Research progress on medical image dataset expansion methods / 生物医学工程学杂志

Computer-aided diagnosis (CAD) systems play a very important role in modern medical diagnosis and treatment systems, but their performance is limited by training samples. However, the training samples are affected by factors such as imaging cost, labeling cost and involving patient privacy, resulting in insufficient diversity of training images and difficulty in data obtaining. Therefore, how to efficiently and cost-effectively augment existing medical image datasets has become a research hotspot. In this paper, the research progress on medical image dataset expansion methods is reviewed based on relevant literatures at home and abroad. First, the expansion methods based on geometric transformation and generative adversarial networks are compared and analyzed, and then improvement of the augmentation methods based on generative adversarial networks are emphasized. Finally, some urgent problems in the field of medical image dataset expansion are discussed and the future development trend is prospected.

Conjunto mínimo de dados e o vírus da imunodeficiência humana / Minimum data set and human immunodeficiency virus / Conjunto mínimo de satos y el virus de inmunodeficiencia humana

Objetivo: Investigar dados dos sistemas de informação em saúde do HIV e sua relação com o conjunto mínimo de dados da atenção à saúde (CMD) brasileiro. Métodos: Realizou-se estudo descritivo e transversal em janeiro/2019, a partir dos dados coletados nos formulários dos sistemas que registram o tratamento antirretroviral e exames laboratoriais. Resultados: Foram analisados 282 campos dos formulários. Após agregação dos campos comuns, restaram 83 variáveis, 17 (20,5%) consideradas aplicáveis ao CMD. Conclusão: O CMD coleta dados sobre consultas e exames de seguimento dos contatos assistenciais do HIV, porém não registra tratamento antirretroviral. A maioria das variáveis coletadas nos sistemas do HIV poderão compor o modelo de informação clínica do HIV para Registro Eletrônico de Saúde.

Objective: It was to investigate data of the health information systems of HIV and its relationship with Brazilian minimum data set of health care (MDS). Methods: A descriptive and cross-sectional study was carried out in January/2019, based on data collected in the forms of the systems that register the antiretroviral treatment and laboratory tests. Results: Were analyze 282 fields of the forms, after aggregation of the common ones, 83 variables remained, 17 (20.5%) considered applicable to MDS. Conclusion: The MDS collects data on consultations and follow-up examinations of HIV care, does not register antiretroviral treatment. Most of the variables collected in HIV systems may be part of the HIV clinical information model for the Electronic Health Record.

Objetivo: Investigar datos de los sistemas de información en salud del VIH y su relación con el conjunto mínimo de datos de la atención a la salud (CMD) brasileño. Métodos: Se realizó estudio descriptivo y transversal en enero/2019, a partir de los formularios de los sistemas del tratamiento antirretroviral y exámenes de laboratorio. Resultados: Se analizaron 282 campos de los formularios, después de la agregación de los comunes, quedaron 83 variables, 17 (20,5%) consideradas aplicables al CMD. Conclusión: El CMD recoge datos sobre consultas y exámenes de seguimiento de la asistencia del VIH, no registra tratamiento antirretroviral. La mayoría de las variables del VIH podrán componer modelo de información clínica del Registro Electrónico de Salud.

Injury surveillance information system: A review of the system requirements / 中华创伤杂志(英文版)

PURPOSE@#An injury surveillance information system (ISIS) collects, analyzes, and distributes data on injuries to promote health care delivery. The present study aimed to review the data elements and functional requirements of this system.@*METHOD@#This study was conducted in 2019. Studies related to injury surveillance system were searched from January 2000 to September 2019 via the databases of PubMed, Web of Knowledge, ScienceDirect, and Scopus. Articles related to the epidemiology of injury, population survey, and letters to the editor were excluded, while the review and research articles related to ISISs were included in the study. Initially 324 articles were identified, and finally 22 studies were selected for review. Having reviewed the articles, the data needed were extracted and the results were synthesized narratively.@*RESULTS@#The results showed that most of the systems reviewed in this study used the minimum data set suggested by the World Health Organization injury surveillance guidelines along with supplementary data. The main functions considered for the system were injury track, data analysis, report, data linkage, electronic monitoring and data dissemination.@*CONCLUSION@#ISISs can help to improve healthcare planning and injury prevention. Since different countries have various technical and organizational infrastructures, it is essential to identify system requirements in different settings.

Características da produção científica sobre o trabalho infantil na América Latina / Características de la producción científica sobre el trabajo infantil en Latinoamérica / Characteristics of research on child labor in Latin America

O presente estudo analisou as características da produção científica sobre trabalho infantil na América Latina, de 2004 a 2014. Foram encontrados 114 trabalhos, nas bases de dados LILACS e SciELO. Os artigos foram categorizados com base nos conceitos de campo e agentes sociais de Pierre Bourdieu, destacando os produtores, os locais de publicação, os objetos e discursos. Observou-se um crescimento da produção no período, especificamente a partir de 2006. O Brasil ocupou a posição dominante na produção científica com 80,7% do total, seguido da Colômbia, Argentina e México. Os objetos de estudo são majoritariamente de abordagem qualitativa (55,3%) e metade dos artigos está indexada em revistas Qualis B1 ou superior. Apenas 14,9% das pesquisas, no entanto, receberam financiamento. Os produtores são de origens diversas, com a participação de psicólogos (26,3%), enfermeiros (17,5%) e economistas (13,2%). Os estudos estão situados em subáreas das Ciências Humanas, constituídas pelos discursos da Psicologia Social e do Desenvolvimento; Ciências da Saúde com destaque para os estudos epidemiológicos, pautados nos conceitos da enfermagem do trabalho e na subárea de Ciências Sociais Aplicadas com os estudos econômicos. Observou-se que os objetos de estudos relacionados ao trabalho infantil focam seu interesse na relação deste com a saúde, a educação, o trabalho e a assistência social, com pouca interdisciplinaridade nas publicações.

Este estudio analizó las características de la producción científica sobre el trabajo infantil en Latinoamérica desde 2004 hasta 2014. Se encontraron 114 trabajos en las bases de datos LILACS y SciELO. Se categorizaron los artículos a partir de los conceptos de campo y agentes sociales de Pierre Bourdieu, destacando productores, lugares de publicación, objetos y discursos. Se observó un crecimiento de la producción en este período, específicamente a partir de 2006. Brasil ocupó la posición dominante en la producción científica con un 80,7% de la producción, seguido de Colombia, Argentina y México. Los objetos de estudio son mayoritariamente de abordaje cualitativo (55,3%) y la mitad de los artículos están indexados en revistas Qualis B1 o superiores. No obstante, solamente un 14,9% de las investigaciones recibieron financiación. Los productores tienen orígenes diversos, hay psicólogos (26,3%), enfermeros (17,5%) y economistas (13,2%). Los estudios están situados en las subáreas de las Ciencias Humanas, constituidas por los discursos de la Psicología Social y del Desarrollo; Ciencias de la Salud con énfasis en estudios epidemiológicos, según conceptos de enfermería laboral y dentro de la subárea de las Ciencias Sociales Aplicadas con estudios económicos. Se observó que los objetos de estudio relacionados con el trabajo infantil enfocan su interés en la relación de éste último con la salud, la educación, el trabajo y la asistencia social, con poca interdisciplinaridad en las publicaciones.

The current study analyzed the characteristics of research on child labor in Latin America from 2004 to 2014. A total of 114 studies were identified in the LILACS and SciELO databases. The articles were categorized according to the concepts of field and social agents, as in Pierre Bourdieu, highlighting the authors, places of publication, objects, and discourses. An increase was observed in the research output during this period, specifically since 2006. Brazil held a dominant position in the research with 80.7% of the total publications, followed by Colombia, Argentina, and Mexico. The objects of study are mostly qualitative approaches (55.3%), and half of the articles are indexed in Qualis B1 journals or higher. However, only 14.9% of the studies had received funding. The authors have various backgrounds, featuring participation by psychologists (26.3%), nurses (17.5%), and economists (13.2%). The studies are situated in subareas of the Human Sciences, consisting of the discourses of Social and Developmental Psychology; Health Sciences, featuring epidemiological studies, based on concepts from occupational health nursing; and the subarea of Applied Social Sciences with studies in economics. The objects of studies on child labor focus their interest on its relationship to health, education, work, and social assistance, with little interdisciplinarity in the publications.

Analysis of influencing factors of severity in acute pancreatitis using big data mining

SUMMARY OBJECTIVES To evaluate the epidemiological characteristics of acute pancreatitis (AP) and explore potential relationships between these factors and severity. METHODOLOGY Data-sets of 5,659 patients with AP from health statistics and the Information Center of Jiangsu province, between 2014 and 2016, were analyzed. A self-organizing map (SOM) neural network was used for data clustering. RESULTS Biliary acute pancreatitis (BAP) (86.7%) was the most frequent etiological factor. A total of 804 (14.2%) patients had severe acute pancreatitis (SAP). The mean age of patients was 53.7 + 17.3 (range 12~94y). Most of the AP patients were married (75.4%); 6% of mild /moderately severe AP (MAP/MASP) patients were unmarried, which was less than SAP patients (P=0.016). AP patients with blood type AB in the general population (8.8%) was significantly lower than that of AP cases (13.9%) (P=0.019) and SAP cases(18.7%) (P=0.007). The number of AP patients in southern Jiangsu was much higher than that in northern Jiangsu province, especially in Nanjing (1229, 21.7%). The proportion of acute alcoholic pancreatitis (AAP) in the north of Jiangsu (Xuzhou 18.4%) was much higher than that in southern Jiangsu (Suzhou 2.6%). The whole sample was divided into five classes by SOM neural network. If BAP patients were male, old, divorced, and blood type AB or B, they were more likely to develop SAP. Middle-age, unmarried or divorced male patients with blood type B/AB who suffered from HAP or AAP were also more likely to develop SAP. CONCLUSIONS The number of unmarried patients with MAP/MASP was smaller than that of SAP. Blood types AB and B were more frequent in AP, especially in SAP. The differences between southern Jiangsu and northern Jiangsu, in number of AP patients and the proportion of AAP, were significant. In class I and class IV, the ratio of SAP was much higher than in other classes and the whole sample.

Identification of key genes and miRNAs markers of papillary thyroid cancer

OBJECTIVE: In this study, crucial genes and microRNAs (miRNAs) associated with the progression, staging, and prognosis of papillary thyroid cancer (PTC) were identified. METHODS: Four PTC datasets, including our own mRNA-sequencing (mRNA-seq) dataset and three public datasets downloaded from Gene Expression Omnibus and The Cancer Genome Atlas, were used to analyze differentially expressed genes (DEGs) and miRNAs (DEMs) between PTC tumor tissues and paired normal tissues (control). Gene ontology (GO) terms and pathways associated with these DEGs were identified, and protein-protein interactions (PPIs) were analyzed. Additionally, an miRNA-mRNA regulatory network was constructed and the functions of DEMs were explored. Finally, miRNAs/mRNAs associated with tumor staging and prognosis were identified. The expression levels of several key genes and miRNAs were validated by qRT-PCR. RESULTS: Numerous DEGs and DEMs were identified between tumor and control groups in four datasets. The DEGs were significantly enriched in cell adhesion and cancer-related GO terms and pathways. In the constructed PPI network, ITGA2, FN1, ICAM1, TIMP1 and CDH2 were hub proteins. In the miRNA-mRNA negative regulatory networks, miR-204-5p regulated the largest number of target genes, such as TNFRSF12A. miR-146b, miR-204, miR-7-2, and FN1 were associated with tumor stage in PTC, and TNFRSF12A and CLDN1 were related to prognosis. CONCLUSIONS: Our results suggested the important roles of ITGA2, FN1, ICAM1, TIMP1 and CDH2 in the progression of PTC. miR-204-5p, miR-7-2, and miR-146b are potential biomarkers for PTC staging and FN1, CLDN1, and TNFRSF12A may serve as markers of prognosis in PTC.

Data Sharing Statements for Clinical Trials: a Requirement of the International Committee of Medical Journal Editors / Declaración sobre compartir datos: un requerimiento del Comité Internacional de Editores de Revistas Médicas

El Comité Internacional de Editores de Revista Médicas (ICMJE) ha tomado la posición que el compartir los datos generados por los ensayos clínicos es una obligación ética, por cuanto los participantes en esos estudios se colocaron en riesgo al aceptar su inclusión. En esta editorial el ICMJE expresa que requerirá desde Julio 2018 que los manuscritos enviados a sus revistas deben incluir una declaración sobre compartir datos. A su vez, los ensayos clínicos que comiencen a enrolar pacientes a partir de Enero 2019, deben incluir un plan sobre compartir datos en el registro de tales ensayos. Se dan en esta declaración cuatro ejemplos de declaraciones sobre compartir datos, referidos a qué datos se compartirán, cuándo estarán disponibles y qué criterios de acceso se establecerán. El ICMJE visualiza un futuro cercano en el cual el compartir los datos será la norma, con el fin de maximizar el conocimiento ganado por los esfuerzos y sacrificios de los participantes.

Data Sharing: A New Editorial Initiative of the International Committee of Medical Journal Editors. Implications for the Editors´ Network / Compartilhamento de dados: Nova Iniciativa Editorial do Comitê Internacional de Editores de Revistas Médicas. Implicações para a Rede de Editores

Abstract The International Committee of Medical Journal Editors (ICMJE) provides recommendations to improve the editorial standards and scientific quality of biomedical journals. These recommendations range from uniform technical requirements to more complex and elusive editorial issues including ethical aspects of the scientific process. Recently, registration of clinical trials, conflicts of interest disclosure, and new criteria for authorship - emphasizing the importance of responsibility and accountability-, have been proposed. Last year, a new editorial initiative to foster sharing of clinical trial data was launched. This review discusses this novel initiative with the aim of increasing awareness among readers, investigators, authors and editors belonging to the Editors´ Network of the European Society of Cardiology.

Resumo O Comitê Internacional de Editores de Revistas Médicas (ICMJE) fornece recomendações para aprimorar o padrão editorial e a qualidade científica das revistas biomédicas. Tais recomendações variam desde requisitos técnicos de uniformização até assuntos editoriais mais complexos e elusivos, como os aspectos éticos do processo científico. Recentemente, foram propostos registro de ensaios clínicos, divulgação de conflitos de interesse e novos critérios de autoria, enfatizando a importância da responsabilidade e da responsabilização. No último ano, lançou-se uma nova iniciativa editorial para fomentar o compartilhamento dos dados de ensaios clínicos. Esta revisão discute essa nova iniciativa visando a aumentar a conscientização de leitores, investigadores, autores e editores filiados à Rede de Editores da Sociedade Europeia de Cardiologia.

Does Plan B work? Home range estimations from stored on board and transmitted data sets produced by GPS-telemetry in the Colombian Amazon / ¿Funciona el plan B? Estimación de rango de hogar a partir de datos almacenados en instrumentos a bordo de animales y los obtenidos a partir de telemetría satelital de GPS en el Amazonas colombiano

Abstract:Telemetry based on Global Positioning Systems (GPS) makes possible to gather large quantities of information in a very fine scale and work with species that were impossible to study in the past. When working with GPS telemetry, the option of storing data on board could be more desirable than the sole satellite transmitted data, due to the increase in the amount of locations available for analysis. Nonetheless, the uncertainty in the retrieving of the collar unit makes satellite-transmitted technologies something to take into account. Therefore, differences between store-on-board (SoB) and satellite-transmitted (IT) data sets need to be considered. Differences between SoB and IT data collected from two lowland tapirs (Tapirus terrestris), were explored by means of the calculation of home range areas by three different methods: the Minimum Convex Polygon (MCP), the Fixed Kernel Density Estimator (KDE) and the Brownian Bridges (BB). Results showed that SoB and IT data sets for the same individual were similar, with fix ranging from 63 % to 85 % respectively, and 16 m to 17 m horizontal errors. Depending on the total number of locations available for each individual, the home ranges estimated showed differences between 2.7 % and 79.3 %, for the 50 % probability contour and between 9.9 % and 61.8 % for the 95 % probability contour. These differences imply variations in the spatial coincidence of the estimated home ranges. We concluded that the use of IT data is not a good option for the estimation of home range areas if the collar settings have not been designed specifically for this use. Nonetheless, geographical representations of the IT based estimators could be of great help to identify areas of use, besides its assistance to locate the collar for its retrieval at the end of the field season and as a proximate backup when collars disappear. Rev. Biol. Trop. 64 (4): 1441-1450. Epub 2016 December 01.

Resumen:La telemetría basada en los sistemas de geopocisionamiento global (GPS) hace posible recopilar gran cantidad de información a escalas muy finas, y trabajar con especies imposibles de estudiar en el pasado. Al trabajar con telemetría de GPS, la opción de guardar información en la memoria interna del instrumento puede ser más deseable que sólo tener acceso a la información enviada vía satélite, debido a la mayor cantidad de localizaciones disponibles para analizar. No obstante, la incertidumbre de recuperar el collar hace que las tecnología de trasmisión vía satélite deba ser tenida en cuenta. Diferencias entre las bases de datos almacenadas en el collar (SoB) y las trasmitidas vía satélite (IT), recolectadas de dos individuos de Tapir de tierras bajas (Tapirus terrestris), son consideradas, en términos de las áreas de los rangos de hogar calculados con cada uno y mediante el uso de tres metodologías diferentes: Mínimo Polígono Convexo (MCP), Estimador de Densidad de Kernel Fijo (KDE) y los Puentes Brownianos (BB). Las bases de datos SoB e IT son similares, con tasas de acierto de localizaciones que oscilan entre 63 % to 85 % y errores horizontales de 16 m y 17 m respectivamente. Dependiendo del número total de localizaciones disponibles para cada individuo, los rangos de hogar estimados muestran diferencias entre 2.7 % y 79.3 %, para el contorno del 50 % de probabilidades, y entre 9.9 % y 61.8 % para el contorno del 95 % de probabilidades. Estas diferencias implican variaciones en la coincidencia espacial de los rangos de hogar estimados. Concluimos que el uso de la información trasmitida vía satélite no es una buena opción para la estimación de rangos de hogar, si la programción de los collares no ha sido diseñada específicamente para tal fin. Sin embargo, las representaciones geográficas de los estimados a partir de las bases de datos IT pueden ser de gran ayuda para la identificación de áreas de uso, además de su utilidad para la localización y recuperación de collares tras su liberación de los individuos monitoreados y como una base de datos de soporte en caso de pérdida del collar.

Quality of life of people living with HIV/AIDS treated by the specialized service in Vitória-ES, Brazil / Qualidade de vida de pessoas que vivem com HIV/AIDS assistidas no serviço especializado em Vitória (ES), Brasil

The aim of this study is to establish the factors that influence the quality of life of people living with HIV/AIDS being treated at a specialized public service. The participants answered the questionnaire on sociodemographic conditions, issues related to HIV and daily habits. The quality of life was analyzed using the HIV/AIDS-targeted quality of life (HAT-QoL) instrument with 42 items divided into 9 fields: General Activity, Sexual Activity, Confidentiality Concerns, Health Concerns, Financial Concerns, HIV Awareness, Satisfaction with Life, Issues related to Medication and Trust in the Physician. Bivariate and multiple linear regressions were performed. Of the participants, 53.1% were women and had a mean age of 42 years. In analyzing the quality of life, the HAT-QoL domain with the lowest average was Financial Concerns (39.4), followed by Confidentiality Concerns (43.2), Sexual Activity (55.2) and Health Concerns (62. 88). There was an association between the variables: not being gainfully employed (p < 0.001), being mulatto or black (p = 0.045) and alcohol consumption (p = 0.041) with the worst quality of life scores. Inadequate socioeconomic and health conditions had a negative impact on the quality of life of people with HIV/AIDS.

O objetivo do presente estudo é verificar os fatores que influenciam na qualidade de vida das pessoas que vivem com HIV/AIDS assistidas no serviço especializado. Os entrevistados responderam os questionários sobre condições sociodemográficas, aspectos relacionados ao HIV e hábitos. A qualidade de vida foi analisada por meio do instrumento HAT-QoL, com 42 itens divididos em nove domínios: Atividade Geral, Atividade Sexual, Preocupações com Sigilo, Preocupação com a Saúde, Preocupação Financeira, Conscientização sobre o HIV, Satisfação com a Vida, Questões relativas à medicação e Confiança no médico. Análises bivariadas e regressão linear múltipla foram realizadas. Dos entrevistados, 53,1% eram mulheres e tinham média de idade de 42 anos. Na análise da qualidade de vida, o domínio do HAT-QoL com menor média foi Preocupação financeira (39,4), seguido de Preocupação com sigilo (43,2), Atividades sexuais (55,2) e Preocupação com a saúde (62,88). Houve associação entre as variáveis não ter vínculo trabalhista (p < 0,001), ser pardo ou negro (p = 0,045) e consumir bebida alcoólica (p = 0,041), com piores escores da qualidade de vida. Condições socioeconômicas e de saúde inadequadas apresentaram impacto negativo na qualidade de vida das pessoas com HIV/AIDS.

A possible role of Drosophila CTCF in mitotic bookmarking and maintaining chromatin domains during the cell cycle

BACKGROUND: The CCCTC-binding factor (CTCF) is a highly conserved insulator protein that plays various roles in many cellular processes. CTCF is one of the main architecture proteins in higher eukaryotes, and in combination with other architecture proteins and regulators, also shapes the three-dimensional organization of a genome. Experiments show CTCF partially remains associated with chromatin during mitosis. However, the role of CTCF in the maintenance and propagation of genome architectures throughout the cell cycle remains elusive. RESULTS: We performed a comprehensive bioinformatics analysis on public datasets of Drosophila CTCF (dCTCF). We characterized dCTCF-binding sites according to their occupancy status during the cell cycle, and identified three classes: interphase-mitosis-common (IM), interphase-only (IO) and mitosis-only (MO) sites. Integrated function analysis showed dCTCF-binding sites of different classes might be involved in different biological processes, and IM sites were more conserved and more intensely bound. dCTCF-binding sites of the same class preferentially localized closer to each other, and were highly enriched at chromatin syntenic and topologically associating domains boundaries. CONCLUSIONS: Our results revealed different functions of dCTCF during the cell cycle and suggested that dCTCF might contribute to the establishment of the three-dimensional architecture of the Drosophila genome by maintaining local chromatin compartments throughout the whole cell cycle.

Quality and completeness of data documentation in an investigator-initiated trial versus an industry-sponsored trial.

Literature on the quality and completeness of data and documentation in investigator-initiated research studies is scarce. We carried out a study to compare the quality of data and documentation in an investigator-initiated trial (IIT) with those in an industry-sponsored study. We retrospectively studied the archived data pertaining to 42 patients enrolled in two trials, 14 patients in an industry-sponsored study and 28 randomly selected patients from an IIT. Trial-related documents were examined and scored for the completeness of the acquisition of data and for storage as per a pre-formulated checklist. Weighted scores were given for each point on the checklist proportional to its relative importance in the data documentation process. A global score and sub-scores for specific modules were given for each subject. The scores in the two studies were compared using the Mann Whitney U test. The total score for general documents was similar in the IIT (14/14, 100%) and the sponsored study (24/25, 96%). The mean summary global score obtained for study-specific documents (maximum possible score, 32) in the IIT (27.1; 95% CI 26.4-27.8) was also not significantly different from that in the sponsored study (27.9; 95% CI 26.7-29.1; p=0.1291). Thus, investigatorinitiated studies carried out by independent researchers in highvolume academic centres, even without active data monitoring and formal audits, appear to adhere to the high standards laid out in the International Conference on Harmonisation-Good Clinical Practices guidelines, ensuring accuracy and completeness in data documentation and archival.