Volume 2014, 2014
Original Articles
dbPPT: a comprehensive database of protein phosphorylation in plants
Database, Volume 2014, 2014, bau121, https://doi.org/10.1093/database/bau121
CBMAR: a comprehensive β-lactamase molecular annotation resource
Database, Volume 2014, 2014, bau111, https://doi.org/10.1093/database/bau111
AromaDeg, a novel database for phylogenomics of aerobic bacterial degradation of aromatics
Database, Volume 2014, 2014, bau118, https://doi.org/10.1093/database/bau118
The Halophile Protein Database
Database, Volume 2014, 2014, bau114, https://doi.org/10.1093/database/bau114
Small molecule annotation for the Protein Data Bank
Database, Volume 2014, 2014, bau116, https://doi.org/10.1093/database/bau116
A robust data-driven approach for gene ontology annotation
Database, Volume 2014, 2014, bau113, https://doi.org/10.1093/database/bau113
piRBase: a web resource assisting piRNA functional study
Database, Volume 2014, 2014, bau110, https://doi.org/10.1093/database/bau110
Knowledge-rich temporal relation identification and classification in clinical notes
Database, Volume 2014, 2014, bau109, https://doi.org/10.1093/database/bau109
PolyprOnline: polyproline helix II and secondary structure assignment database
Database, Volume 2014, 2014, bau102, https://doi.org/10.1093/database/bau102
BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes
Database, Volume 2014, 2014, bau106, https://doi.org/10.1093/database/bau106
DEOP: a database on osmoprotectants and associated pathways
Database, Volume 2014, 2014, bau100, https://doi.org/10.1093/database/bau100
MetaProx: the database of metagenomic proximons
Database, Volume 2014, 2014, bau097, https://doi.org/10.1093/database/bau097
CarrotDB: a genomic and transcriptomic database for carrot
Database, Volume 2014, 2014, bau096, https://doi.org/10.1093/database/bau096
The Cancer Genomics Hub (CGHub): overcoming cancer through the power of torrential data
Database, Volume 2014, 2014, bau093, https://doi.org/10.1093/database/bau093
An online system for metabolic network analysis
Database, Volume 2014, 2014, bau091, https://doi.org/10.1093/database/bau091
Hybrid curation of gene–mutation relations combining automated extraction and crowdsourcing
Database, Volume 2014, 2014, bau094, https://doi.org/10.1093/database/bau094
RADB: a database of rheumatoid arthritis-related polymorphisms
Database, Volume 2014, 2014, bau090, https://doi.org/10.1093/database/bau090
A semi-automated methodology for finding lipid-related GO terms
Database, Volume 2014, 2014, bau089, https://doi.org/10.1093/database/bau089
Unsupervised gene function extraction using semantic vectors
Database, Volume 2014, 2014, bau084, https://doi.org/10.1093/database/bau084
Closing the loop: from paper to protein annotation using supervised Gene Ontology classification
Database, Volume 2014, 2014, bau088, https://doi.org/10.1093/database/bau088
Integrating information retrieval with distant supervision for Gene Ontology annotation
Database, Volume 2014, 2014, bau087, https://doi.org/10.1093/database/bau087
Overview of the gene ontology task at BioCreative IV
Database, Volume 2014, 2014, bau086, https://doi.org/10.1093/database/bau086
miRBase Tracker: keeping track of microRNA annotation changes
Database, Volume 2014, 2014, bau080, https://doi.org/10.1093/database/bau080
FusoBase: an online Fusobacterium comparative genomic analysis platform
Database, Volume 2014, 2014, bau082, https://doi.org/10.1093/database/bau082
Mouse IDGenes: a reference database for genetic interactions in the developing mouse brain
Database, Volume 2014, 2014, bau083, https://doi.org/10.1093/database/bau083
BC4GO: a full-text corpus for the BioCreative IV GO task
Database, Volume 2014, 2014, bau074, https://doi.org/10.1093/database/bau074
tmBioC: improving interoperability of text-mining tools with BioC
Database, Volume 2014, 2014, bau073, https://doi.org/10.1093/database/bau073
APADB: a database for alternative polyadenylation and microRNA regulation events
Database, Volume 2014, 2014, bau076, https://doi.org/10.1093/database/bau076
Standardized description of scientific evidence using the Evidence Ontology (ECO)
Database, Volume 2014, 2014, bau075, https://doi.org/10.1093/database/bau075
Assisting manual literature curation for protein–protein interactions using BioQRator
Database, Volume 2014, 2014, bau067, https://doi.org/10.1093/database/bau067
Text-mining-assisted biocuration workflows in Argo
Database, Volume 2014, 2014, bau070, https://doi.org/10.1093/database/bau070
RTeQTL: Real-Time Online Engine for Expression Quantitative Trait Loci Analyses
Database, Volume 2014, 2014, bau066, https://doi.org/10.1093/database/bau066
OMICtools: an informative directory for multi-omic data analysis
Database, Volume 2014, 2014, bau069, https://doi.org/10.1093/database/bau069
yStreX: yeast stress expression database
Database, Volume 2014, 2014, bau068, https://doi.org/10.1093/database/bau068
Processing biological literature with customizable Web services supporting interoperable formats
Database, Volume 2014, 2014, bau064, https://doi.org/10.1093/database/bau064
BioC interoperability track overview
Database, Volume 2014, 2014, bau053, https://doi.org/10.1093/database/bau053
BioC implementations in Go, Perl, Python and Ruby
Database, Volume 2014, 2014, bau059, https://doi.org/10.1093/database/bau059
A controlled vocabulary for pathway entities and events
Database, Volume 2014, 2014, bau060, https://doi.org/10.1093/database/bau060
A novel multi-alignment pipeline for high-throughput sequencing data
Database, Volume 2014, 2014, bau057, https://doi.org/10.1093/database/bau057
Curation accuracy of model organism databases
Database, Volume 2014, 2014, bau058, https://doi.org/10.1093/database/bau058
IFIM: a database of integrated fitness information for microbial genes
Database, Volume 2014, 2014, bau052, https://doi.org/10.1093/database/bau052
Web services-based text-mining demonstrates broad impacts for interoperability and process simplification
Database, Volume 2014, 2014, bau050, https://doi.org/10.1093/database/bau050
miRror-Suite: decoding coordinated regulation by microRNAs
Database, Volume 2014, 2014, bau043, https://doi.org/10.1093/database/bau043
Assisted curation of regulatory interactions and growth conditions of OxyR in E. coli K-12
Database, Volume 2014, 2014, bau049, https://doi.org/10.1093/database/bau049
Automated semantic annotation of rare disease cases: a case study
Database, Volume 2014, 2014, bau045, https://doi.org/10.1093/database/bau045
PTM-SD: a database of structurally resolved and annotated posttranslational modifications in proteins
Database, Volume 2014, 2014, bau041, https://doi.org/10.1093/database/bau041
HeteroGenome: database of genome periodicity
Database, Volume 2014, 2014, bau040, https://doi.org/10.1093/database/bau040
iSimp in BioC standard format: enhancing the interoperability of a sentence simplification system
Database, Volume 2014, 2014, bau038, https://doi.org/10.1093/database/bau038
dbCRY: a Web-based comparative and evolutionary genomics platform for blue-light receptors
Database, Volume 2014, 2014, bau037, https://doi.org/10.1093/database/bau037
TuberQ: a Mycobacterium tuberculosis protein druggability database
Database, Volume 2014, 2014, bau035, https://doi.org/10.1093/database/bau035
PhylOPDb: a 16S rRNA oligonucleotide probe database for prokaryotic identification
Database, Volume 2014, 2014, bau036, https://doi.org/10.1093/database/bau036
tagtog: interactive and text-mining-assisted annotation of gene mentions in PLOS full-text articles
Database, Volume 2014, 2014, bau033, https://doi.org/10.1093/database/bau033
FixPred: a resource for correction of erroneous protein sequences
Database, Volume 2014, 2014, bau032, https://doi.org/10.1093/database/bau032
EpimiR: a database of curated mutual regulation between miRNAs and epigenetic modifications
Database, Volume 2014, 2014, bau023, https://doi.org/10.1093/database/bau023
DBatVir: the database of bat-associated viruses
Database, Volume 2014, 2014, bau021, https://doi.org/10.1093/database/bau021
Linking tissues to phenotypes using gene expression profiles
Database, Volume 2014, 2014, bau017, https://doi.org/10.1093/database/bau017
GigaDB: promoting data dissemination and reproducibility
Database, Volume 2014, 2014, bau018, https://doi.org/10.1093/database/bau018
Expert curation in UniProtKB: a case study on dealing with conflicting and erroneous data
Database, Volume 2014, 2014, bau016, https://doi.org/10.1093/database/bau016
YTRP: a repository for yeast transcriptional regulatory pathways
Database, Volume 2014, 2014, bau014, https://doi.org/10.1093/database/bau014
BambooGDB: a bamboo genome database with functional annotation and an analysis platform
Database, Volume 2014, 2014, bau006, https://doi.org/10.1093/database/bau006
COMPARTMENTS: unification and visualization of protein subcellular localization evidence
Database, Volume 2014, 2014, bau012, https://doi.org/10.1093/database/bau012
AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource
Database, Volume 2014, 2014, bau009, https://doi.org/10.1093/database/bau009
TSLP signaling pathway map: a platform for analysis of TSLP-mediated signaling
Database, Volume 2014, 2014, bau007, https://doi.org/10.1093/database/bau007
NONATObase: a database for Polychaeta (Annelida) from the Southwestern Atlantic Ocean
Database, Volume 2014, 2014, bau002, https://doi.org/10.1093/database/bau002
Literature mining of genetic variants for curation: quantifying the importance of supplementary material
Database, Volume 2014, 2014, bau003, https://doi.org/10.1093/database/bau003
ANIA: ANnotation and Integrated Analysis of the 14-3-3 interactome
Database, Volume 2014, 2014, bat085, https://doi.org/10.1093/database/bat085
Rule-based deduplication of article records from bibliographic databases
Database, Volume 2014, 2014, bat086, https://doi.org/10.1093/database/bat086
tbvar: a comprehensive genome variation resource for Mycobacterium tuberculosis
Database, Volume 2014, 2014, bat083, https://doi.org/10.1093/database/bat083
DevMouse, the mouse developmental methylome database and analysis tools
Database, Volume 2014, 2014, bat084, https://doi.org/10.1093/database/bat084
Database Tool
Kin-Driver: a database of driver mutations in protein kinases
Database, Volume 2014, 2014, bau104, https://doi.org/10.1093/database/bau104
iPathCons and iPathDB: an improved insect pathway construction tool and the database
Database, Volume 2014, 2014, bau105, https://doi.org/10.1093/database/bau105
miRIAD—integrating microRNA inter- and intragenic data
Database, Volume 2014, 2014, bau099, https://doi.org/10.1093/database/bau099
WholeCellSimDB: a hybrid relational/HDF database for whole-cell model predictions
Database, Volume 2014, 2014, bau095, https://doi.org/10.1093/database/bau095
‘Isotopo’ a database application for facile analysis and management of mass isotopomer data
Database, Volume 2014, 2014, bau077, https://doi.org/10.1093/database/bau077
PlantCAZyme: a database for plant carbohydrate-active enzymes
Database, Volume 2014, 2014, bau079, https://doi.org/10.1093/database/bau079
‘RetinoGenetics’: a comprehensive mutation database for genes related to inherited retinal degeneration
Database, Volume 2014, 2014, bau047, https://doi.org/10.1093/database/bau047
TIPdb-3D: the three-dimensional structure database of phytochemicals from Taiwan indigenous plants
Database, Volume 2014, 2014, bau055, https://doi.org/10.1093/database/bau055
ParaPep: a web resource for experimentally validated antiparasitic peptide sequences and their structures
Database, Volume 2014, 2014, bau051, https://doi.org/10.1093/database/bau051
MorusDB: a resource for mulberry genomics and genome biology
Database, Volume 2014, 2014, bau054, https://doi.org/10.1093/database/bau054
Egas: a collaborative and interactive document curation platform
Database, Volume 2014, 2014, bau048, https://doi.org/10.1093/database/bau048
agl genes, a curated and searchable database of archaeal N-glycosylation pathway components
Database, Volume 2014, 2014, bau046, https://doi.org/10.1093/database/bau046
PLIC: protein–ligand interaction clusters
Database, Volume 2014, 2014, bau029, https://doi.org/10.1093/database/bau029
The quail anatomy portal
Database, Volume 2014, 2014, bau028, https://doi.org/10.1093/database/bau028
CancerEST: a web-based tool for automatic meta-analysis of public EST data
Database, Volume 2014, 2014, bau024, https://doi.org/10.1093/database/bau024
Comparison of sequence variants in transcriptomic control regions across 17 mouse genomes
Database, Volume 2014, 2014, bau020, https://doi.org/10.1093/database/bau020
SoyFN: a knowledge database of soybean functional networks
Database, Volume 2014, 2014, bau019, https://doi.org/10.1093/database/bau019
BCL2DB: database of BCL-2 family members and BH3-only proteins
Database, Volume 2014, 2014, bau013, https://doi.org/10.1093/database/bau013
StaphyloBase: a specialized genomic resource for the staphylococcal research community
Database, Volume 2014, 2014, bau010, https://doi.org/10.1093/database/bau010
DBM-DB: the diamondback moth genome database
Database, Volume 2014, 2014, bat087, https://doi.org/10.1093/database/bat087
Database Update
DCDB 2.0: a major update of the drug combination database
Database, Volume 2014, 2014, bau124, https://doi.org/10.1093/database/bau124
microPIR2: a comprehensive database for human–mouse comparative study of microRNA–promoter interactions
Database, Volume 2014, 2014, bau115, https://doi.org/10.1093/database/bau115
The Virtual Xenbase: transitioning an online bioinformatics resource to a private cloud
Database, Volume 2014, 2014, bau108, https://doi.org/10.1093/database/bau108
Plant rDNA database: update and new features
Database, Volume 2014, 2014, bau063, https://doi.org/10.1093/database/bau063
UCbase 2.0: ultraconserved sequences database (2014 update)
Database, Volume 2014, 2014, bau062, https://doi.org/10.1093/database/bau062
SysPTM 2.0: an updated systematic resource for post-translational modification
Database, Volume 2014, 2014, bau025, https://doi.org/10.1093/database/bau025
MICdb3.0: a comprehensive resource of microsatellite repeats from prokaryotic genomes
Database, Volume 2014, 2014, bau005, https://doi.org/10.1093/database/bau005
Editorial
BioCreative-IV virtual issue
Database, Volume 2014, 2014, bau039, https://doi.org/10.1093/database/bau039
Corrigendum
‘RetinoGenetics’: a comprehensive mutation database for genes related to inherited retinal degeneration
Database, Volume 2014, 2014, bau071, https://doi.org/10.1093/database/bau071
Erratum
BactPepDB: a database of predicted peptides from a exhaustive survey of complete prokaryote genomes
Database, Volume 2014, 2014, bau119, https://doi.org/10.1093/database/bau119
