Abstract
In this study, we demonstrate the use of natural language processing methods to extract, from nanomedicine literature, numeric values of biomedical property terms of poly(amidoamine) dendrimers. We have developed a method for extracting these values for properties taken from the NanoParticle Ontology, using the General Architecture for Text Engineering and a Nearly-New Information Extraction System. We also created a method for associating the identified numeric values with their corresponding dendrimer properties, called NanoSifter.We demonstrate that our system can correctly extract numeric values of dendrimer properties reported in the cancer treatment literature with high recall, precision, and f-measure. The micro-averaged recall was 0.99, precision was 0.84, and f-measure was 0.91. Similarly, the macro-averaged recall was 0.99, precision was 0.87, and f-measure was 0.92. To our knowledge, these results are the first application of text mining to extract and associate dendrimer property terms and their corresponding numeric values.
Highlights
Nanomedicine is the field of study that considers the application of nanoparticles and nanoscience techniques to health care and medical research [1]
This study focused on poly(amidoamine) (PAMAM) dendrimers that show promise for cancer treatment
We evaluate the use of natural language processing (NLP) methods to extract numeric values for the properties of biomedical dendrimers reported in the cancer treatment literature
Summary
Nanomedicine is the field of study that considers the application of nanoparticles and nanoscience techniques to health care and medical research [1]. A main focus of nanomedicine includes the use of nanoparticles as delivery vectors for pharmaceutics, diagnostic devices, and tissue replacement materials [2]. This field is relatively new, it is producing large numbers of publications and substantial new data each year [3]. The number of shells that extend out from the central core determines the particular generation of the dendrimer. Due to their structure, these molecules form very symmetric, three-dimensional particles that promise to be highly useful in the fields of pharmaceutics and medicine as delivery vectors [7]. This study focused on poly(amidoamine) (PAMAM) dendrimers that show promise for cancer treatment
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