Biomine Explorer networks
Biomine Explorer is built on top of Biomine which supports three organism sets called biomine, human, and plants. Each organism set has a corresponding large heterogeneous network compiled from different sources.
The
biomine organism set contains data about:
- human (Homo sapiens)
- mouse (Mus musculus)
- rat (Rattus norvegicus)
- fruit fly (Drosophila melanogaster)
- nematode (Caenorhabditis elegans)
The
human organism set contains data about:
- human (Homo sapiens)
(Note that this is a subset of the biomine organism set.)
The
plants organism set contains data about:
- arabidopsis (Arabidopsis thaliana)
- potato (Solanum tuberosum)
- rice (Oryza sativa)
- tomato (Solanum lycopersicum)
- tobacco (Nicotiana tabacum)
- beet (Beta vulgaris)
- cacao tree (Theobroma cacao)
- pearl millet (Pennisetum glaucum)
- bread wheat (Triticum aestivum)
- green algae (Chlamydomonas reinhardtii)
- black cottonwood (Populus trichocarpa)
- wine grape (Vitis vinifera)
Each network name has a prefix which marks its
organism set (biomine_, plants_ and human_).
Typically, there is only one (the latest) network available for each organism set.
However, as the system is updated and maintained
regularly, there may be more than one network present for each organism set. In such case just select
the latest one and ignore the rest.
Data sources
The following tables contain information about network sizes and integrated data sources.
biomine_10_jun_2021
| nodes: |
1,883,386 |
| links: |
34,051,650 |
| database |
version |
timestamp |
| TAXON |
1.13 |
2018-07-31 |
| UniProt |
2021_02 |
2021-04-08 |
| GO |
2021-05-01 |
2021-05-01 |
| EntrezGene |
2021-06-09 |
2021-06-09 |
| MIM |
2021-06-09 |
2021-06-09 |
| InterPro |
85.0 |
2021-04-08 |
| SwissProt |
2021_02 |
2021-04-07 |
| Trembl |
2021_02 |
2021-04-07 |
| HomoloGene |
68 |
2014-05-06 |
| STRING |
11.0 |
2019-01-06 |
| PubMed |
2021-06-10 |
2021-06-10 |
human_3_oct_2018
| nodes: |
874,241 |
| links: |
8,666,287 |
| database |
version |
timestamp |
| TAXON |
1.13 |
2018-07-31 |
| UniProt |
2018_08 |
2018-09-12 |
| GO |
2018-10-01_03:10 |
2018-10-01 |
| EntrezGene |
2018-10-01 |
2018-10-01 |
| MIM |
2018-10-01 |
2018-10-01 |
| InterPro |
70.0 |
2018-09-13 |
| SwissProt |
2018_08 |
2018-09-12 |
| Trembl |
2018_08 |
2018-09-12 |
| HomoloGene |
68 |
2014-05-06 |
| STRING |
10.5 |
2017-05-14 |
| PubMed |
2018-10-03 |
2018-10-03 |
plants_2_aug_2018
| nodes: |
1,740,270 |
| links: |
4,125,274 |
| database |
version |
timestamp |
| TAXON |
1.13 |
2018-07-31 |
| GO |
2018-07-30_02:59 |
2018-07-30 |
| EntrezGene |
2018-08-01 |
2018-08-01 |
| GoMapMan |
2018-08-01 |
2018-08-01 |
| CNN |
2018-08-01 |
2018-08-01 |
| PubMed |
2018-08-01 |
2018-08-01 |