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Linguamatics – David Milward - ChemAxon
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Chemically Informed Text Mining David Milward Linguamatics Chemaxon UGM Budapest 2013 © Linguamatics 2013
Transcript of Linguamatics – David Milward - ChemAxon
Chemically Informed Text Mining
David Milward
Linguamatics
Chemaxon UGM Budapest 2013
© Linguamatics 2013
Click to edit Master title style Click to edit Master title style Linguamatics: Agile Text Mining
Boston Cambridge
I2E: agile, scalable, real-time NLP-based text mining
Fact extraction and knowledge synthesis
Fortune 500
Pharma/Biotech
Healthcare
Government Including 9
of the top 10
Including Kaiser Permanente
Including FDA
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• Melting points for exemplified compounds in patents
Chemical Searching combined with Text Searching
Patent Data from IFI Claims Direct
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Click to edit Master title style Click to edit Master title style A Versatile Toolbox for Finding Information …
• Search for e.g. cancer and get synonyms and children:
• Malignant neoplasms, Malignant tumor …
• Leukaemia, Lymphoma, Astrocytoma … Terminologies
Linguistics
• e.g. microRNA: let-?\d+.* mirn?a?-?\d+.* Regular Expressions
Chemical Substructure
• Simultaneous processing of large numbers of items e.g.
• 500 genes from microarray experiment High Throughput
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Click to edit Master title style Click to edit Master title style … and Presenting it Efficiently
Identify Extract Synthesize Analyze
Pie Charts for drill down
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Trending over time
Interaction networks
Mind maps with clustering Clustered results table
RDF/BEL for network modelling
bp(apoptosis)p(C)taof(p(A))
microRNA(Q) kaof(p(D))p(D, P@Y)
p(B) catof(p(R))
catalytic activity
kinase activitymicroRNA abundance
phosphorylation at unspecified
tyrosine
protein abundance
direct causation
transcriptional activity
biological process
protein abundance
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ChemAxon Integration
Mol files
Mol conversion with Filtering
5.7 g (56.7 mmol) of triethylamine in 20 ml methylene chloride are added dropwise at room temperature to a solution of 10 g (56.7 mmol) 2-hydroxymethyl-6-methylene-1,4-dithiepane
I2E Index
Name-to-Structure
I2E Query with Substructure/ Similarity
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YOUR APPLICATION
HERE!
I2E Server
Indexing tasks
Querying tasks
Class matching
Index/Query Publishing
Administration Tasks
I2E Client Pipeline Pilot Components
WSAPI Web View
Sample Web GUI
Client
I2E WSAPI
Serv
er
I2E Web Services API (WSAPI)
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Click to edit Master title style Click to edit Master title style I2E WSAPI Examples
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Click to edit Master title style Click to edit Master title style Thank You!
For more information…
Please visit our table or www.linguamatics.com
Webinars:
www.linguamatics.com/welcome/events/webinars.html
Contact: Phil Hastings
Email: [email protected]
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