NLM-Gene, a richly annotated gold standard dataset for gene entities that addresses ambiguity and multi-species gene recognition

TeamTat: a collaborative text annotation tool

(2020) Rezarta Islamaj et al.   NUCLEIC ACIDS RESEARCH

Past, Present, and Future of Drug-Drug Interactions

(2019) René H. Levy et al.   CLINICAL PHARMACOLOGY & THERAPEUTICS

PubTator central: automated concept annotation for biomedical full text articles

(2019) Chih-Hsuan Wei et al.   NUCLEIC ACIDS RESEARCH

LitVar: a semantic search engine for linking genomic variant data in PubMed and PMC

(2018) Alexis Allot et al.   NUCLEIC ACIDS RESEARCH

Annotation and detection of drug effects in text for pharmacovigilance

(2018) Paul Thompson et al.   Journal of Cheminformatics

The BioGRID interaction database: 2019 update

(2018) Rose Oughtred et al.   NUCLEIC ACIDS RESEARCH

Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine

(2018) Rezarta Islamaj Doğan et al.   Database-The Journal of Biological Databases and Curation

Informatics Support for Basic Research in Biomedicine

(2017) Thomas C. Rindflesch et al.   ILAR JOURNAL

The BioC-BioGRID corpus: full text articles annotated for curation of protein–protein and genetic interactions

(2017) Rezarta Islamaj Doğan et al.   Database-The Journal of Biological Databases and Curation

Pressing needs of biomedical text mining in biocuration and beyond: opportunities and challenges

(2016) Ayush Singhal et al.   Database-The Journal of Biological Databases and Curation

Community challenges in biomedical text mining over 10 years: success, failure and the future

(2015) Chung-Chi Huang et al.   BRIEFINGS IN BIOINFORMATICS

Text mining for pharmacovigilance: Using machine learning for drug name recognition and drug–drug interaction extraction and classification

(2015) Asma Ben Abacha et al.   JOURNAL OF BIOMEDICAL INFORMATICS

Protein–protein interaction predictions using text mining methods

(2015) Nikolas Papanikolaou et al.   METHODS

The CHEMDNER corpus of chemicals and drugs and its annotation principles

(2015) Martin Krallinger et al.   Journal of Cheminformatics

tmChem: a high performance approach for chemical named entity recognition and normalization

(2015) Robert Leaman et al.   Journal of Cheminformatics

GNormPlus: An Integrative Approach for Tagging Genes, Gene Families, and Protein Domains

(2015) Chih-Hsuan Wei et al.   Biomed Research International

SimConcept: A Hybrid Approach for Simplifying Composite Named Entities in Biomedical Text

(2015) Chih-Hsuan Wei et al.   IEEE Journal of Biomedical and Health Informatics

NCBI disease corpus: A resource for disease name recognition and concept normalization

(2014) Rezarta Islamaj Doğan et al.   JOURNAL OF BIOMEDICAL INFORMATICS

DNorm: disease name normalization with pairwise learning to rank

(2013) R. Leaman et al.   BIOINFORMATICS

tmVar: a text mining approach for extracting sequence variants in biomedical literature

(2013) C.-H. Wei et al.   BIOINFORMATICS

Collective Instance-Level Gene Normalization on the IGN Corpus

(2013) Hong-Jie Dai et al.   PLoS One

SR4GN: A Species Recognition Software Tool for Gene Normalization

(2012) Chih-Hsuan Wei et al.   PLoS One

The GNAT library for local and remote gene mention normalization

(2011) J. Hakenberg et al.   BIOINFORMATICS

GeneTUKit: a software for document-level gene normalization

(2011) M. Huang et al.   BIOINFORMATICS

Multi-stage gene normalization for full-text articles with context-based species filtering for dynamic dictionary entry selection

(2011) Richard Tsai et al.   BMC BIOINFORMATICS

The gene normalization task in BioCreative III

(2011) Zhiyong Lu et al.   BMC BIOINFORMATICS

The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text

(2011) Martin Krallinger et al.   BMC BIOINFORMATICS

Cross-species gene normalization by species inference

(2011) Chih-Hsuan Wei et al.   BMC BIOINFORMATICS

Abbreviation definition identification based on automatic precision estimates

(2008) Sunghwan Sohn et al.   BMC BIOINFORMATICS

Overview of BioCreative II gene normalization

(2008) Alexander A Morgan et al.   GENOME BIOLOGY