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[ 1 ]
ChimerDB 3.0
Updated:
(Nov 30, 2016)
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...includes 2,767 fusion genes obtained from text mining of PubMed abstracts. ChimerSeq module is designed...
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[ 2 ]
Belief - BEL network creation
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(Oct 3, 2016)
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...provides access to BEL statements generated by text mining and that integrates supporting information to facilitate...
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[ 3 ]
The herb-chemical corpus
Updated:
(Sep 21, 2016)
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...large-scale way if we apply a text mining approach. Thus, we constructed a corpus for plant and chemical entities and for the relationships between them to develop and evaluate such text mining approaches. The corpus currently contains 267 plant...
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[ 4 ]
BioCreative - Track 1- Collaborative Biocurator Assistant Task (BioC)
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(Sep 3, 2016)
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...of biomedical literature, finding biological evidence through text mining techniques has been a main research topic in the bio-text mining community. However, there have been few successes for improving biocuration throughput using text mining [5].The purpose of this task is...can assist in biocuration tasks by bringing text mining tool developers and database curators together. But, no attempt has been made to integrate text mining modules developed in the formal BioCreative PPI...
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[ 5 ]
National Centre for Text Mining — NaCTeM — Paragraph Vector-based Topic Detection
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(Aug 15, 2016)
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...html; charset=us-ascii National Centre for Text Mining — NaCTeM — Paragraph Vector-based Topic Detection You are in: Home | PV-based Topic DetectionHome Aims & Objectives NaCTeM Services Text Mining Tools Text Mining Infrastructures Resources Terms & Conditions FAQ News & Events...copyright © 2016, The National Centre for Text Mining — University of ManchesterSite maintained by Paul Thompson...
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[ 6 ]
drugQuest
Updated:
(Jun 14, 2016)
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...us-ascii drugQuest Home Help DrugQuest - A Text Mining Workflow for Drug Association Discovery DrugQuest accepts...
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[ 7 ]
MeSH Pair Metrics
Updated:
(May 24, 2016)
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...Subject Headings (MeSH): An Aid to Biomedical Text Mining and Author Name Disambiguation. These data are...
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[ 8 ]
DiMeX homepage
Updated:
(Apr 14, 2016)
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...of Mutation association to DiseasesDiMeX is a text mining system that extracts mutation to disease associations...
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[ 9 ]
BRONCO: Biomedical entity Relation ONcology Corpus
Updated:
(Apr 14, 2016)
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...be a valuable resource to the biomedical text mining research community. BRONCO(Corpus, December 21st, 2015...
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[ 10 ]
SynLethDB
Updated:
(Jan 7, 2016)
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...assays, other related databases, computational predictions and text mining. In total, SynLethDB contains 34,089 synthetic...shRNA screenings (DECIPHER), computational predictions (DAISY) and Text Mining-based results. The pie chart on the...
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SynLethDB: synthetic lethality database toward discovery of selective and sensitive anticancer drug targets. (Jan 4, 2016)
SynLethDB: synthetic lethality database toward discovery of selective and sensitive anticancer drug targets. (Jan 4, 2016)
[ 11 ]
CARFMAP: A Cell Type-Specific Pathway Map for the Cardiac Fibroblasts
Updated:
(Dec 17, 2015)
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...their text. First, we performed algorithm-based text mining using standard tools: BioIE, Whatizit, and MEDIE...
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[ 12 ]
mirtex
Updated:
(Sep 26, 2015)
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...-8 Toggle navigation miRTexRESTful APIsPublicationContactmiRTex is a text-mining system that extracts miRNA-gene regulation relations...Vijay-Shanker. 2015. âmiRTex: A Text Mining System for miRNA-Gene Relation Extraction.â...
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[ 13 ]
Giovanni Montana
Updated:
(Sep 22, 2015)
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...Memory Networks. 7th International Workshop on Health Text Mining and Information Analysis [arxiv] Poudel R., Lamata...Leech, C. Anagnostopoulos, and G. Montana (2016) Text-mining the NeuroSynth corpus using Deep Boltzmann Machines...
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[ 14 ]
iProLINK [PIR - Protein Information Resource]
Updated:
(Sep 11, 2015)
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...Knowledge) is a resource with access to text mining tools and annotated corpora developed in house...and phosphorylation-dependent protein-protein interactionseGIFT: a text mining tool that identifies informative terms (iTerms) and...
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[ 15 ]
RLIMS-P [PIR - Protein Information Resource]
Updated:
(Sep 11, 2015)
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...Protein PhosphorylationRLIMS-P is a rule-based text-mining program specifically designed to extract protein phosphorylation...
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[ 16 ]
PsyGeNET - a database of gene-disease associations
Updated:
(Sep 11, 2015)
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...of information from the literature using the text mining tool BeFree (http://ibi.imim.es/befree...
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[ 17 ]
PolySearch2
Updated:
(Jul 3, 2015)
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...UsWelcome to PolySearch2A critical task in biomedical text mining is to discover potential associations between various types of biomedical entities. PolySearch 2.0 (polysearch.ca) is an online text-mining system for identifying relationships between human diseases...2015) PolySearch 2.0: A significantly improved text-mining system for discovering associations between human diseases...
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[ 18 ]
TRRUST - Transcriptional Regulatory Relationships Unraveled by Sentence-based Text mining
Updated:
(Jun 13, 2015)
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...million pubmed articles, we used sentence-based text mining approach. TRRUST database also provide information of...
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[ 19 ]
Copyright VPU. All rights reserved.
Updated:
(Jun 6, 2015)
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...pic.twitter.com/oQWo5dM6C830th April @ 12:18 Text-mining vs BLAST: find similarities, map regions of...
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[ 20 ]
PALM-IST HOME
Updated:
(May 20, 2015)
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...from data mining) and unstructured data (from text mining) can be used to extract novel association...
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[ 21 ]
BIOPORTAL - Institutt for biovitenskap
Updated:
(May 19, 2015)
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...BLAST output data by integrating taxonomy identification, text mining capabilities and generic multi-dimensional rendering of...
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[ 22 ]
DIEGO Lab
Updated:
(May 8, 2015)
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...Benchmarking of the 2010 BioCreative Challenge III text-mining competition by the BioGRID and MINT interaction...International Conference on. Vol. 2. IEEE, 2010.Text mining approaches for stock market prediction.Nikfarjam, Azadeh, Ehsan Emadzadeh, and Saravanan Muthaiyah."Text mining approaches for stock market prediction." Computer and...Bioinformatics 2008, 24(16):i126-i132.Glycoinformatics: Text Mining Lectin and Glycan Interactions in BioprocessesSamli, Kausar N., et al. "Glycoinformatics: Text Mining Lectin and Glycan Interactions in Bioprocesses." GLYCOBIOLOGY...
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[ 23 ]
Functional Correlation of Protein Functions
Updated:
(Feb 24, 2015)
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...for CMS, (v) construct TMMN, (vi) perform text mining to validate the motif results, and (vii...
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[ 24 ]
NutriChem 1.0 Server
Updated:
(Jan 16, 2015)
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...0 server is a database generated by text mining of 21 million MEDLINE abstracts, with information that links plant-based foods with their small molecule components and human disease phenotypes. The server contains text-mined data for 18,478 pairs of 1...Panagiotou G. and Kouskoumvekaki I. (2014) Integrated Text Mining and Chemoinformatics Analysis Associates Diet to Health...
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[ 25 ]
PubAngioGen: A comprehensive resource for angiogenesis association studies
Updated:
(Jan 16, 2015)
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...is involved in many diseases. Through manual text-mining, we extracted those published results related to...
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[ 26 ]
Proceedings | BioLINK Special Interest Group
Updated:
(Jan 10, 2015)
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...the {BioLINK SIG} 2013: {R}oles for text mining in biomedical knowledge discovery and translational medicine...
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[ 27 ]
HIV mutation database
Updated:
(Dec 5, 2014)
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...collated from the scientific literature using computational text-mining tools, and presented in a "protein-centered...
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[ 28 ]
Welcome to BioTextQuest
Updated:
(Nov 7, 2014)
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...to BioTextQuest Home About Help A Biomedical Text Mining Suite for Concept Discovery BioTextQuest accepts a...
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[ 29 ]
LiverCancerMarkerRIF Home Page
Updated:
(Aug 29, 2014)
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...biomarker candidates that were uncovered through previous text-mining processes. LiverCancerMarkerRIF contains functions including the recognition...
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[ 30 ]
dbGSH
Updated:
(Aug 6, 2014)
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...peptides from more research articles using a text mining approach. To solve the heterogeneity among the...
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[ 31 ]
Gene-Disease Prediction: A Link Prediction Approach | Center for Big Data Analytics
Updated:
(Jun 16, 2014)
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...as microarray gene expression, functional interactions, and text mining to obtain features.ResultsBelow are some comparison...
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[ 32 ]
ontogene
Updated:
(Jun 6, 2014)
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...curation (NIH)VetSuissepast projectsRocheSASEBioBioTermEvomogAssisted curationODIN: descriptionpharmgkbCTDRegulonDBhome  Text Mining, Information Extraction,     and Assisted Curation in the biomedical domain OntoGene/BioMeXT is a research initiative which aims at pushing the boundaries of text mining for the biomedical literature. Our core...provide an independent and unbiased evaluation of text mining tools. We participated in the BioCreative challenges...
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[ 33 ]
iSimp: A Sentence Simplification System for Biomedical Text
Updated:
(May 22, 2014)
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...the development of natural language processing and text mining tools. For this purpose, we developed iSimp...make iSimp readily usable in NLP and text mining tools, we participate in BioCreative IV Track...
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[ 34 ]
National Centre for Text Mining — NaCTeM — Anatomical Entity Tagger
Updated:
(Mar 19, 2014)
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...html; charset=us-ascii National Centre for Text Mining — NaCTeM — Anatomical Entity Tagger You are in: Home | Anatomical Entity TaggerHome Aims & Objectives NaCTeM Services Text Mining Tools Text Mining Infrastructures Resources Terms & Conditions FAQ News & Events...copyright © 2016, The National Centre for Text Mining — University of ManchesterSite maintained by Paul Thompson...
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[ 35 ]
ProNormz
Updated:
(Mar 10, 2014)
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...Name © 2013 by Data Mining and Text Mining Laboratory, Department of Bioinformatics, Bharathiar University, Coimbatore...
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[ 36 ]
LexEBI
Updated:
(Oct 14, 2013)
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...resource. Standardisation of terminological resources required for text mining and normalisation of database resources. Querying across...
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Evaluation and Cross-Comparison of Lexical Entities of Biological Interest (LexEBI). (2013)
Evaluation and Cross-Comparison of Lexical Entities of Biological Interest (LexEBI). (2013)
[ 37 ]
National Centre for Text Mining — NaCTeM — PathText2
Updated:
(Jul 1, 2013)
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...html; charset=us-ascii National Centre for Text Mining — NaCTeM — PathText2 You are in: Home | PathText2 Home Aims & Objectives NaCTeM Services Text Mining Tools Text Mining Infrastructures Resources Terms & Conditions FAQ News & Events...carried out at the National Centre for Text Mining (NaCTeM), School of Computer Science, University of...
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A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text. (Jul 1, 2013)
A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text. (Jul 1, 2013)
[ 38 ]
Taverna - open source and domain independent Workflow Management System
Updated:
(Jun 24, 2013)
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...of domainsBioinformatics, biodiversity, chemistry, astronomy, data and text mining, digitisation, document and image analysisAnd many more...
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[ 39 ]
U-Compare - Share and Compare with UIMA
Updated:
(May 21, 2013)
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...ComponentsContactU-Compare homepageU-Compare is an integrated text mining/natural language processing system based on the...© 2012-2017, The National Centre for Text Mining â The University of ManchesterTerms & Conditions...
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[ 40 ]
T-HOD:Text-mined Hypertension, Obesity, and Diabetes candidate genes database
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(Feb 14, 2013)
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...text/html; charset=us-ascii T-HOD:Text-mined Hypertension, Obesity, and Diabetes candidate genes database...
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T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes. (2013)
T-HOD: a literature-based candidate gene database for hypertension, obesity and diabetes. (2013)
[ 41 ]
About This Project
Updated:
(Feb 13, 2013)
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...research. All target genes were identified through text-mining approach from the PubMed database. A semi...
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In silico identification of oncogenic potential of fyn-related kinase in hepatocellular carcinoma. (Feb 15, 2013)
In silico identification of oncogenic potential of fyn-related kinase in hepatocellular carcinoma. (Feb 15, 2013)
[ 42 ]
BioCreative - Track II- Workflow
Updated:
(Nov 19, 2012)
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...the issues that would be useful to text mining developers who are seeking to produce algorithms...cases? dictionary? wikipedia? other database?Use of text mining tools a. What text mining tools do you currently employ in your workflow and what problems do these algorithms solve for you? b. What problems do you have that are not currently solved, but which you think could be amenable to a text mining solution (i.e., for which steps text...
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Biocuration workflows and text mining: overview of the BioCreative 2012 Workshop Track II. (2012)
Biocuration workflows and text mining: overview of the BioCreative 2012 Workshop Track II. (2012)
[ 43 ]
CNVD:The Copy Number Variation in Disease
Updated:
(Oct 12, 2012)
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...M. Liu and X. Li (2012). CNVD: Text mining-based copy number variation in disease database...
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[ 44 ]
e-MIR2: Electronic Medical Informatics Repository of Resources
Updated:
(Sep 14, 2012)
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...literature and indexed using Natural Language and Text Mining techniques. The index is automatically updated by...
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[ 45 ]
National Centre for Text Mining — NaCTeM — MLEE
Updated:
(Sep 10, 2012)
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...html; charset=us-ascii National Centre for Text Mining — NaCTeM — MLEE You are in: Home | MLEE Home Aims & Objectives NaCTeM Services Text Mining Tools Text Mining Infrastructures Resources Corpora ACE Meta-Knowledge Anatomy...copyright © 2016, The National Centre for Text Mining — University of ManchesterSite maintained by Paul Thompson...
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Event extraction across multiple levels of biological organization. (Sep 15, 2012)
Event extraction across multiple levels of biological organization. (Sep 15, 2012)
[ 46 ]
Center for non-coding RNA in Technology and Health
Updated:
(Aug 30, 2012)
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...file containing a synonym dictionary used for text-mining miRNA co-occurrences. String_protein_dictionary.gzA tab delimited text file derived from String containing a synonym dictionary used for text-mining miRNA co-occurrences. 1 and 2 element...
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[ 47 ]
BioContext
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(Aug 8, 2012)
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...html; charset=us-ascii BioContextBioContextBioContext is a text mining system for extracting information about molecular processes...Bergman, Goran Nenadic. (2012) BioContext: an integrated text mining system for large-scale extraction and contextualisation...
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BioContext: an integrated text mining system for large-scale extraction and contextualization of biomolecular events. (Aug 15, 2012)
BioContext: an integrated text mining system for large-scale extraction and contextualization of biomolecular events. (Aug 15, 2012)
[ 48 ]
National Centre for Text Mining — NaCTeM — EventMine
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(Jun 25, 2012)
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...html; charset=us-ascii National Centre for Text Mining — NaCTeM — EventMine You are in: Home | EventMine Home Aims & Objectives NaCTeM Services Text Mining Tools Text Mining Infrastructures Resources Terms & Conditions FAQ News & Events...copyright © 2016, The National Centre for Text Mining — University of ManchesterSite maintained by Paul Thompson...
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Boosting automatic event extraction from the literature using domain adaptation and coreference resolution. (Jul 1, 2012)
Boosting automatic event extraction from the literature using domain adaptation and coreference resolution. (Jul 1, 2012)
[ 49 ]
Apoptosis database
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(May 4, 2012)
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...KeyWord search using BIANA8 or using ProMiner text mining tool9.We obtain a p-Value for our predictions given by: were P is the set of proteins in teh network, C the set of candiates, V the set of proteins in teh validation set and I the set of candidate proteins validated by text mining. The chance of success p corresponds to...
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Extending signaling pathways with protein-interaction networks. Application to apoptosis. (May, 2012)
Extending signaling pathways with protein-interaction networks. Application to apoptosis. (May, 2012)
[ 50 ]
Totum | UA.PT Bioinformatics
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(Apr 30, 2012)
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...is a crucial initial task of biomedical text mining. A number of NER solutions have been...
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Harmonization of gene/protein annotations: towards a gold standard MEDLINE. (May 1, 2012)
Harmonization of gene/protein annotations: towards a gold standard MEDLINE. (May 1, 2012)