van Bochove, Ben van Ommen, Andreas P. Freidig, Eugene P. van Someren, Jan van der Greef, Albert A. de Graaf. Developing computational model-based diagnostics to analyse clinical chemistry data
417 -- 430Jing Zhao, Peng Jiang, Weidong Zhang. Molecular networks for the study of TCM Pharmacology
431 -- 439Melinda R. Dwinell. Online tools for understanding rat physiology
440 -- 453Maurizio Casiraghi, Massimo Labra, Emanuele Ferri, Andrea Galimberti, Fabrizio De Mattia. DNA barcoding: a six-question tour to improve users' awareness about the method

Volume 11, Issue 3

267 -- 269Tommaso Mazza. Editorial: Accelerating systems biology
270 -- 277Chen Li, Mélanie Courtot, Nicolas Le Novère, Camille Laibe. BioModels.net Web Services, a free and integrated toolkit for computational modelling software
278 -- 289Yuhui Chen, Conor Lawless, Colin S. Gillespie, Jake Wu, Richard J. Boys, Darren J. Wilkinson. CaliBayes and BASIS: integrated tools for the calibration, simulation and storage of biological simulation models
290 -- 300Roland Ewald, Jan Himmelspach, Matthias Jeschke, Stefan Leye, Adelinde M. Uhrmacher. Flexible experimentation in the modeling and simulation framework JAMES II - implications for computational systems biology
301 -- 312Jiri Barnat, Lubos Brim, David Safránek. High-performance analysis of biological systems dynamics with the DiVinE model checker
313 -- 322José M. Cecilia, José M. García, Ginés D. Guerrero, Miguel A. Martínez-del-Amor, Ignacio Pérez-Hurtado, Mario J. Pérez-Jiménez. Simulation of P systems with active membranes on CUDA
323 -- 333Lorenzo Dematté, Davide Prandi. GPU computing for systems biology
334 -- 347Paul Richmond, Dawn Walker, Simon Coakley, Daniela M. Romano. High performance cellular level agent-based simulation with FLAME for the GPU
348 -- 363Laszlo Bako. Real-time classification of datasets with hardware embedded neuromorphic neural networks
364 -- 374Tommaso Mazza, Alessandro Romanel, Ferenc Jordán. Estimating the divisibility of complex biological networks by sparseness indices

Volume 11, Issue 2

181 -- 197David Stephen Horner, Giulio Pavesi, Tiziana Castrignanò, Paolo D Onorio De Meo, Sabino Liuni, Michael Sammeth, Ernesto Picardi, Graziano Pesole. Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing
198 -- 209Roberto Hirochi Herai, Michel Eduardo Beleza Yamagishi. trans-splicing in sequence databanks
210 -- 224Ronnie Alves, Domingo S. Rodríguez-Baena, Jesús S. Aguilar-Ruiz. Gene association analysis: a survey of frequent pattern mining from gene expression data
225 -- 243Zsuzsanna Dosztányi, Bálint Mészáros, István Simon. Bioinformatical approaches to characterize intrinsically disordered/unstructured proteins
244 -- 252Kellie J. Archer, Sarah E. Reese. Detection call algorithms for high-throughput gene expression microarray data
253 -- 264Tero Aittokallio. Dealing with missing values in large-scale studies: microarray data imputation and beyond
265 -- 0Artem Lysenko, Matthew Morritt Hindle, Jan Taubert, Mansoor Saqi, Christopher J. Rawlings. Data integration for plant genomics - exemplars from the integration of ::::Arabidopsis thaliana:::: databases

Volume 11, Issue 1

1 -- 2Russ B. Altman. Editorial: Current progress in Bioinformatics 2010
3 -- 14Adrian V. Dalca, Michael Brudno. Genome variation discovery with high-throughput sequencing data
15 -- 29Teresa M. Przytycka, Mona Singh, Donna K. Slonim. Toward the dynamic interactome: it s about time
30 -- 39Michael F. Ochs. Knowledge-based data analysis comes of age
40 -- 79Peter D. Karp, Suzanne M. Paley, Markus Krummenacker, Mario Latendresse, Joseph M. Dale, Thomas J. Lee, Pallavi Kaipa, Fred Gilham, Aaron Spaulding, Liviu Popescu, Tomer Altman, Ian T. Paulsen, Ingrid M. Keseler, Ron Caspi. Pathway Tools version 13.0: integrated software for pathway/genome informatics and systems biology
80 -- 95Gil Alterovitz, Taro Muso, Marco Ramoni. The challenges of informatics in synthetic biology: from biomolecular networks to artificial organisms
96 -- 110Maricel G. Kann. Advances in translational bioinformatics: computational approaches for the hunting of disease genes
111 -- 126Maxwell Lewis Neal, Roy Kerckhoffs. Current progress in patient-specific modeling
127 -- 141Béatrice Duval, Jin-Kao Hao. Advances in metaheuristics for gene selection and classification of microarray data
142 -- 152Peter M. A. Sloot, Alfons G. Hoekstra. Multi-scale modelling in computational biomedicine
153 -- 178Markus Kirkilionis. Exploration of cellular reaction systems
179 -- 180Dae Won Kim, Hong-Seog Park. Modern Genome Annotation . Edited by Dmitrij Frishman and Alfonso Valencia