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Transformers for Clinical Coding in Spanish

Guillermo Lopez-Garcia, Jose M. Jerez, Nuria Ribelles, Emilio Alba, Francisco J. Veredas
2021 IEEE Access  
the clinical coding problem in Spanish using transformers.  ...  Compared with the general-domain transformers, the clinical version of the models improved the performance for clinical coding in Spanish.  ... 
doi:10.1109/access.2021.3080085 fatcat:y3qh3udqjrfxdfa7xdi2olmzjm

CLIN-X: pre-trained language models and a study on cross-task transfer for concept extraction in the clinical domain [article]

Lukas Lange, Heike Adel, Jannik Strötgen, Dietrich Klakow
2021 arXiv   pre-print
We introduce the pre-trained CLIN-X (Clinical XLM-R) language models and show how CLIN-X outperforms other pre-trained transformer models by a large margin for ten clinical concept extraction tasks from  ...  Despite showing great improvements in benchmark datasets for various tasks, these models often perform sub-optimal in non-standard domains like the clinical domain where a large gap between pre-training  ...  Besides English, the clinical domain is well addressed for Spanish, and there exists an active community of researchers for natural language processing of Spanish clinical texts.  ... 
arXiv:2112.08754v2 fatcat:h35tbxngwjbozi2go4csvonmpa

Obtaining EHR-derived datasets for COVID-19 research within a short time: a flexible methodology based on Detailed Clinical Models

Miguel Pedrera Jiménez, Noelia García Barrio, Jaime Cruz Rojo, Ana Isabel Terriza Torres, Elena Ana López Jiménez, Fernando Calvo Boyero, María Jesús Jiménez Cerezo, Alvar Javier Blanco Martínez, Gustavo Roig Domínguez, Juan Luis Cruz Bermúdez, José Luis Bernal Sobrino, Pablo Serrano Balazote (+1 others)
2021 Journal of Biomedical Informatics  
These specifications share clinical concepts, but differ in format and recording criteria, something that creates data entry redundancy in multiple electronic data capture systems (EDCs) with the consequent  ...  However, it is usual for each data analysis initiative to define its own information model in line with its requirements.  ...  We would also like to thank María Elena Hernando (Bioengineering and Telemedicine Centre GBT-UPM) for the support in the revision of the manuscript.  ... 
doi:10.1016/j.jbi.2021.103697 pmid:33548541 pmcid:PMC7857038 fatcat:lvca76avmjcnzbddveuhofn2ky

A Review of Recent Work in Transfer Learning and Domain Adaptation for Natural Language Processing of Electronic Health Records

Egoitz Laparra, Aurelie Mascio, Sumithra Velupillai, Timothy Miller
2021 IMIA Yearbook of Medical Informatics  
Results: The ubiquity of pre-trained transformers in clinical NLP research has contributed to an increase in domain adaptation and generalization-focused work that uses these models as the key component  ...  trends in this area and identify opportunities for future research.  ...  One effort created a multilingual corpus (German and Spanish) of clinical text by scraping biomedical publications in those languages for clinical case reports [55] .  ... 
doi:10.1055/s-0041-1726522 pmid:34479396 fatcat:gvx2ohjdl5dell3mtubgtug6wq

Clinical and sociodemographic predictors of oral pain and eating problems among adult and senior Spaniards in the national survey performed in 2010

Javier Montero, Manuel Bravo, Antonio López-Valverde, Juan-Carlos Llodra
2015 Medicina Oral  
The aim of this study is to analyze and quantify the sociodemographic, behavioural and clinical factors modulating the oral pain and eating difficulties reported by Spanish adults and elderly Spanish people  ...  Eating problems and oral pain were mainly associated with prosthetic and caries treatment needs as clinical predictors, but female sex was also seen to be a relevant and significant risk factor for suffering  ...  Acknowledgements The authors are grateful to the Spanish Dental Association (Consejo General de Colegios de Dentistas de España) for providing access to the database used.  ... 
pmid:25858078 pmcid:PMC4523250 fatcat:qip56rk35bco3lgovgq224z7ui

Diabetes Care Quality Is Highly Correlated With Patient Panel Characteristics

S. R. Bailey, J. P. O'Malley, R. Gold, J. Heintzman, S. Likumahuwa, J. E. DeVoe
2013 Journal of the American Board of Family Medicine  
Quality scores that do not account for these differences could create disincentives to clinics providing diabetes care for vulnerable patients. (J Am Board Fam Med 2013;26:669 -679.)  ...  Using regression models, we estimated the proportion of variability in clinics' preventive services rates associated with the variability in the clinics' patient panel characteristics.  ...  For example, the percentage of clinic patients whose primary language was Spanish ranged from 0% to 87.4% in both the full panels (median, 28.3%) and restricted patient panels (median, 27.6%).  ... 
doi:10.3122/jabfm.2013.06.130018 pmid:24204063 pmcid:PMC3922763 fatcat:eijaac4puvajzitgksxr7zsidi

Applying diagnosis and pharmacy-based risk models to predict pharmacy use in Aragon, Spain: The impact of a local calibration

Amaia Calderón-Larrañaga, Chad Abrams, Beatriz Poblador-Plou, Jonathan P Weiner, Alexandra Prados-Torres
2010 BMC Health Services Research  
Developed primarily for the U.S. health care setting, a secondary objective was to evaluate the benefit of a local calibration in order to adapt the PMs to the Spanish health care system.  ...  In the financing of a national health system, where pharmaceutical spending is one of the main cost containment targets, predicting pharmacy costs for individuals and populations is essential for budget  ...  Diagnoses were originally coded according to the International Classification of Primary Care (ICPC-2) [17] ; the codes were subsequently transformed to correspond with the International Classification  ... 
doi:10.1186/1472-6963-10-22 pmid:20092654 pmcid:PMC2828433 fatcat:zieick6jjze7phkk3ttw4n7q34

The ANIBES Study on Energy Balance in Spain: Design, Protocol and Methodology

Emma Ruiz, José Ávila, Adrián Castillo, Teresa Valero, Susana del Pozo, Paula Rodriguez, Javier Bartrina, Ángel Gil, Marcela González-Gross, Rosa Ortega, Lluis Serra-Majem, Gregorio Varela-Moreiras
2015 Nutrients  
in tandem (for example, each food or drink recorded in the tablet corresponded to a food/serving code).  ...  Javier Aranceta, MD, PhD Chairman of the Scientific Committee of the Spanish Society of Community Nutrition (SENC), Clinic Director of the Spanish Foundation for Nutritional Research (FIN), and Associate  ... 
doi:10.3390/nu7020970 pmid:25658237 pmcid:PMC4344570 fatcat:cwuarkkx2bevxnuorhywglq6jq

Clinical and sociodemographic predictors of oral pain and eating problems among adult and senior Spaniards in the national survey performed in 2010

J. Montero, M. Bravo, A. Lopez-Valverde, JC. Llodra
2015 Medicina Oral  
for suffering pain and eating restrictions.  ...  The aim of this study is to analyze and quantify the sociodemographic, behavioural and clinical factors modulating the oral pain and eating difficulties reported by Spanish adults and elderly Spanish people  ...  Acknowledgements The authors are grateful to the Spanish Dental Association (Consejo General de Colegios de Dentistas de España) for providing access to the database used.  ... 
doi:10.4317/medoral.20400 fatcat:cpjd5ymcjnhcxnhhhc6uaftokq

Properties and units in the clinical laboratory sciences: Part IV. Properties and their code values (Technical Report)

H. Olesen, D. Kenny, Ivan Bruunshuus, I. Ibsen, K. Jørgensen, René Dybkær, X. Fuentes-Arderiu, G. Hill, P. Soares de Araujo, C. McDonald
1997 Pure and Applied Chemistry  
"Compendium of terminology and nomenclature of properties in clinical laboratory sciences" [5] . often is not readily transformed to coded sets from other coding schemes. presented a system of concepts  ...  . = 5,6 mmol/l Swedish Spanish Internet access The information on properties is given in three forms on the Home page: 1. Code value strings preceded by an NPU code value as in Sample page 1.  ... 
doi:10.1351/pac199769122583 fatcat:7absqojwg5fmzl2ozxzoquiuou

Page 531 of British Journal of Clinical Pharmacology Vol. 37, Issue 6 [page]

1994 British Journal of Clinical Pharmacology  
Drug sales for the years 1990-1992 were summarized, coded, classified and transformed into the number of defined daily doses (DDD) per 1000 inhabitants per day (DDD/1000/day).  ...  In the ‘extensive metabolizer’ phenotype CYP2D6 can be saturated, and thus is a potential site for a number of clinically important pharmacokinetic interactions [2].  ... 

Psychometric properties of stress and anxiety measures among nulliparous women

Carla M. Bann, Corette B. Parker, William A. Grobman, Marian Willinger, Hyagriv N. Simhan, Deborah A. Wing, David M. Haas, Robert M. Silver, Samuel Parry, George R. Saade, Ronald J. Wapner, Michal A. Elovitz (+2 others)
2016 Journal of Psychosomatic Obstetrics and Gynaecology  
Reliable and valid measures are needed for use in clinical settings to identify pregnant women experiencing high levels of stress and anxiety.  ...  and transformations in personal and social identities and in the meanings, values, and priorities they attached to work" (p. 41).  ... 
doi:10.1080/0167482x.2016.1252910 pmid:27830971 pmcid:PMC5555297 fatcat:d5mklnb5ljcz3czivx32zvhwji

ICD-10 Coding of Spanish Electronic Discharge Summaries: An Extreme Classification Problem

Mario Almagro, Raquel Martinez, Victor Fresno, Soto Montalvo
2020 IEEE Access  
Objective: Medical coding is used to identify and standardize clinical concepts in the records collected from healthcare services.  ...  These distribution attributes, along with high lexical variability, severely restrict performance when coded clinical records are used to infer code sets in uncoded records.  ...  Spanish clinical word embeddings have been generated using the fastText approach proposed by Bojanowski et al. [37] .  ... 
doi:10.1109/access.2020.2997241 fatcat:qz4n4pgy6nc4lkxpmkaiymsjku

Transforming Nursing Documentation

Melinda L Jenkins, Avaretta Davis
2019 Studies in Health Technology and Informatics  
Beginning with SOAP and terminology required for billing, students create a clinical note adding elements of the Nursing Minimum Data Set, using Clinical Care Classification terms.  ...  Graduate nursing education is positioned to transform nursing documentation so that it more fully describes nursing assessments, diagnoses, interventions, and outcomes to measure improvements in care.  ...  Procedural Terminology (CPT) coded medical interventions [12] , and E & M codes [7] ), DNP students in the Rutgers IT course are asked to create a clinical note that adds elements of the Nursing Minimum  ... 
doi:10.3233/shti190298 pmid:31437999 fatcat:ciupj5gzcfbndiaub47sn7q2d4

Biomedical and Clinical Language Models for Spanish: On the Benefits of Domain-Specific Pretraining in a Mid-Resource Scenario [article]

Casimiro Pio Carrino, Jordi Armengol-Estapé, Asier Gutiérrez-Fandiño, Joan Llop-Palao, Marc Pàmies, Aitor Gonzalez-Agirre, Marta Villegas
2021 arXiv   pre-print
To the best of our knowledge, we provide the first biomedical and clinical transformer-based pretrained language models for Spanish, intending to boost native Spanish NLP applications in biomedicine.  ...  suitable for real-world clinical data.  ...  Acknowledgements This work was partially funded by the Spanish State Secretariat for Digitalization and Artificial Intelligence (SEDIA) within the framework of the Plan-TL and by Fundació La Marató de  ... 
arXiv:2109.03570v2 fatcat:kxnedqd43ng7hnedtjfdmrgpmm
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