Large-scale extraction of gene interactions from full-text literature using DeepDive

Protein–protein interaction predictions using text mining methods

(2015) Nikolas Papanikolaou et al.   METHODS

The BioGRID interaction database: 2015 update

(2014) Andrew Chatr-aryamontri et al.   NUCLEIC ACIDS RESEARCH

An Unsupervised Text Mining Method for Relation Extraction from Biomedical Literature

(2014) Changqin Quan et al.   PLoS One

A Machine Reading System for Assembling Synthetic Paleontological Databases

(2014) Shanan E. Peters et al.   PLoS One

Transcriptional Regulation and Its Misregulation in Disease

(2013) Tong Ihn Lee et al.   CELL

Negatome 2.0: a database of non-interacting proteins derived by literature mining, manual annotation and protein structure analysis

(2013) Philipp Blohm et al.   NUCLEIC ACIDS RESEARCH

PPInterFinder—a mining tool for extracting causal relations on human proteins from literature

(2013) Kalpana Raja et al.   Database-The Journal of Biological Databases and Curation

A text-mining system for extracting metabolic reactions from full-text articles

(2012) Jan Czarnecki et al.   BMC BIOINFORMATICS

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

(2012) Andrea Franceschini et al.   NUCLEIC ACIDS RESEARCH

PIE the search: searching PubMed literature for protein interaction information

(2011) Sun Kim et al.   BIOINFORMATICS

Integrative analysis workflow for the structural and functional classification of C-type lectins

(2011) Geoffrey Koh et al.   BMC BIOINFORMATICS

ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments

(2010) Alexander Lachmann et al.   BIOINFORMATICS

PPLook: an automated data mining tool for protein-protein interaction

(2010) Shao-Wu Zhang et al.   BMC BIOINFORMATICS

The rate of growth in scientific publication and the decline in coverage provided by Science Citation Index

(2010) Peder Olesen Larsen et al.   SCIENTOMETRICS

A Comprehensive Benchmark of Kernel Methods to Extract Protein–Protein Interactions from Literature

(2010) Domonkos Tikk et al.   PLoS Computational Biology

PPI Finder: A Mining Tool for Human Protein-Protein Interactions

(2009) Min He et al.   PLoS One

Human Protein Reference Database--2009 update

(2008) T. S. Keshava Prasad et al.   NUCLEIC ACIDS RESEARCH