ArticleBioinformatics (Oxford, England)2018
PyBEL: a computational framework for Biological Expression Language.
Article in Bioinformatics (Oxford, England), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
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- KGG: a fully automated workflow for creating disease-specific knowledge graphs.Bioinformatics (Oxford, England) · 2025Article
- Mpox Knowledge Graph: a comprehensive representation embedding chemical entities and associated biology of Mpox.Bioinformatics advances · 2023Article
- Do-calculus enables estimation of causal effects in partially observed biomolecular pathways.Bioinformatics (Oxford, England) · 2022Article
- A hybrid approach unveils drug repurposing candidates targeting an Alzheimer pathophysiology mechanism.Patterns (New York, N.Y.) · 2022Article
- Assisting Multitargeted Ligand Affinity Prediction of Receptor Tyrosine Kinases Associated Nonsmall Cell Lung Cancer Treatment with Multitasking Principal Neighborhood Aggregation.Molecules (Basel, Switzerland) · 2022Article
- PyBioPAX: biological pathway exchange in Python.Journal of open source software · 2022Article
- The status of causality in biological databases: data resources and data retrieval possibilities to support logical modeling.Briefings in bioinformatics · 2021Article
- Linking COVID-19 and Heme-Driven Pathophysiologies: A Combined Computational-Experimental Approach.Biomolecules · 2021Article
- The Minimum Information about a Molecular Interaction CAusal STatement (MI2CAST).Bioinformatics (Oxford, England) · 2021Article
- Leveraging Structured Biological Knowledge for Counterfactual Inference: A Case Study of Viral Pathogenesis.IEEE transactions on big data · 2021Article
- Integrated intra- and intercellular signaling knowledge for multicellular omics analysis.Molecular systems biology · 2021Article
- GeneWalk identifies relevant gene functions for a biological context using network representation learning.Genome biology · 2021Article
- WikiPathways: connecting communities.Nucleic acids research · 2021Article
- A Systems Biology Approach for Hypothesizing the Effect of Genetic Variants on Neuroimaging Features in Alzheimer's Disease.Journal of Alzheimer's disease : JAD · 2021Article
- Data-Driven Modeling of Knowledge Assemblies in Understanding Comorbidity Between Type 2 Diabetes Mellitus and Alzheimer's Disease.Journal of Alzheimer's disease : JAD · 2020Article
- CODA-ML: context-specific biological knowledge representation for systemic physiology analysis.BMC bioinformatics · 2019Article
- PathMe: merging and exploring mechanistic pathway knowledge.BMC bioinformatics · 2019Article
- The Impact of Pathway Database Choice on Statistical Enrichment Analysis and Predictive Modeling.Frontiers in genetics · 2019Article
- Re-curation and rational enrichment of knowledge graphs in Biological Expression Language.Database : the journal of biological databases and curation · 2019Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Summary: Biological Expression Language (BEL) assembles knowledge networks from biological relations across multiple modes and scales. Here, we present PyBEL; a software package for parsing, validating, converting, storing, querying, and visualizing networks encoded in BEL. Availability and implementation: PyBEL is implemented in platform-independent, universal Python code. Its source is distributed under the Apache 2.0 License at https://github.com/pybel. Contact: charles.hoyt@scai.fraunhofer.de. Supplementary information: Supplementary data are available at Bioinformatics online.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.