Summary statistics - PathwayAnalysisPlatform/PathwayMatcher GitHub Wiki
Here you can find numbers and summary statistics about the entities like proteins and proteoforms in Reactome[1] as well as their mapping to reactions and pathways.
The numbers correspond to the mapping in PathwayMatcher 1.9.1 and Reactome v68.
The cypher queries to replicate this numbers are here.
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Number of UniProt[1] accessions related to human PhysicalEntity objects: 10825
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Number of human PhysicalEntity objects related to a UniProt accession distinguishing between isoform sequences: 11000
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Number of proteins with an isoform other than the default: 265
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Number of proteins with more than one isoform: 64
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Reactions per protein:
Min | Average | Max |
---|---|---|
0 | 7.327 | 318 |
- Reactions per protein with at least one annotated reaction:
Min | Average | Max |
---|---|---|
1 | 7.677 | 318 |
- Pathways per protein:
Min | Average | Max |
---|---|---|
0 | 8.454 | 293 |
- For proteins with at least one pathway annotated:
Min | Average | Max |
---|---|---|
1 | 8.858 | 293 |
- Human proteins participating in the highest number of pathways in Reactome:
Protein Accession | Gene | Protein name | Reactions Mapped | Pathways Mapped |
---|---|---|---|---|
P62979 | RPS27A | Ubiquitin-40S ribosomal protein S27a | 309 | 293 |
P62987 | UBA52 | Ubiquitin-60S ribosomal protein L40 | 302 | 289 |
P0CG47 | UBB | Polyubiquitin-B | 282 | 271 |
P0CG48 | UBC | Polyubiquitin-C | 282 | 271 |
P28482 | MAPK1 | Mitogen-activated protein kinase 1 | 71 | 134 |
P27361 | MAPK3 | Mitogen-activated protein kinase 3 | 67 | 127 |
P0DP23 | CALM1 | Calmodulin-1 | 79 | 122 |
Q07889 | SOS1 | Son of sevenless homolog 1 | 123 | 109 |
P67775 | PPP2CA | Serine/threonine-protein phosphatase 2A catalytic subunit alpha | 61 | 107 |
P27986 | PIK3R1 | Phosphatidylinositol 3-kinase regulatory subunit alpha | 111 | 106 |
Note that the Reactions Mapped column shows the number of reactions that are part of the mapped pathways. A protein may participate in a reaction that was not assigned to a pathway. A reaction can also be part of multiple pathways.
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Total number of proteoforms: 13978
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Proteoforms with at least one post translational modification: 3137 (22.44% of the proteoforms)
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PTM sets per protein:
min | average | max |
---|---|---|
1 | 2.26 | 316 |
- Reactions per proteoform:
min | average | max |
---|---|---|
0 | 6.298 | 316 |
- Reactions per proteoform with at least one reaction annotated:
min | average | max |
---|---|---|
1 | 6.666 | 316 |
- Pathways per proteoform:
min | average | max |
---|---|---|
0 | 7.758 | 292 |
- Pathways per proteoform with at least one pathway annotated:
min | average | max |
---|---|---|
1 | 8.215 | 292 |
- Human proteoforms participating in the highest number of pathways in Reactome:
Protein Accession | Gene | Protein name | PTMs | Reactions Mapped | Pathways Mapped |
---|---|---|---|---|---|
P28482 | MAPK1 | Mitogen-activated protein kinase 1 | [00047:185, 00048:187] | 49 | 126 |
P27361 | MAPK3 | Mitogen-activated protein kinase 3 | [00047:202, 00048:204] | 46 | 117 |
P31749 | AKT1 | RAC-alpha serine/threonine-protein kinase ecNumber2.7.11.1/ecNumber | [00046:473, 00047:308] | 53 | 86 |
P16220 | CREB1 | Cyclic AMP-responsive element-binding protein 1 | [00046:133] | 15 | 78 |
P31751 | AKT2 | RAC-beta serine/threonine-protein kinase ecNumber2.7.11.1/ecNumber | [00046:474, 00047:309] | 34 | 75 |
Q9GZV9 | FGF23 | Fibroblast growth factor 23 | [00164:178] | 152 | 68 |
Q16539 | MAPK14 | Mitogen-activated protein kinase 14 | [00047:180, 00048:182] | 17 | 65 |
P12931 | SRC | Proto-oncogene tyrosine-protein kinase Src | [00048:419, 00068:2] | 44 | 59 |
P19174 | PLCG1 | 1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma-1 ecNumber3.1.4.11/ecNumber | [00048:472, 00048:771, 00048:783, 00048:1253] | 39 | 59 |
Q9Y243 | AKT3 | RAC-gamma serine/threonine-protein kinase | [00046:472, 00047:305] | 26 | 59 |
[1] Fabregat, A. et al. The Reactome Pathway Knowledgebase. Nucleic acids research 46, D649-d655, doi:10.1093/nar/gkx1132 (2018).
[2] The UniProt Consortium, UniProt: the universal protein knowledgebase. NAR (2017)