Article

GeneCup: mine PubMed for gene relationships using custom ontology and deep learning

2020-09-18

Abstract excerpt

Interpreting and integrating results from omics studies typically requires a comprehensive and time consuming survey of extant literature. Here, we introduce GeneCup, an easy to use literature mining web service that searches all PubMed abstracts for user-provided gene symbols in conjunction with a set of custom keywords organized into a customized ontology, as well as results from human genome-wide association st...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 5f6f8eeb-1eda-5a00-95aa-81cfea90cb20
DOI: 10.1101/2020.09.17.297358

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

GeneCup: mine PubMed for gene relationships using custom ontology and deep learningDOI 10.1101/2020.09.17.297358Read

Finding Text-Supported Gene-to-Disease Co-appearances with MOPED-Digger.Semantic proximity Read

GhostBuster: A Deep-Learning-based, Literature-Unbiased Gene Prioritization Tool for Gene Annotation PredictionSemantic proximity Read

Identifying compounds to treat opiate use disorder by leveraging multi-omic data integration and multiple drug repurposing databasesSemantic proximity Read

Extracting and characterizing gene-drug relationships from the literature.Semantic proximity Read

Rummagene: Mining Gene Sets from Supporting Materials of PMC PublicationsSemantic proximity Read

The evolution of knowledge on genes associated with human diseasesSemantic proximity Read

Ontology-driven association rule mining for biomedical entity relationships: integrating hierarchical knowledge to improve gene-disease discovery.Semantic proximity Read

Serial KinderMiner (SKiM) Discovers and Annotates Biomedical Knowledge Using Co-Occurrence and Transformer ModelsSemantic proximity Read

SKiM - A generalized literature-based discovery system for uncovering novel biomedical knowledge from PubMedSemantic proximity Read

Deep functional synthesis: a machine learning approach to gene functional enrichmentSemantic proximity Read

A literature based method for identifying gene-disease connections.Semantic proximity Read

SKiM - A generalized literature-based discovery system for uncovering novel biomedical knowledge from PubMedSemantic proximity Read