Versions 7

Table of Contents

Namespaces

Unused Namespaces 1

The source BEL script contained references to the following namespaces, but they were never used. It is suggested to delete their definitions from the BEL script to improve readability and parsing speed.

  • GOCC

Annotations

This section lists all of the annotations that are defined in the original BEL script.

Keyword URL Stratify
CellLine https://arty.scai.fraunhofer.de/artifactory/bel/annotation/cell-line/cell-line-20170511.belanno View Stratified Summary
MeSHAnatomy https://arty.scai.fraunhofer.de/artifactory/bel/annotation/mesh-anatomy/mesh-anatomy-20170511.belanno View Stratified Summary
MeSHDisease https://arty.scai.fraunhofer.de/artifactory/bel/annotation/mesh-diseases/mesh-diseases-20170511.belanno View Stratified Summary
Species https://arty.scai.fraunhofer.de/artifactory/bel/annotation/species-taxonomy-id/species-taxonomy-id-20170511.belanno View Stratified Summary

Unused Annotations 4

The source BEL script contained references to the following annotations, but they were never used. It is suggested to delete their definitions from the BEL script to improve readability and parsing speed.

Note: this may be due to errors occurring in all statements with these annotations.

  • CellLine
  • MeSHAnatomy
  • MeSHDisease
  • Species

Locally Defined Annotations 1

The source BEL script contained annotations defined as a list. Click each link to export the list definition as a BELANNO file that can hosted externally to promote re-usability and interoperability. After, you can replace the list definition in the source BEL with a SET ANNOTATION X AS URL "Y" definition.

Warning Statistics

All Parser Warnings 6

A faceted table view of all parser warnings can be viewed and exported from here.

Line BEL Message
119 SET Species = "Mus musculus" "Mus musculus" is not defined in the Species annotation
120 complex(p(HGNC:YTHDF1),a(CHEBIID:21891))-> bp(GOBP:"learning") "CHEBIID" is not a defined namespace
121 complex(p(HGNC:YTHDF1),a(CHEBIID:21891))->bp(GOBP:"memory") "CHEBIID" is not a defined namespace
132 m(HGNC:MIR133B)negativeCorrelation path(MESHD:"Esophageal Squamous Cell Carcinoma") "Esophageal Squamous Cell Carcinoma" is not in the MESHD namespace
140 SET MeSHDisease = "Esophageal Squamous Cell Carcinoma" "Esophageal Squamous Cell Carcinoma" is not defined in the MeSHDisease annotation
141 m(HGNC:MIR133B)negativeCorrelation path(MESHD:"Esophageal Squamous Cell Carcinoma") "Esophageal Squamous Cell Carcinoma" is not in the MESHD namespace

Top Warnings

Error Frequency
"Esophageal Squamous Cell Carcinoma" is not in the MESHD namespace 2
"CHEBIID" is not a defined namespace 2

Undefined Namespaces 1

The source BEL script contained references to the following namespaces, but they were never defined. Click the links to download them as enumerated namespaces, and update the BEL script accordingly.

Namespaces with Incorrect Names 1

About

BEL Commons is developed and maintained in an academic capacity by Charles Tapley Hoyt and Daniel Domingo-Fernández at the Fraunhofer SCAI Department of Bioinformatics with support from the IMI project, AETIONOMY. It is built on top of the open source project, PyBEL. Please feel free to contact us here to give us feedback or report any issues.