rrnDB: improved tools for interpreting rRNA gene abundance in bacteria and archaea and a new foundation for future development
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journal
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November 2014 |
IMG/M 4 version of the integrated metagenome comparative analysis system
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journal
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October 2013 |
Submission of Microarray Data to Public Repositories
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journal
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August 2004 |
GenoBase: comprehensive resource database of Escherichia coli K-12
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journal
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November 2014 |
PlasmoDB: a functional genomic database for malaria parasites
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journal
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January 2009 |
Primer-BLAST: A tool to design target-specific primers for polymerase chain reaction
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journal
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June 2012 |
NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy
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journal
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November 2011 |
The sequence read archive: explosive growth of sequencing data
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journal
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October 2011 |
TB database: an integrated platform for tuberculosis research
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journal
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January 2009 |
LPSN—list of prokaryotic names with standing in nomenclature
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journal
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November 2013 |
MetaRef: a pan-genomic database for comparative and community microbial genomics
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journal
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November 2013 |
Data, information, knowledge and principle: back to metabolism in KEGG
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journal
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November 2013 |
Network portal: a database for storage, analysis and visualization of biological networks
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journal
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November 2013 |
Global catalogue of microorganisms (gcm): a comprehensive database and information retrieval, analysis, and visualization system for microbial resources
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journal
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January 2013 |
The BioGRID interaction database: 2015 update
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journal
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November 2014 |
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
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journal
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September 1997 |
TransportDB: a comprehensive database resource for cytoplasmic membrane transport systems and outer membrane channels
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journal
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January 2007 |
BIGSdb: Scalable analysis of bacterial genome variation at the population level
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journal
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December 2010 |
MBGD update 2015: microbial genome database for flexible ortholog analysis utilizing a diverse set of genomic data
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journal
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November 2014 |
HoPaCI-DB: host- Pseudomonas and Coxiella interaction database
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journal
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October 2013 |
SITVITWEB – A publicly available international multimarker database for studying Mycobacterium tuberculosis genetic diversity and molecular epidemiology
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journal
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June 2012 |
SporeWeb: an interactive journey through the complete sporulation cycle of Bacillus subtilis
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journal
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October 2013 |
Subti Wiki–a database for the model organism Bacillus subtilis that links pathway, interaction and expression information
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journal
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October 2013 |
CollecTF: a database of experimentally validated transcription factor-binding sites in Bacteria
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journal
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November 2013 |
Ribosomal Database Project: data and tools for high throughput rRNA analysis
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journal
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November 2013 |
SCOP2 prototype: a new approach to protein structure mining
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journal
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November 2013 |
P2CS: updates of the prokaryotic two-component systems database
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journal
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October 2014 |
PSORTdb--an expanded, auto-updated, user-friendly protein subcellular localization database for Bacteria and Archaea
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journal
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November 2010 |
DEOP: a database on osmoprotectants and associated pathways
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journal
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January 2014 |
yStreX: yeast stress expression database
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journal
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January 2014 |
RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more
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journal
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November 2012 |
VIRmiRNA: a comprehensive resource for experimentally validated viral miRNAs and their targets
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journal
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January 2014 |
metaMicrobesOnline: phylogenomic analysis of microbial communities
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journal
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November 2012 |
Prokka: rapid prokaryotic genome annotation
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journal
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March 2014 |
FungiDB: an integrated functional genomics database for fungi
|
journal
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November 2011 |
The TIGRFAMs database of protein families
|
journal
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January 2003 |
The NCBI Taxonomy database
|
journal
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December 2011 |
ProGlycProt: a repository of experimentally characterized prokaryotic glycoproteins
|
journal
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October 2011 |
TriTrypDB: a functional genomic resource for the Trypanosomatidae
|
journal
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October 2009 |
CryptoDB: a Cryptosporidium bioinformatics resource update
|
journal
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January 2006 |
MetaBioME: a database to explore commercially useful enzymes in metagenomic datasets
|
journal
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November 2009 |
ToxoDB: an integrated Toxoplasma gondii database resource
|
journal
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December 2007 |
BacDive—the Bacterial Diversity Metadatabase
|
journal
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November 2013 |
The carbohydrate-active enzymes database (CAZy) in 2013
|
journal
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November 2013 |
CyanoLyase: a database of phycobilin lyase sequences, motifs and functions
|
journal
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November 2012 |
STRING v9.1: protein-protein interaction networks, with increased coverage and integration
|
journal
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November 2012 |
MetaProx: the database of metagenomic proximons
|
journal
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January 2014 |
DBSecSys: a database of Burkholderia mallei secretion systems
|
journal
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January 2014 |
StreptomeDB: a resource for natural compounds isolated from Streptomyces species
|
journal
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November 2012 |
SAMMD: Staphylococcus aureus Microarray Meta-Database
|
journal
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January 2007 |
Bacterial Carbohydrate Structure Database 3: Principles and Realization
|
journal
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December 2010 |
Proteome-wide Subcellular Topologies of E. coli Polypeptides Database (STEPdb)
|
journal
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September 2014 |
Quorumpeps database: chemical space, microbial origin and functionality of quorum sensing peptides
|
journal
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November 2012 |
COMBREX: a project to accelerate the functional annotation of prokaryotic genomes
|
journal
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November 2010 |
AromaDeg, a novel database for phylogenomics of aerobic bacterial degradation of aromatics
|
journal
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January 2014 |
DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information
|
journal
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October 2007 |
RegTransBase – a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes
|
journal
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January 2013 |
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST)
|
journal
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November 2013 |
ATGC: a database of orthologous genes from closely related prokaryotic genomes and a research platform for microevolution of prokaryotes
|
journal
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January 2009 |
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of Pathway/Genome Databases
|
journal
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November 2013 |
Pfam: the protein families database
|
journal
|
November 2013 |
BuchneraBASE: a post-genomic resource for Buchnera sp. APS
|
journal
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January 2006 |
Every Site Counts: Submitting Transcription Factor-Binding Site Information through the CollecTF Portal
|
journal
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May 2015 |
HBVdb: a knowledge database for Hepatitis B Virus
|
journal
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November 2012 |
SwissRegulon, a database of genome-wide annotations of regulatory sites: recent updates
|
journal
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November 2012 |
EcoCyc: fusing model organism databases with systems biology
|
journal
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November 2012 |
MICdb3.0: a comprehensive resource of microsatellite repeats from prokaryotic genomes
|
journal
|
January 2014 |
The InterPro protein families database: the classification resource after 15 years
|
journal
|
November 2014 |
Genome-wide Mycobacterium tuberculosis variation (GMTV) database: a new tool for integrating sequence variations and epidemiology
|
journal
|
January 2014 |
MicrobesOnline: an integrated portal for comparative and functional genomics
|
journal
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November 2009 |
VetBact – culturing bacteriological knowledge for veterinarians
|
journal
|
February 2014 |
The 2015 Nucleic Acids Research Database Issue and Molecular Biology Database Collection
|
journal
|
January 2015 |
The comprehensive microbial resource
|
journal
|
November 2009 |
GeneDB--an annotation database for pathogens
|
journal
|
November 2011 |
The Papillomavirus Episteme: a central resource for papillomavirus sequence data and analysis
|
journal
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October 2012 |
NCBI GEO: archive for functional genomics data sets—update
|
journal
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November 2012 |
MicroScope—an integrated microbial resource for the curation and comparative analysis of genomic and metabolic data
|
journal
|
November 2012 |
An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
|
journal
|
December 2011 |
GenBank
|
journal
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November 2012 |
SecReT6: a web-based resource for type VI secretion systems found in bacteria: Genomics update
|
journal
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July 2015 |
PhylOPDb: a 16S rRNA oligonucleotide probe database for prokaryotic identification
|
journal
|
January 2014 |
EcoGene 3.0
|
journal
|
November 2012 |
SecReT4: a web-based bacterial type IV secretion system resource
|
journal
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November 2012 |
VibrioBase: A Model for Next-Generation Genome and Annotation Database Development
|
journal
|
January 2014 |
Sequencing technologies — the next generation
|
journal
|
December 2009 |
The SILVA and “All-species Living Tree Project (LTP)” taxonomic frameworks
|
journal
|
November 2013 |
The European Bioinformatics Institute’s data resources 2014
|
journal
|
November 2013 |
WebGeSTer DB—a transcription terminator database
|
journal
|
November 2010 |
PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools
|
journal
|
November 2013 |
IMG 4 version of the integrated microbial genomes comparative analysis system
|
journal
|
October 2013 |
ClusterMine360: a database of microbial PKS/NRPS biosynthesis
|
journal
|
October 2012 |
EBI metagenomics—a new resource for the analysis and archiving of metagenomic data
|
journal
|
October 2013 |
ECMDB: The E. coli Metabolome Database
|
journal
|
October 2012 |
DoriC 5.0: an updated database of oriC regions in both bacterial and archaeal genomes
|
journal
|
October 2012 |
OrtholugeDB: a bacterial and archaeal orthology resource for improved comparative genomic analysis
|
journal
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November 2012 |
RegPrecise 3.0 – A resource for genome-scale exploration of transcriptional regulation in bacteria
|
journal
|
January 2013 |
Bacteriome.org an integrated protein interaction database for E. coli
|
journal
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December 2007 |
xBASE2: a comprehensive resource for comparative bacterial genomics
|
journal
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December 2007 |
CDD: NCBI's conserved domain database
|
journal
|
November 2014 |
OrthoDB v8: update of the hierarchical catalog of orthologs and the underlying free software
|
journal
|
November 2014 |
ABCdb: an online resource for ABC transporter repertories from sequenced archaeal and bacterial genomes: ABCdb: transporter repertoires
|
journal
|
March 2006 |
Expanded microbial genome coverage and improved protein family annotation in the COG database
|
journal
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November 2014 |
HelicoBase: a Helicobacter genomic resource and analysis platform
|
journal
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January 2014 |
Pseudomonas Genome Database: improved comparative analysis and population genomics capability for Pseudomonas genomes
|
journal
|
October 2010 |
The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes
|
journal
|
September 2005 |
GiardiaDB and TrichDB: integrated genomic resources for the eukaryotic protist pathogens Giardia lamblia and Trichomonas vaginalis
|
journal
|
January 2009 |
OMPdb: a database of -barrel outer membrane proteins from Gram-negative bacteria
|
journal
|
October 2010 |
The Genomes OnLine Database (GOLD) v.5: a metadata management system based on a four level (meta)genome project classification
|
journal
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October 2014 |
Genome annotation: from sequence to biology
|
journal
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July 2001 |
EcoProDB: the Escherichia coli protein database
|
journal
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July 2007 |
PATRIC, the bacterial bioinformatics database and analysis resource
|
journal
|
November 2013 |
BacMet: antibacterial biocide and metal resistance genes database
|
journal
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December 2013 |
tbvar: a comprehensive genome variation resource for Mycobacterium tuberculosis
|
journal
|
January 2014 |
The Transporter Classification Database
|
journal
|
November 2013 |
mVOC: a database of microbial volatiles
|
journal
|
December 2013 |
POGO-DB—a database of pairwise-comparisons of genomes and conserved orthologous genes
|
journal
|
November 2013 |
AmoebaDB and MicrosporidiaDB: functional genomic resources for Amoebozoa and Microsporidia species
|
journal
|
October 2010 |
The future of biocuration
|
journal
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September 2008 |
WholeCellKB: model organism databases for comprehensive whole-cell models
|
journal
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November 2012 |
ProOpDB: Prokaryotic Operon DataBase
|
journal
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November 2011 |
ICEberg: a web-based resource for integrative and conjugative elements found in Bacteria
|
journal
|
October 2011 |
ASAP: a resource for annotating, curating, comparing, and disseminating genomic data
|
journal
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January 2006 |
BacillusRegNet: A transcriptional regulation database and analysis platform for Bacillus species
|
text
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January 2014 |
BacMap: an interactive picture atlas of annotated bacterial genomes
|
journal
|
December 2004 |
EuPathDB: a portal to eukaryotic pathogen databases
|
journal
|
November 2009 |
ProPortal: a resource for integrated systems biology of Prochlorococcus and its phage
|
journal
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November 2011 |
The COG database: an updated version includes eukaryotes
|
journal
|
January 2003 |
The MiST2 database: a comprehensive genomics resource on microbial signal transduction
|
journal
|
November 2009 |
VIRsiRNAdb: a curated database of experimentally validated viral siRNA/shRNA
|
journal
|
December 2011 |
Virus Variation Resource—recent updates and future directions
|
journal
|
December 2013 |
CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes
|
journal
|
November 2013 |
Saccharomyces Genome Database: the genomics resource of budding yeast
|
journal
|
November 2011 |
FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus
|
journal
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September 2014 |
T3DB: an integrated database for bacterial type III secretion system
|
journal
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January 2012 |
CATH: comprehensive structural and functional annotations for genome sequences
|
journal
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October 2014 |
SMART: recent updates, new developments and status in 2015
|
journal
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October 2014 |
ViralZone: recent updates to the virus knowledge resource
|
journal
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November 2012 |
AtlasT4SS: A curated database for type IV secretion systems
|
journal
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January 2012 |
The RCSB Protein Data Bank: views of structural biology for basic and applied research and education
|
journal
|
November 2014 |
CoryneBase: Corynebacterium Genomic Resources and Analysis Tools at Your Fingertips
|
journal
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January 2014 |
Phagocytosis-like cell engulfment by a planctomycete bacterium
|
journal
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December 2019 |
Carbohydrate-controlled serine protease inhibitor (serpin) production in Bifidobacterium longum subsp. longum
|
journal
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March 2021 |
Environmental dissemination of pathogenic Listeria monocytogenes in flowing surface waters in Switzerland
|
journal
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April 2021 |
Database resources of the National Center for Biotechnology Information
|
journal
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January 2006 |
Draft Genome Sequence of Comamonas aquatilis Strain LK (= CSUR P6418 = CECT 9772), Isolated from the Planarian Schmidtea mediterranea
|
journal
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February 2021 |
BacillusRegNet: A transcriptional regulation database and analysis platform for Bacillus species
|
journal
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June 2014 |
GeneDB--an annotation database for pathogens.
|
text
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January 2012 |
Database resources of the National Center for Biotechnology Information
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journal
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October 2020 |
BacMap: An interactive picture atlas of annotated bacterial genomes
- M. J., Stothard, P. ; Van Domselaar, G. ; Cruz, J. ; Wishart, D. S. ; Shrivistava, S. ; Guo, A. C. ; O'Neill, B. ; Ellison,
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University of Alberta Libraries
https://doi.org/10.7939/r3sz8p
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text
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January 2005 |
STRING v9.1: protein-protein interaction networks, with increased coverage and integration
|
text
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January 2013 |
Database resources of the National Center for Biotechnology Information
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journal
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November 2018 |
SwissRegulon : a database of genome-wide annotations of regulatory sites: recent updates
|
text
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January 2012 |