Published in BMC Bioinformatics on August 17, 2012
Concept annotation in the CRAFT corpus. BMC Bioinformatics (2012) 1.94
BioLemmatizer: a lemmatization tool for morphological processing of biomedical text. J Biomed Semantics (2012) 1.90
NCBI disease corpus: a resource for disease name recognition and concept normalization. J Biomed Inform (2014) 1.83
Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters. BMC Bioinformatics (2014) 1.52
Approximate subgraph matching-based literature mining for biomedical events and relations. PLoS One (2013) 1.37
Combining heterogeneous data sources for accurate functional annotation of proteins. BMC Bioinformatics (2013) 1.15
A modular framework for biomedical concept recognition. BMC Bioinformatics (2013) 1.14
Mining the pharmacogenomics literature--a survey of the state of the art. Brief Bioinform (2012) 1.02
Evaluating a variety of text-mined features for automatic protein function prediction with GOstruct. J Biomed Semantics (2015) 1.00
GWAS and drug targets. BMC Genomics (2014) 0.93
Egas: a collaborative and interactive document curation platform. Database (Oxford) (2014) 0.90
Automated annotation of functional imaging experiments via multi-label classification. Front Neurosci (2013) 0.90
Representing annotation compositionality and provenance for the Semantic Web. J Biomed Semantics (2013) 0.88
Learning to recognize phenotype candidates in the auto-immune literature using SVM re-ranking. PLoS One (2013) 0.85
Recent Advances and Emerging Applications in Text and Data Mining for Biomedical Discovery. Brief Bioinform (2015) 0.84
A document processing pipeline for annotating chemical entities in scientific documents. J Cheminform (2015) 0.82
Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition. J Biomed Semantics (2016) 0.77
Optimizing graph-based patterns to extract biomedical events from the literature. BMC Bioinformatics (2015) 0.76
Annotating patient clinical records with syntactic chunks and named entities: the Harvey Corpus. Lang Resour Eval (2016) 0.75
Coreference annotation and resolution in the Colorado Richly Annotated Full Text (CRAFT) corpus of biomedical journal articles. BMC Bioinformatics (2017) 0.75
The Sequence Ontology: a tool for the unification of genome annotations. Genome Biol (2005) 18.20
Database resources of the National Center for Biotechnology Information. Nucleic Acids Res (2010) 10.97
Tagging gene and protein names in biomedical text. Bioinformatics (2002) 10.03
Entrez Gene: gene-centered information at NCBI. Nucleic Acids Res (2010) 9.09
GENIA corpus--semantically annotated corpus for bio-textmining. Bioinformatics (2003) 8.89
Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions. PLoS Genet (2009) 8.39
BioCreAtIvE task 1A: gene mention finding evaluation. BMC Bioinformatics (2005) 8.09
ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text. Bioinformatics (2005) 6.92
GENETAG: a tagged corpus for gene/protein named entity recognition. BMC Bioinformatics (2005) 6.19
GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles. Bioinformatics (2001) 6.05
BANNER: an executable survey of advances in biomedical named entity recognition. Pac Symp Biocomput (2008) 5.98
Overview of BioCreative II gene mention recognition. Genome Biol (2008) 5.67
Overview of BioCreative II gene normalization. Genome Biol (2008) 5.05
BioInfer: a corpus for information extraction in the biomedical domain. BMC Bioinformatics (2007) 4.89
GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data. J Biomed Inform (2004) 4.57
Essie: a concept-based search engine for structured biomedical text. J Am Med Inform Assoc (2007) 3.86
The structural and content aspects of abstracts versus bodies of full text journal articles are different. BMC Bioinformatics (2010) 2.88
Information extraction from full text scientific articles: where are the keywords? BMC Bioinformatics (2003) 2.64
BioRAT: extracting biological information from full-length papers. Bioinformatics (2004) 2.63
Benchmarking natural-language parsers for biological applications using dependency graphs. BMC Bioinformatics (2007) 2.41
Evaluating contributions of natural language parsers to protein-protein interaction extraction. Bioinformatics (2008) 2.34
Can bibliographic pointers for known biological data be found automatically? Protein interactions as a case study. Comp Funct Genomics (2001) 2.21
Concept annotation in the CRAFT corpus. BMC Bioinformatics (2012) 1.94
Evaluation of two dependency parsers on biomedical corpus targeted at protein-protein interactions. Int J Med Inform (2005) 1.79
Empirical data on corpus design and usage in biomedical natural language processing. AMIA Annu Symp Proc (2005) 1.37
The textual characteristics of traditional and Open Access scientific journals are similar. BMC Bioinformatics (2009) 1.37
Parenthetically speaking: classifying the contents of parentheses for text mining. AMIA Annu Symp Proc (2011) 0.96
Improving the inter-corpora compatibility for protein annotations. J Bioinform Comput Biol (2010) 0.82
Overview of BioCreative II gene mention recognition. Genome Biol (2008) 5.67
A large-scale evaluation of computational protein function prediction. Nat Methods (2013) 4.61
Cross-product extensions of the Gene Ontology. J Biomed Inform (2010) 4.00
Mesenchymal stem cell implantation in a swine myocardial infarct model: engraftment and functional effects. Ann Thorac Surg (2002) 3.62
Stroke and encephalopathy after cardiac surgery: an update. Stroke (2005) 2.91
The structural and content aspects of abstracts versus bodies of full text journal articles are different. BMC Bioinformatics (2010) 2.88
OpenDMAP: an open source, ontology-driven concept analysis engine, with applications to capturing knowledge regarding protein transport, protein interactions and cell-type-specific gene expression. BMC Bioinformatics (2008) 2.81
Introducing meta-services for biomedical information extraction. Genome Biol (2008) 2.78
BioC: a minimalist approach to interoperability for biomedical text processing. Database (Oxford) (2013) 2.69
MutationFinder: a high-performance system for extracting point mutation mentions from text. Bioinformatics (2007) 2.53
AMIA Board white paper: definition of biomedical informatics and specification of core competencies for graduate education in the discipline. J Am Med Inform Assoc (2012) 2.40
U-Compare: share and compare text mining tools with UIMA. Bioinformatics (2009) 2.28
Clinical outcomes of noninfectious sternal dehiscence after median sternotomy. Ann Thorac Surg (2006) 2.25
Towards temporal relation discovery from the clinical narrative. AMIA Annu Symp Proc (2009) 2.15
Watershed strokes after cardiac surgery: diagnosis, etiology, and outcome. Stroke (2006) 1.98
Concept annotation in the CRAFT corpus. BMC Bioinformatics (2012) 1.94
Concept recognition for extracting protein interaction relations from biomedical text. Genome Biol (2008) 1.93
Coronary artery bypass grafting with or without surgical ventricular restoration: a comparison. Ann Thorac Surg (2008) 1.92
Evaluation of lexical methods for detecting relationships between concepts from multiple ontologies. Pac Symp Biocomput (2006) 1.90
BioLemmatizer: a lemmatization tool for morphological processing of biomedical text. J Biomed Semantics (2012) 1.90
Increased mortality at low-volume orthotopic heart transplantation centers: should current standards change? Ann Thorac Surg (2008) 1.68
A 32-year experience with surgical repair of sinus of valsalva aneurysms. J Card Surg (2005) 1.68
Impact of the lung allocation score on resource utilization after lung transplantation in the United States. J Heart Lung Transplant (2010) 1.67
Normalization and standardization of electronic health records for high-throughput phenotyping: the SHARPn consortium. J Am Med Inform Assoc (2013) 1.64
Valproic acid prevents brain injury in a canine model of hypothermic circulatory arrest: a promising new approach to neuroprotection during cardiac surgery. Ann Thorac Surg (2006) 1.64
Delirium after coronary artery bypass graft surgery and late mortality. Ann Neurol (2010) 1.63
Application of haptic feedback to robotic surgery. J Laparoendosc Adv Surg Tech A (2004) 1.62
Cognitive and neurologic outcomes after coronary-artery bypass surgery. N Engl J Med (2012) 1.58
Simple score to assess the risk of rejection after orthotopic heart transplantation. Circulation (2012) 1.57
Towards comprehensive syntactic and semantic annotations of the clinical narrative. J Am Med Inform Assoc (2013) 1.57
Do management strategies for coronary artery disease influence 6-year cognitive outcomes? Ann Thorac Surg (2009) 1.56
Large-scale biomedical concept recognition: an evaluation of current automatic annotators and their parameters. BMC Bioinformatics (2014) 1.52
Nominalization and alternations in biomedical language. PLoS One (2008) 1.52
Biomedical discovery acceleration, with applications to craniofacial development. PLoS Comput Biol (2009) 1.49
Aortic valve replacement and concomitant coronary artery bypass: assessing the impact of multiple grafts. Ann Thorac Surg (2007) 1.46
Intraoperative hemoglobin levels and transfusion independently predict stroke after cardiac operations. Ann Thorac Surg (2011) 1.45
Pilot implementation of a perioperative protocol to guide operating room-to-intensive care unit patient handoffs. J Cardiothorac Vasc Anesth (2011) 1.45
Subjective memory symptoms in surgical and nonsurgical coronary artery patients: 6-year follow-up. Ann Thorac Surg (2009) 1.43
Cognition 6 years after surgical or medical therapy for coronary artery disease. Ann Neurol (2008) 1.41
Pharmacological preconditioning ameliorates neurological injury in a model of spinal cord ischemia. Ann Thorac Surg (2002) 1.41
Influence of pretransplant panel-reactive antibody on outcomes in 8,160 heart transplant recipients in recent era. Ann Thorac Surg (2007) 1.39
Corpus refactoring: a feasibility study. J Biomed Discov Collab (2007) 1.29
Cognitive changes with coronary artery disease: a prospective study of coronary artery bypass graft patients and nonsurgical controls. Ann Thorac Surg (2003) 1.29
The PhenoGen informatics website: tools for analyses of complex traits. BMC Genet (2007) 1.25
EuroSCORE predicts short- and mid-term mortality in combined aortic valve replacement and coronary artery bypass patients. J Card Surg (2010) 1.22
Molecular subtypes of osteosarcoma identified by reducing tumor heterogeneity through an interspecies comparative approach. Bone (2011) 1.21
Encephalopathy and stroke after coronary artery bypass grafting: incidence, consequences, and prediction. Arch Neurol (2002) 1.20
The impact of center volume on survival in lung transplantation: an analysis of more than 10,000 cases. Ann Thorac Surg (2009) 1.20
Gene expression profiles of sporadic canine hemangiosarcoma are uniquely associated with breed. PLoS One (2009) 1.19
Neurocognitive outcomes 3 years after coronary artery bypass graft surgery: a controlled study. Ann Thorac Surg (2007) 1.18
Association of operative time of day with outcomes after thoracic organ transplant. JAMA (2011) 1.16
Determining the utility of temporary pacing wires after coronary artery bypass surgery. Ann Thorac Surg (2005) 1.15
Combining heterogeneous data sources for accurate functional annotation of proteins. BMC Bioinformatics (2013) 1.15
Inspiring medical students to pursue surgical careers: outcomes from our cardiothoracic surgery research program. Ann Thorac Surg (2009) 1.14
Gene expression profiling identifies inflammation and angiogenesis as distinguishing features of canine hemangiosarcoma. BMC Cancer (2010) 1.13
Spatial and temporal analysis of gene expression during growth and fusion of the mouse facial prominences. PLoS One (2009) 1.11
The impact of donor-recipient sex matching on survival after orthotopic heart transplantation: analysis of 18 000 transplants in the modern era. Circ Heart Fail (2009) 1.08
Impact of donor-to-recipient weight ratio on survival after heart transplantation: analysis of the United Network for Organ Sharing Database. Circulation (2008) 1.08
Contemporary etiologies, risk factors, and outcomes after pericardiectomy. Ann Thorac Surg (2012) 1.05
Aortic valve replacement and concomitant mitral valve regurgitation in the elderly: impact on survival and functional outcome. Circulation (2005) 1.04
Pulmonary capillaries are recruited during pulsatile flow. J Appl Physiol (1985) (2002) 1.03
Organ storage with University of Wisconsin solution is associated with improved outcomes after orthotopic heart transplantation. J Heart Lung Transplant (2011) 1.03
Mandatory versus selective preoperative carotid screening: a retrospective analysis. Ann Thorac Surg (2004) 1.03
Operative outcomes in mitral valve surgery: combined effect of surgeon and hospital volume in a population-based analysis. J Thorac Cardiovasc Surg (2012) 1.02
Improving protein function prediction methods with integrated literature data. BMC Bioinformatics (2008) 1.02
Development of a quantitative donor risk index to predict short-term mortality in orthotopic heart transplantation. J Heart Lung Transplant (2011) 1.02
Rapid pattern development for concept recognition systems: application to point mutations. J Bioinform Comput Biol (2007) 1.01
Protein carbonylation in a murine model for early alcoholic liver disease. Chem Res Toxicol (2012) 1.00
Skeletal muscle proteomics: carbohydrate metabolism oscillates with seasonal and torpor-arousal physiology of hibernation. Am J Physiol Regul Integr Comp Physiol (2011) 0.99
U-Compare bio-event meta-service: compatible BioNLP event extraction services. BMC Bioinformatics (2011) 0.99
Mitochondrial ATP-sensitive potassium channel activation protects cerebellar granule neurons from apoptosis induced by oxidative stress. Stroke (2003) 0.98
Two thousand Blalock-Taussig shunts: a six-decade experience. Ann Thorac Surg (2007) 0.98
Incidence of and risk factors for perioperative optic neuropathy after cardiac surgery. Ann Thorac Surg (2004) 0.98
Exploring species-based strategies for gene normalization. IEEE/ACM Trans Comput Biol Bioinform (2010) 0.97
Dendrimer brain uptake and targeted therapy for brain injury in a large animal model of hypothermic circulatory arrest. ACS Nano (2014) 0.96
Parenthetically speaking: classifying the contents of parentheses for text mining. AMIA Annu Symp Proc (2011) 0.96
Metabolic cycles in a circannual hibernator. Physiol Genomics (2011) 0.96
Chapter 16: text mining for translational bioinformatics. PLoS Comput Biol (2013) 0.94
Mining FDA drug labels for medical conditions. BMC Med Inform Decis Mak (2013) 0.94
Early postoperative cognitive dysfunction and blood pressure during coronary artery bypass graft operation. Arch Neurol (2007) 0.94
A UIMA wrapper for the NCBO annotator. Bioinformatics (2010) 0.93
Multistate proteomics analysis reveals novel strategies used by a hibernator to precondition the heart and conserve ATP for winter heterothermy. Physiol Genomics (2011) 0.93
The impact of race on survival after heart transplantation: an analysis of more than 20,000 patients. Ann Thorac Surg (2010) 0.92
A simulated MS/MS library for spectrum-to-spectrum searching in large scale identification of proteins. Mol Cell Proteomics (2008) 0.92