Biomine databases

Biomine supports three organism sets called biomine, human, and plants.

The biomine organism set contains data about:
  1. human (Homo sapiens)
  2. mouse (Mus musculus)
  3. rat (Rattus norvegicus)
  4. fruit fly (Drosophila melanogaster)
  5. nematode (Caenorhabditis elegans)
The human organism set contains data about:
  1. human (Homo sapiens)

(Note that this is a subset of the biomine organism set.)

The plants organism set contains data about:
  1. arabidopsis (Arabidopsis thaliana)
  2. potato (Solanum tuberosum)
  3. rice (Oryza sativa)
  4. tomato (Solanum lycopersicum)
  5. tobacco (Nicotiana tabacum)
  6. beet (Beta vulgaris)
  7. cacao tree (Theobroma cacao)

Each Biomine database name has a prefix which marks its organism set ("biomine_", "plants_" or "human_"). Typically, there is only one (the latest) database available for each organism set. However, as the system is updated and maintained regularly, there may be more than two databases present. If this is the case, just select the latest one and ignore the rest.

Database version information

The following tables contain information about source data for the available Biomine databases.


biomine_1_jul_2016

nodes: 1,371,592
links: 26,291,591
database version timestamp
TAXON 1.11 2015-01-13
UniProt 2016_06 2016-06-08
GO 2016-06-28_03:38 2016-06-28
EntrezGene 2016-06-29 2016-06-29
MIM 2016-06-28 2016-06-28
InterPro 58.0 2016-06-09
SwissProt 2016_06 2016-06-08
Trembl 2016_06 2016-06-08
HomoloGene 68 2014-05-06
STRING 10 2015-04-10
PubMed 2016-07-01 2016-07-01

human_1_jul_2016

nodes: 770,414
links: 6,931,319
database version timestamp
TAXON 1.11 2015-09-22
UniProt 2016_06 2016-06-08
GO 2016-06-28_03:38 2016-06-28
EntrezGene 2016-06-29 2016-06-29
MIM 2016-06-28 2016-06-28
InterPro 58.0 2016-06-09
SwissProt 2016_06 2016-06-08
Trembl 2016_06 2016-06-08
HomoloGene 68 2014-05-06
STRING 10 2015-04-10
PubMed 2016-07-01 2016-07-01

plants_1_jul_2016

nodes: 897,651
links: 2,368,585
database version timestamp
TAXON 1.11 2015-01-13
GO 2016-06-28_03:38 2016-06-28
EntrezGene 2016-06-29 2016-06-29
GoMapMan 2016-06-29 2016-06-29
PubMed 2016-07-01 2016-07-01