Genome & organism identity

Reference records used to identify genomes, organisms, strains, sequences, and taxonomic placement.

PRIMARY RECORDS

NCBI RefSeq

Reference genome accessions, genome sequences, and core genome annotations.

Visit RefSeq ↗GENOME ANNOTATION

BASys2

Bacterial genome annotation and functional classification of genes and proteins.

Visit BASys ↗GENOME IDENTIFIERS

Ensembl

Genome identifiers and accession references used to support genome annotation and cross-referencing.

Visit Ensembl ↗SEQUENCES

NCBI GenBank

Public sequence records and accession references where a GenBank record is used.

Visit GenBank ↗TAXONOMY

NCBI Taxonomy

Taxonomic identifiers and lineage information for bacterial and archaeal organisms.

Visit NCBI Taxonomy ↗

Gene & protein annotation

Functional descriptions, protein identifiers, and conserved features associated with gene records.

PROTEINS

UniProt

Protein identifiers and functional annotations associated with gene records.

Visit UniProt ↗DOMAINS

InterPro

Protein families, domains, and conserved functional signatures used to support functional annotation.

Visit InterPro ↗PATHWAYS & GENES

KEGG

Gene, enzyme, reaction, and pathway references used to provide functional and metabolic context.

Visit KEGG ↗

Pathways & metabolism

Curated pathway and reaction resources provide the relationships behind BacMap's pathway and metabolic exploration.

PRIMARY PATHWAY SOURCE

PathBank

Curated pathway records, pathway identifiers, visual maps, and metabolic context.

Visit PathBank ↗PATHWAYS

KEGG Pathways

Complementary pathway, reaction, enzyme, and gene cross-references.

Visit KEGG ↗REACTIONS

Rhea

Curated biochemical reactions and enzyme-catalyzed reaction references.

Visit Rhea ↗

Phenotype, literature & visual context

Organism-level traits, scientific literature, and supporting imagery provide biological context beyond the sequence record.

PRIMARY PHENOTYPE SOURCE

BacDive

Bacterial morphology, physiology, culture conditions, strain metadata, and curated descriptions.

Visit BacDive ↗MICROBES & METABOLITES

MiMeDB

Any bacteria and bacterial metabolites present in the human microbiome, including curated metabolite data and associated literature references.

Visit MiMeDB ↗LITERATURE

PubMed

Peer-reviewed literature used to support information on bacterial phylogeny, physiology, health effects, hosts, and other biological characteristics.

Visit PubMed ↗IMAGES

Wikipedia

Organism and biological imagery gathered from Wikipedia and its associated Wikimedia Commons media, used for visual context and presentation.

Visit Wikipedia ↗