This document describes the methods and results for our participation in the BioNLP’09 Shared Task #1 on Event Extraction. It also contains some error analysis and a brief discussion of the results. Previous shared tasks in the BioNLP community have focused on extracting gene and protein names, and on finding (direct) protein-protein interactions (PPI). This year’s task was slightly different, ...

BACKGROUND Patient-reported outcomes (PRO) questionnaires are being increasingly used in COPD clinical studies. The challenge facing investigators is to determine what change is significant, ie what is the minimal clinically important difference (MCID). This study aimed to identify the MCID for the clinical COPD questionnaire (CCQ) in terms of patient referencing, criterion referencing, and by ...

The study of functional genomics, particularly in non-model organisms, has been dramatically improved over the last few years by the use of transcriptomes and RNAseq. While these studies are potentially extremely powerful, a computationally intensive procedure, the de novo construction of a reference transcriptome must be completed as a prerequisite to further analyses. The accurate reference i...

This paper describes the retrieval of correct semantic boundaries for predicateargument structures annotated by dependency structure. Unlike phrase structure, in which arguments are annotated at the phrase level, dependency structure does not have phrases so the argument labels are associated with head words instead: the subtree of each head word is assumed to include the same set of words as t...

PURPOSE To investigate inter-rater reliability of the Motor Evaluation Scale for Upper Extremity in Stroke patients (MESUPES), to provide estimates of the minimal detectable change (MDC) of the MESUPES and to investigate concurrent validity in relation to the arm scores of the Modified Motor Assessment Scale (M MAS). METHODS Forty-two stroke patients (mean age 56 ± 12 years) were independentl...

This paper proposes a neural network architecture and training scheme to learn the start and end time of sound events (strong labels) in an audio recording given just the list of sound events existing in the audio without time information (weak labels). We achieve this by using a stacked convolutional and recurrent neural network with two prediction layers in sequence one for the strong followe...

Chinese character correction involves two major steps: 1) Providing candidate corrections for all or partially identified characters in a sentence, and 2) Scoring all altered sentences and identifying which is the best corrected sentence. In this paper a web-based measure is used to score candidate sentences, in which there exists one continuous error character in a sentence in almost all sente...

iv 1 Regressed-score Estimates 1 2 Reliability 1 2.1 Correlational-based Definitions of Reliability . . . . . . . . . . . 2 2.2 Variance-ratio Expressions for Reliability . . . . . . . . . . . . . 2 3 Covariances Involving Error 3 3.1 Zero Covariance for True and Error Scores in CTT . . . . . . . . 3 3.2 Zero Expectation for Errors for Persons in CTT . . . . . . . . . . 4 4 Concluding Comments 4

PURPOSE Monozygotic (MZ) twin pairs discordant for disease allow careful examination of environmental factors whilst controlling for genetic variation. The purpose of this study was to examine differences in environmental risk factors in MZ twins discordant for myopia. METHODS Sixty four MZ twin pairs discordant for refractive error were interviewed. Discordant twins were selected from 1326 M...