The digital revolution in phenotyping

A Oellrich, N Collier, T Groza… - Briefings in …, 2016 - academic.oup.com
Phenotypes have gained increased notoriety in the clinical and biological domain owing to
their application in numerous areas such as the discovery of disease genes and drug …

Automatic concept recognition using the human phenotype ontology reference and test suite corpora

T Groza, S Köhler, S Doelken, N Collier, A Oellrich… - Database, 2015 - academic.oup.com
Abstract Concept recognition tools rely on the availability of textual corpora to assess their
performance and enable the identification of areas for improvement. Typically, corpora are …

The colorado richly annotated full text (craft) corpus: Multi-model annotation in the biomedical domain

KB Cohen, K Verspoor, K Fort, C Funk, M Bada… - Handbook of Linguistic …, 2017 - Springer
Abstract The Colorado Richly Annotated Full Text (CRAFT) corpus consists of full-text
journal articles. The primary motivation for the annotation project was the accumulating body …

PhenoMiner: from text to a database of phenotypes associated with OMIM diseases

N Collier, T Groza, D Smedley, PN Robinson… - Database, 2015 - academic.oup.com
Abstract Analysis of scientific and clinical phenotypes reported in the experimental literature
has been curated manually to build high-quality databases such as the Online Mendelian …

Concept selection for phenotypes and diseases using learn to rank

N Collier, A Oellrich, T Groza - Journal of biomedical semantics, 2015 - Springer
Background Phenotypes form the basis for determining the existence of a disease against
the given evidence. Much of this evidence though remains locked away in text–scientific …

Information extraction from bibliography for marker-assisted selection in wheat

C Nédellec, R Bossy, D Valsamou, M Ranoux… - Metadata and Semantics …, 2014 - Springer
Improvement of most animal and plant species of agronomical interest in the near future has
become an international stake because of the increasing demand for feeding a growing …

Annotating and detecting phenotypic information for chronic obstructive pulmonary disease

M Ju, AD Short, P Thompson, ND Bakerly… - JAMIA …, 2019 - academic.oup.com
Objectives Chronic obstructive pulmonary disease (COPD) phenotypes cover a range of
lung abnormalities. To allow text mining methods to identify pertinent and potentially …

Gold-standard ontology-based anatomical annotation in the CRAFT Corpus

M Bada, N Vasilevsky, WA Baumgartner Jr… - Database, 2017 - academic.oup.com
Gold-standard annotated corpora have become important resources for the training and
testing of natural-language-processing (NLP) systems designed to support biocuration …

A Method for Building a Labeled Named Entity Recognition Corpus Using Ontologies

NT Vu, VH Tran, THT Doan, HQ Le, MV Tran - … Computational Methods for …, 2015 - Springer
Building a labeled corpus which contains sufficient data and good coverage along with
solving the problems of cost, effort and time is a popular research topic in natural language …

A new multi-class classification method based on minimum enclosing balls

QJ Song, XM Xiao, HY Jiang, XG Zhao - Journal of Mechanical Science …, 2015 - Springer
With respect to classification problems, the Minimum enclosing ball (MEB) method was
recently studied by some scholars as a new support vector machine. As a nascent …