Microbes

This section contain links to microbial genome resources including: genome sequences, annotations and comparative analyses. Includes bacteria, virus and fungi species.

Found 88 links

Displaying 15 links

AHMIITool Content

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Agent to Help Microbial Information Integration (AHMII) offers a search engine for particular strains present in culture collections and databases in bacteria, fungi, yeasts and cell lines.

links directory index: 0
TitlePublication YearGoogle Scholar Citation Count
AHMII: Agent to Help Microbial Information Integration.20030

AMIGeneTool Content

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Annotation of MIcrobial Genes (AMIGene) is gene prediction server that can identify coding sequences in microbes.

links directory index: 70
TitlePublication YearGoogle Scholar Citation Count
AMIGene: Annotation of MIcrobial Genes200370

antiSMASH 2.0Tool Content

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The antibiotic and Secondary Metabolite Analysis Shell (antiSMASH) is a resource for identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. antiSMASH 2.0 now supports input of multiple related sequences simultaneously.

AspGDResource Content

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An organized collection of genetic and molecular biological information about the filamentous fungi of the genus Aspergillus.

ATIVSTool Content

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ATIVS (analytical tool for influenza virus surveillance) is a web server for analyzing serological data of all influenza viruses and provide interpretive summaries. ATIVS also compares the HA1 sequences of viruses to those of the reference vaccine strains to predict influenza A/H3N2 antigenic drift.

This content is being maintained by Jade.

links directory index: 4
TitlePublication YearGoogle Scholar Citation Count
ATIVS: analytical tool for influenza virus surveillance20094

BacMapDatabase Content

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An interactive visual database containing hundreds of fully labeled, zoomable, and searchable maps of bacterial genomes.

Bacteriome.orgDatabase Content

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A database integrating physical (protein-protein) and functional interactions within the context of an E. coli knowledgebase. Tools are provided which allow the user to select and visualize functional, evolutionary and structural relationships between groups of interacting proteins and to focus on genes of interest.

BAGELDatabase Content

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BActeriocin GEnome mining tooL (BAGEL) identifies putative bacteriocin ORFs (antimicrobial peptides) based on a database containing information about known bacteriocins and adjacent genes involved in bacteriocin activity.

links directory index: 48
TitlePublication YearGoogle Scholar Citation Count
BAGEL: a web-based bacteriocin genome mining tool200648

BAGEL2Tool Content

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BAGEL2 (BActeriocin GEnome mining tooL) identifies putative bacteriocins on the basis of conserved domains, physical properties and genomic context. Improved genome mining capacity from BAGEL.

links directory index: 16
TitlePublication YearGoogle Scholar Citation Count
BAGEL2: mining for bacteriocins in genomic data201016

BAGEL3Tool Content

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BAGEL3 is a web-server for automated identification of genes encoding bacteriocins and (non)-bacteriocidal post-translationally modified peptides using updated bacteriocin and context protein databases. Input is single or multiple FASTA formatted files.

links directory index: not available
TitlePublication YearGoogle Scholar Citation Count

BAGETTool Content

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BAGET (Bacterial and Archaeal Gene Exploration Tool) is a web service designed to facilitate extraction of specific gene and protein sequences from completely determined prokaryotic genomes. Query results can be exported as a rich text format file for printing, archival or further analysis.

BASysTool Content

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BASys (Bacterial Annotation System) is a tool for automated annotation of bacterial genomic (chromosomal and plasmid) sequences including gene/protein names, GO functions, COG functions, possible paralogues and orthologues, molecular weights, isoelectric points, operon structures, subcellular localization, signal peptides, transmembrane regions, secondary structures, 3-D structures, reactions, and pathways.

This content is being maintained by gary.vandomselaar@gmail.com.

Bug@SbaseDatabase Content

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A relational database containing microbial gene expression and comparative genomic hybridisation experimental data. The data is mostly derived from whole genome microarrays designed by the BµG@S group, however data from other microarrays is included and the database is being modified to support RNA-Seq analysis. Public access is available for datasets that have been published and login credentials can be obtained for data submission.

BYKdbDatabase Content

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Bacterial protein tYrosine Kinase database (BYKdb). Bacterial tyrosine-kinases share no resemblance with their eukaryotic counterparts and they have been unified in a new protein family named BY-kinases. However, BY-kinase sequence annotations in primary databases remain incomplete. This prompted us to develop a specialized database of computer-annotated BY-kinase sequences.

links directory index: 1
TitlePublication YearGoogle Scholar Citation Count
BYKdb: the Bacterial protein tYrosine Kinase database20121

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