Volume 2009, 2009

Editorial

DATABASE: A new forum for biological databases and curation
David Landsman, Robert Gentleman, Janet Kelso, B. F. Francis Ouellette
Database, Volume 2009, 2009, bap002, https://doi.org/10.1093/database/bap002

Original Articles

Cildb: a knowledgebase for centrosomes and cilia
Olivier Arnaiz, Agata Malinowska, Catherine Klotz, Linda Sperling, Michal Dadlez, France Koll, Jean Cohen
Database, Volume 2009, 2009, bap022, https://doi.org/10.1093/database/bap022
MaizeGDB becomes ‘sequence-centric’
Taner Z. Sen, Carson M. Andorf, Mary L. Schaeffer, Lisa C. Harper, Michael E. Sparks, Jon Duvick, Volker P. Brendel, Ethalinda Cannon, Darwin A. Campbell, Carolyn J. Lawrence
Database, Volume 2009, 2009, bap020, https://doi.org/10.1093/database/bap020
Understanding PubMed® user search behavior through log analysis
Rezarta Islamaj Dogan, G. Craig Murray, Aurélie Névéol, Zhiyong Lu
Database, Volume 2009, 2009, bap018, https://doi.org/10.1093/database/bap018
MicroScope: a platform for microbial genome annotation and comparative genomics
D. Vallenet, S. Engelen, D. Mornico, S. Cruveiller, L. Fleury, A. Lajus, Z. Rouy, D. Roche, G. Salvignol, C. Scarpelli, C. Médigue
Database, Volume 2009, 2009, bap021, https://doi.org/10.1093/database/bap021
Integrating text mining into the MGI biocuration workflow
K.G. Dowell, M.S. McAndrews-Hill, D.P. Hill, H.J. Drabkin, J.A. Blake
Database, Volume 2009, 2009, bap019, https://doi.org/10.1093/database/bap019
A large and accurate collection of peptidase cleavages in the MEROPS database
Neil D. Rawlings
Database, Volume 2009, 2009, bap015, https://doi.org/10.1093/database/bap015
Models for financial sustainability of biological databases and resources
Christina Chandras, Thomas Weaver, Michael Zouberakis, Damian Smedley, Klaus Schughart, Nadia Rosenthal, John M. Hancock, George Kollias, Paul N. Schofield, Vassilis Aidinis
Database, Volume 2009, 2009, bap017, https://doi.org/10.1093/database/bap017
Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase
P. Gaudet, L. Lane, P. Fey, A. Bridge, S. Poux, A. Auchincloss, K. Axelsen, S. Braconi Quintaje, E. Boutet, P. Brown, E. Coudert, R.S. Datta, W.C. de Lima, T. de Oliveira Lima, S. Duvaud, N. Farriol-Mathis, S. Ferro Rojas, M. Feuermann, A. Gateau … A. Bairoch
Database, Volume 2009, 2009, bap016, https://doi.org/10.1093/database/bap016
A community-curated consensual annotation that is continuously updated: the Bacillus subtilis centred wiki SubtiWiki
Lope A. Flórez, Sebastian F. Roppel, Arne G. Schmeisky, Christoph R. Lammers, Jörg Stülke
Database, Volume 2009, 2009, bap012, https://doi.org/10.1093/database/bap012
The Prion Disease Database: a comprehensive transcriptome resource for systems biology research in prion diseases
Nils Gehlenborg, Daehee Hwang, Inyoul Y. Lee, Hyuntae Yoo, David Baxter, Brianne Petritis, Rose Pitstick, Bruz Marzolf, Stephen J. DeArmond, George A. Carlson, Leroy Hood
Database, Volume 2009, 2009, bap011, https://doi.org/10.1093/database/bap011
Differential direct coding: a compression algorithm for nucleotide sequence data
Gregory Vey
Database, Volume 2009, 2009, bap013, https://doi.org/10.1093/database/bap013
miRò: a miRNA knowledge base
A. Laganà, S. Forte, A. Giudice, M. R. Arena, P. L. Puglisi, R. Giugno, A. Pulvirenti, D. Shasha, A. Ferro
Database, Volume 2009, 2009, bap008, https://doi.org/10.1093/database/bap008
Dr. Zompo: an online data repository for Zostera marina and Posidonia oceanica ESTs
L. Wissler, E. Dattolo, A. D. Moore, T. B. H. Reusch, J. L. Olsen, M. Migliaccio, E. Bornberg-Bauer, G. Procaccini
Database, Volume 2009, 2009, bap009, https://doi.org/10.1093/database/bap009
Radiation Genes: a database devoted to microarrays screenings revealing transcriptome alterations induced by ionizing radiation in mammalian cells
Francesco Chiani, Camilla Iannone, Rodolfo Negri, Daniele Paoletti, Mattia D’Antonio, Paolo D’onorio De Meo, Tiziana Castrignanò
Database, Volume 2009, 2009, bap007, https://doi.org/10.1093/database/bap007
DBH2H: vertebrate head-to-head gene pairs annotated at genomic and post-genomic levels
Hui Yu, Fu-Dong Yu, Guo-Qing Zhang, Xiang Shen, Yun-Qin Chen, Yuan-Yuan Li, Yi-Xue Li
Database, Volume 2009, 2009, bap006, https://doi.org/10.1093/database/bap006
Gramene QTL database: development, content and applications
Junjian Ni, Anuradha Pujar, Ken Youens-Clark, Immanuel Yap, Pankaj Jaiswal, Isaak Tecle, Chih-Wei Tung, Liya Ren, William Spooner, Xuehong Wei, Shuly Avraham, Doreen Ware, Lincoln Stein, Susan McCouch
Database, Volume 2009, 2009, bap005, https://doi.org/10.1093/database/bap005
The Homeodomain Resource: a comprehensive collection of sequence, structure, interaction, genomic and functional information on the homeodomain protein family
R. Travis Moreland, Joseph F. Ryan, Christopher Pan, Andreas D. Baxevanis
Database, Volume 2009, 2009, bap004, https://doi.org/10.1093/database/bap004
Analysis of CASP8 targets, predictions and assessment methods
ShuoYong Shi, Jimin Pei, Ruslan I. Sadreyev, Lisa N. Kinch, Indraneel Majumdar, Jing Tong, Hua Cheng, Bong-Hyun Kim, Nick V. Grishin
Database, Volume 2009, 2009, bap003, https://doi.org/10.1093/database/bap003
New mutant phenotype data curation system in the Saccharomyces Genome Database
Maria C. Costanzo, Marek S. Skrzypek, Robert Nash, Edith Wong, Gail Binkley, Stacia R. Engel, Benjamin Hitz, Eurie L. Hong, J. Michael Cherry, the Saccharomyces Genome Database Project
Database, Volume 2009, 2009, bap001, https://doi.org/10.1093/database/bap001

Tutorial

QuickGO: a user tutorial for the web-based Gene Ontology browser
Rachael P. Huntley, David Binns, Emily Dimmer, Daniel Barrell, Claire O’Donovan, Rolf Apweiler
Database, Volume 2009, 2009, bap010, https://doi.org/10.1093/database/bap010

Database Tool

ORION-VIRCAT: a tool for mapping ICTV and NCBI taxonomies
Willy Valdivia-Granda, Francis Larson
Database, Volume 2009, 2009, bap014, https://doi.org/10.1093/database/bap014

Front Matter/Back Matter

DATABASE Editorial Board 2009
Database, Volume 2009, 2009, bap023, https://doi.org/10.1093/database/bap023
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