Volume 2012, 2012
Original Articles
Targeted journal curation as a method to improve data currency at the Comparative Toxicogenomics Database
Allan Peter Davis and others
Database, Volume 2012, 2012, bas051, https://doi.org/10.1093/database/bas051
Building an efficient curation workflow for the Arabidopsis literature corpus
Donghui Li and others
Database, Volume 2012, 2012, bas047, https://doi.org/10.1093/database/bas047
Using binary classification to prioritize and curate articles for the Comparative Toxicogenomics Database
Dina Vishnyakova and others
Database, Volume 2012, 2012, bas050, https://doi.org/10.1093/database/bas050
The eFIP system for text mining of protein interaction networks of phosphorylated proteins
Catalina O. Tudor and others
Database, Volume 2012, 2012, bas044, https://doi.org/10.1093/database/bas044
Manual Gene Ontology annotation workflow at the Mouse Genome Informatics Database
Harold J. Drabkin and others
Database, Volume 2012, 2012, bas045, https://doi.org/10.1093/database/bas045
Collaborative biocuration—text-mining development task for document prioritization for curation
Thomas C. Wiegers and others
Database, Volume 2012, 2012, bas037, https://doi.org/10.1093/database/bas037
Developing a biocuration workflow for AgBase, a non-model organism database
Lakshmi Pillai and others
Database, Volume 2012, 2012, bas038, https://doi.org/10.1093/database/bas038
Opportunities for text mining in the FlyBase genetic literature curation workflow
Peter McQuilton and the FlyBase Consortium
Database, Volume 2012, 2012, bas039, https://doi.org/10.1093/database/bas039
Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR
Kimberly Van Auken and others
Database, Volume 2012, 2012, bas040, https://doi.org/10.1093/database/bas040
Accelerating literature curation with text-mining tools: a case study of using PubTator to curate genes in PubMed abstracts
Chih-Hsuan Wei and others
Database, Volume 2012, 2012, bas041, https://doi.org/10.1093/database/bas041
Prioritizing PubMed articles for the Comparative Toxicogenomic Database utilizing semantic information
Sun Kim and others
Database, Volume 2012, 2012, bas042, https://doi.org/10.1093/database/bas042
Biocuration workflows and text mining: overview of the BioCreative 2012 Workshop Track II
Zhiyong Lu and Lynette Hirschman
Database, Volume 2012, 2012, bas043, https://doi.org/10.1093/database/bas043
Strategies for annotation and curation of translational databases: the eTUMOUR project
Margarida Julià-Sapé and others
Database, Volume 2012, 2012, bas035, https://doi.org/10.1093/database/bas035
Recent advances in biocuration: Meeting Report from the fifth International Biocuration Conference
Pascale Gaudet and others
Database, Volume 2012, 2012, bas036, https://doi.org/10.1093/database/bas036
DFVF: database of fungal virulence factors
Tao Lu and others
Database, Volume 2012, 2012, bas032, https://doi.org/10.1093/database/bas032
The Units Ontology: a tool for integrating units of measurement in science
Georgios V. Gkoutos and others
Database, Volume 2012, 2012, bas033, https://doi.org/10.1093/database/bas033
Assessment of community-submitted ontology annotations from a novel database-journal partnership
Tanya Z. Berardini and others
Database, Volume 2012, 2012, bas030, https://doi.org/10.1093/database/bas030
CreZOO—the European virtual repository of Cre and other targeted conditional driver strains
Christina Chandras and others
Database, Volume 2012, 2012, bas029, https://doi.org/10.1093/database/bas029
MuteinDB: the mutein database linking substrates, products and enzymatic reactions directly with genetic variants of enzymes
Andreas Braun and others
Database, Volume 2012, 2012, bas028, https://doi.org/10.1093/database/bas028
Improving links between literature and biological data with text mining: a case study with GEO, PDB and MEDLINE
Aurélie Névéol and others
Database, Volume 2012, 2012, bas026, https://doi.org/10.1093/database/bas026
Directly e-mailing authors of newly published papers encourages community curation
Stephanie M. Bunt and others
Database, Volume 2012, 2012, bas024, https://doi.org/10.1093/database/bas024
Towards semi-automated curation: using text mining to recreate the HIV-1, human protein interaction database
Daniel G. Jamieson and others
Database, Volume 2012, 2012, bas023, https://doi.org/10.1093/database/bas023
Using ODIN for a PharmGKB revalidation experiment
Fabio Rinaldi and others
Database, Volume 2012, 2012, bas021, https://doi.org/10.1093/database/bas021
Text mining for the biocuration workflow
Lynette Hirschman and others
Database, Volume 2012, 2012, bas020, https://doi.org/10.1093/database/bas020
The PRINTS database: a fine-grained protein sequence annotation and analysis resource—its status in 2012
Teresa K. Attwood and others
Database, Volume 2012, 2012, bas019, https://doi.org/10.1093/database/bas019
Enhancing a Pathway-Genome Database (PGDB) to capture subcellular localization of metabolites and enzymes: the nucleotide-sugar biosynthetic pathways of Populus trichocarpa
Ambarish Nag and others
Database, Volume 2012, 2012, bas013, https://doi.org/10.1093/database/bas013
How to link ontologies and protein–protein interactions to literature: text-mining approaches and the BioCreative experience
Martin Krallinger and others
Database, Volume 2012, 2012, bas017, https://doi.org/10.1093/database/bas017
GrameneMart: the BioMart data portal for the Gramene project
William Spooner and others
Database, Volume 2012, 2012, bar056, https://doi.org/10.1093/database/bar056
The gene-specific codon counting database: a genome-based catalog of one-, two-, three-, four- and five-codon combinations present in Saccharomyces cerevisiae genes
Sudheer Tumu and others
Database, Volume 2012, 2012, bas002, https://doi.org/10.1093/database/bas002
dbPTB: a database for preterm birth
Alper Uzun and others
Database, Volume 2012, 2012, bar069, https://doi.org/10.1093/database/bar069
Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation
Sarah Burge and others
Database, Volume 2012, 2012, bar068, https://doi.org/10.1093/database/bar068
The Biofuel Feedstock Genomics Resource: a web-based portal and database to enable functional genomics of plant biofuel feedstock species
Kevin L. Childs and others
Database, Volume 2012, 2012, bar061, https://doi.org/10.1093/database/bar061
The importance of identifying alternative splicing in vertebrate genome annotation
Adam Frankish and others
Database, Volume 2012, 2012, bas014, https://doi.org/10.1093/database/bas014
Ontology searching and browsing at the Rat Genome Database
Stanley J. F. Laulederkind and others
Database, Volume 2012, 2012, bas016, https://doi.org/10.1093/database/bas016
Community annotation and bioinformatics workforce development in concert—Little Skate Genome Annotation Workshops and Jamborees
Qinghua Wang and others
Database, Volume 2012, 2012, bar064, https://doi.org/10.1093/database/bar064
Annotation of functional sites with the Conserved Domain Database
Myra K. Derbyshire and others
Database, Volume 2012, 2012, bar058, https://doi.org/10.1093/database/bar058
A hybrid human and machine resource curation pipeline for the Neuroscience Information Framework
A. E. Bandrowski and others
Database, Volume 2012, 2012, bas005, https://doi.org/10.1093/database/bas005
PRIDE: Quality control in a proteomics data repository
Attila Csordas and others
Database, Volume 2012, 2012, bas004, https://doi.org/10.1093/database/bas004
YeastMine—an integrated data warehouse for Saccharomyces cerevisiae data as a multipurpose tool-kit
Rama Balakrishnan and others
Database, Volume 2012, 2012, bar062, https://doi.org/10.1093/database/bar062
Argo: an integrative, interactive, text mining-based workbench supporting curation
Rafal Rak and others
Database, Volume 2012, 2012, bas010, https://doi.org/10.1093/database/bas010
Tetrahymena genome database Wiki: a community-maintained model organism database
Nicholas A. Stover and others
Database, Volume 2012, 2012, bas007, https://doi.org/10.1093/database/bas007
CvManGO, a method for leveraging computational predictions to improve literature-based Gene Ontology annotations
Julie Park and others
Database, Volume 2012, 2012, bas001, https://doi.org/10.1093/database/bas001
Building a biomedical semantic network in Wikipedia with Semantic Wiki Links
Benjamin M. Good and others
Database, Volume 2012, 2012, bar060, https://doi.org/10.1093/database/bar060
Disease model curation improvements at Mouse Genome Informatics
Susan M. Bello and others
Database, Volume 2012, 2012, bar063, https://doi.org/10.1093/database/bar063
Community gene annotation in practice
Jane E. Loveland and others
Database, Volume 2012, 2012, bas009, https://doi.org/10.1093/database/bas009
Tracking and coordinating an international curation effort for the CCDS Project
Rachel A. Harte and others
Database, Volume 2012, 2012, bas008, https://doi.org/10.1093/database/bas008
Aptamer base: a collaborative knowledge base to describe aptamers and SELEX experiments
Jose Cruz-Toledo and others
Database, Volume 2012, 2012, bas006, https://doi.org/10.1093/database/bas006
The mouse–human anatomy ontology mapping project
Terry F. Hayamizu and others
Database, Volume 2012, 2012, bar066, https://doi.org/10.1093/database/bar066
MEDIC: a practical disease vocabulary used at the Comparative Toxicogenomics Database
Allan Peter Davis and others
Database, Volume 2012, 2012, bar065, https://doi.org/10.1093/database/bar065
Considerations for creating and annotating the budding yeast Genome Map at SGD: a progress report
Esther T. Chan and J. Michael Cherry
Database, Volume 2012, 2012, bar057, https://doi.org/10.1093/database/bar057
AntiFam: a tool to help identify spurious ORFs in protein annotation
Ruth Y. Eberhardt and others
Database, Volume 2012, 2012, bas003, https://doi.org/10.1093/database/bas003
Research resources: curating the new eagle-i discovery system
Nicole Vasilevsky and others
Database, Volume 2012, 2012, bar067, https://doi.org/10.1093/database/bar067
Biocurators and Biocuration: surveying the 21st century challenges
Sarah Burge and others
Database, Volume 2012, 2012, bar059, https://doi.org/10.1093/database/bar059
Database Update
Dr. PIAS 2.0: an update of a database of predicted druggable protein–protein interactions
Nobuyoshi Sugaya and others
Database, Volume 2012, 2012, bas034, https://doi.org/10.1093/database/bas034
Phenol-Explorer 2.0: a major update of the Phenol-Explorer database integrating data on polyphenol metabolism and pharmacokinetics in humans and experimental animals
Joseph A. Rothwell and others
Database, Volume 2012, 2012, bas031, https://doi.org/10.1093/database/bas031
Database Tool
CancerMA: a web-based tool for automatic meta-analysis of public cancer microarray data
Julia Feichtinger and others
Database, Volume 2012, 2012, bas055, https://doi.org/10.1093/database/bas055
ASGARD: an open-access database of annotated transcriptomes for emerging model arthropod species
Victor Zeng and Cassandra G. Extavour
Database, Volume 2012, 2012, bas048, https://doi.org/10.1093/database/bas048
RNAiAtlas: a database for RNAi (siRNA) libraries and their specificity
Sławek Mazur and others
Database, Volume 2012, 2012, bas027, https://doi.org/10.1093/database/bas027
HAltORF: a database of predicted out-of-frame alternative open reading frames in human
Benoît Vanderperre and others
Database, Volume 2012, 2012, bas025, https://doi.org/10.1093/database/bas025
ScreenTroll: a searchable database to compare genome-wide yeast screens
Peter H. Thorpe and others
Database, Volume 2012, 2012, bas022, https://doi.org/10.1093/database/bas022
MSV3d: database of human MisSense variants mapped to 3D protein structure
Tien-Dao Luu and others
Database, Volume 2012, 2012, bas018, https://doi.org/10.1093/database/bas018
CPPsite: a curated database of cell penetrating peptides
Ankur Gautam and others
Database, Volume 2012, 2012, bas015, https://doi.org/10.1093/database/bas015
Corrigendum
Editorial
BioCreative-2012 Virtual Issue
Cathy H. Wu and others
Database, Volume 2012, 2012, bas049, https://doi.org/10.1093/database/bas049
Biocuration Virtual Issue 2012
Pascale Gaudet and Raja Mazumder
Database, Volume 2012, 2012, bas011, https://doi.org/10.1093/database/bas011
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