Search Results for "bionlp"
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Showing 6 open source projects for "bionlp"
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BioNLP is an initiative by the University of Colorado Denver Health Sciences Center to create and distribute code, software, and data for applying natural language processing techniques to biomedical texts
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GNAT
GNAT recognizes gene names in text and maps them to NCBI Entrez Gene
GNAT is a BioNLP/text mining tool to recognize and identify gene/protein names in natural language text. It will detect mentions of genes in text, such as PubMed/Medline abstracts, and disambiguate them to remove false positives and map them to the correct entry in the NCBI Entrez Gene database by gene ID. March 2017: We started to upload GNAT output on Medline. -
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BioNLP-Corpora is a repository of biomedically and linguistically annotated corpora and biomedical data sources. There are many resources available in separate packages in this project.
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The BioNLP UIMA Component Repository provides UIMA wrappers for novel and well-known 3rd-party NLP tools used in biomedical text prosessing, such as tokenizers, parsers, named entity taggers, and tools for evaluation.
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Exact Subgraph Matching Algorithm
Exact Subgraph Matching Algorithm for Dependency Graphs
...The total worst-case algorithm complexity is O(n^2 * k^n) where n is the number of vertices and k is the vertex degree. We have demonstrated the successful usage of our algorithm in three biomedical relation and event extraction applications: BioNLP 2011 shared tasks on event extraction, Protein-Residue association detection and Protein-Protein interaction identification. This Java implementation implements our ESM algorithm. See README file: https://sourceforge.net/projects/esmalgorithm/files/ If you use our ESM implementation to support academic research, please cite the following paper: Haibin Liu, Vlado Keselj, and Christian Blouin. ... -
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...Double Layered Learning for Biological Event Extraction from Text. In Proceedings of the BioNLP 2011 Workshop Companion Volume for Shared Task, Portland, Oregon, June. Association for Computational Linguistic
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