MEDLINE citation tool accuracy: an analysis in two platforms.

Background: Libraries provide access to databases with auto-cite features embedded into the services; however, the accuracy of these auto-cite buttons is not very high in humanities and social sciences databases. Case Presentation: This case compares two biomedical databases, Ovid MEDLINE and PubMed, to see if either is reliable enough to confidently recommend to students for use when writing papers. A total of 60 citations were assessed, 30 citations from each citation generator, based on the top 30 articles in PubMed from 2010 to 2020. Conclusions: Error rates were higher in Ovid MEDLINE than PubMed but neither database platform provided error-free references. The auto-cite tools were not reliable. Zero of the 60 citations examined were 100% correct. Librarians should continue to advise students not to rely solely upon citation generators in these biomedical databases.

An Efficient Parallelized Ontology Network-Based Semantic Similarity Measure for Big Biomedical Document Clustering.

Semantic mining is always a challenge for big biomedical text data. Ontology has been widely proved and used to extract semantic information. However, the process of ontology-based semantic similarity calculation is so complex that it cannot measure the similarity for big text data. To solve this problem, we propose a parallelized semantic similarity measurement method based on Hadoop MapReduce for big text data. At first, we preprocess and extract the semantic features from documents. Then, we calculate the document semantic similarity based on ontology network structure under MapReduce framework. Finally, based on the generated semantic document similarity, document clusters are generated via clustering algorithms. To validate the effectiveness, we use two kinds of open datasets. The experimental results show that the traditional methods can hardly work for more than ten thousand biomedical documents. The proposed method keeps efficient and accurate for big dataset and is of high parallelism and scalability.

A prospective comparison of evidence synthesis search strategies developed with and without text-mining tools.

OBJECTIVE: We compared the process of developing searches with and without using text-mining tools (TMTs) for evidence synthesis products. STUDY DESIGN: This descriptive comparative analysis included seven systematic reviews, classified as simple or complex. Two librarians created MEDLINE strategies for each review, using either usual practice (UP) or TMTs. For each search we calculated sensitivity, number-needed-to-read (NNR) and time spent developing the search strategy. RESULTS: We found UP searches were more sensitive (UP 92% (95% CI, 85-99); TMT 84.9% (95% CI, 74.4-95.4)), with lower NNR (UP 83 (SD 34); TMT 90 (SD 68)). UP librarians spent an average of 12 h (SD 8) developing search strategies, compared to TMT librarians' 5 hours (SD 2). CONCLUSION: Across all reviews, TMT searches were less sensitive than UP searches, but confidence intervals overlapped. For simple SR topics, TMT searches were faster and slightly less sensitive than UP. For complex SR topics, TMT searches were faster and less sensitive than UP searches but identified unique eligible citations not found by the UP searches.

Use and reporting of risk of bias tools in 825 systematic reviews of acupuncture: a cross-sectional study.

OBJECTIVE: To assess the use and reporting of risk of bias (RoB) tools in systematic reviews (SRs) of acupuncture. STUDY DESIGN AND SETTING: We extracted and analyzed information relating to RoB in acupuncture SRs via Medline, Embase and the Chinese CNKI (Chinese National Knowledge Infrastructure), WanFang and VIP databases from their inception to 24 November 2017. Three subgroup analyses were used to check the influence of language, journal type and impact factor, following which we used descriptive analysis. RESULTS: We included 825 acupuncture SRs, of which 48% used the Cochrane RoB tool. Only 36% used the latest version of the Cochrane Handbook (version 5.1.0 at time of writing) with higher proportions among Cochrane SRs (65%) versus non-Cochrane SRs (34%), and high impact factor journals (58%) versus low or no impact factor journals (28% and 38%, respectively). In the last decade, there were notable increases in the use of the Cochrane RoB tool and Cochrane Handbook version 5.1.0, of 43% and 19%, respectively. Chinese-language SRs demonstrated proportionally higher tendencies to report an incorrect Cochrane Handbook version, increasing by 14% in the last 5 years. Additionally, 7% SRs did not report any results, and only 10% reported relatively complete and adequate RoB assessment. Cochrane SRs reported more complete assessments than Chinese-language or non-Cochrane English-language SRs. CONCLUSION: Use and reporting of RoB tools were suboptimal. Proportionally, use of the Cochrane RoB tool and Cochrane Handbook version 5.1.0 was low but rising. Our results highlight the prevalence and concerns of using unsuitable tools and the issue of incomplete RoB reporting. RoB tool application requires further improvement.

Laser procedures in the treatment of BPH: a bibliometric study.

PURPOSE: To perform a bibliometric analysis of lased-based BPH treatment publications and to obtain an understanding of the publication trends over time. MATERIALS AND METHODS: The Medline database was searched for articles in English language regarding laser-based BPH therapy up to 2018. Matching articles were assigned to at least one of the following categories: Ho:YAG, Tm:YAG, green light, diode, Nd:YAG laser and review articles. The laser categories were analysed using bibliometric procedures regarding citation rate, authors, country of origin and journal of publication. Moreover, the articles on laser BPH therapy included in the EAU, AUA and JUA guidelines were analysed to evaluate the most influential articles. RESULTS: In total, 982 articles were included: 317 articles were assigned to green light, 283 to Ho:YAG, 101 to Tm:YAG, 74 to Nd:YAG and 39 to diode lasers. The publication rate for Nd:YAG laser has declined, but continues to grow for Ho:YAG and Tm:YAG lasers. We found a positive correlation between number of authors and year of publication (R = 0.3, p < 0.001*). Articles on Ho:YAG lasers are cited the most (mean 23.0 ± 37.1). Asia has contributed the most articles. Mostly, countries with high health and research and development (R&D) expenditures influenced the guidelines regarding laser-based approaches. Yet, after adjustment of all search results to GDP, health and R&D expenditure, India and China were the most prolific countries. CONCLUSION: Laser-based approaches for BPH treatment are increasing but have not been implemented worldwide. Asia's contribution should be acknowledged. An inflationary trend regarding the number of authors per article is confirmed.

Using Embase as a supplement to PubMed in Cochrane reviews differed across fields.

OBJECTIVE: Medline/PubMed is often first choice for health science researchers when doing literature searches. However, Medline/PubMed does not cover the health science research literature equally well across specialties. Embase is often considered an important supplement to Medline/PubMed in health sciences. The present study analyzes the coverage of Embase as a supplement to PubMed, and the aim of the study is to investigate if searching Embase can compensate for low PubMed retrieval. STUDY DESIGN AND SETTING: The population in this study is all the included studies in all Cochrane reviews from 2012 to 2016 across the 53 Cochrane groups. The analyses were performed using two units of analysis (study and publication). We are examining the coverage in Embase of publications and studies not covered by PubMed (25,119 publications and 9,420 studies). RESULTS: The results showed that using Embase as a supplement to PubMed resulted in a coverage of 66,994 publications out of 86,167 and a coverage rate of 77.7, 95% CI [75.05, 80.45] of all the included publications. Embase combined with PubMed covered 48,326 out of 54,901 studies and thus had a coverage rate of 88.0%, 95% CI [86.2, 89.9] of studies. The results also showed that supplementing PubMed with Embase increased coverage of included publications by 6.8 percentage points, and the coverage of studies increased by 5.5 percentage points. Substantial differences were found across and within review groups over time. CONCLUSION: The included publications and studies in some groups are covered considerably better by supplementing with Embase, whereas in other groups, the difference in coverage is negligible. However, due to the variation over time, one should be careful predicting the benefit from supplementing PubMed with Embase to retrieve relevant publications to include in a review.

Few evaluative studies exist examining rapid review methodology across stages of conduct: a systematic scoping review.

OBJECTIVES: The objective is to identify studies that have assessed methodological shortcuts for undertaking rapid reviews (RRs) and mapping these to review conduct stages and Methodological Expectations of Cochrane Intervention Reviews (MECIR) guidance. STUDY DESIGN AND SETTING: We conducted a systematic scoping review. We searched multiple databases (e.g., MEDLINE, Embase), which were supplemented by grey literature searching. Methods were defined a priori in a published protocol. RESULTS: Out of 1,873 records, 90 publications were divided into four RR categories: formal evaluation (n = 14), development, which included four subcategories (n = 65), comparison (n = 2), and applying reporting guidelines/critical appraisal tools (n = 3), and a systematic review surrogate category (n = 6). Four formal evaluation studies were composite evaluations, including more than one shortcut simultaneously. The remaining 10 studies evaluated viable (e.g., including English-only publications) and unviable (e.g., single-reviewer screening) shortcuts, covering five key dimensions and five 'other' (e.g., involving stakeholders) considerations while conducting a review. Because of complexities around shortcuts evaluated, only a cursory mapping to MECIR criteria was possible. CONCLUSION: Some methods shortcuts may be valid in the context of RRs, but limitations in the studies may limit their applicability. The results will serve to inform discussions within Cochrane regarding possible future implementation of RRs.

Evaluating the research domain and achievement for a productive researcher who published 114 sole-author articles: A bibliometric analysis.

BACKGROUND: Team science research includes authors from various fields collaborating to publish their work on certain topics. Despite the numerous papers that discussed the ordering of author names and the contributions of authors to an article, no paper evaluatedIn addition, few researchers publish academic articles without co-author collaboration. Whether the bibliometric indexes (eg, h-/x-index) of sole-author researchers are higher than those of other types of multiple authors is required for comparison. We aimed to evaluate a productive author who published 114 sole-author articles with exceptional RA and RD in academics. METHODS: By searching the PubMed database (Pubmed.com), we used the keyword of (Taiwan[affiliation]) from 2016 to 2017 and downloaded 29,356 articles. One physician (Dr. Tseng from the field of Internal Medicine) who published 12 articles as a single author was selected. His articles and citations were searched in PubMed. A comparison of various types of author ordering placements was conducted using sensitivity analysis to inspect whether this sole author earns the highest metrics in RA. Social network analysis (SNA), Gini coefficient (GC), pyramid plot, and the Kano diagram were applied to gather the following data for visualization: RESULTS:: We observed that CONCLUSIONS:: The metrics on RA are high for the sole author studied. The author's RD can be denoted by the MeSH terms and measured by the GC. The author-weighted scheme is required for quantifying author credits in an article to evaluate the author's RA. Social network analysis incorporating the Kano diagrams provided insights into the relationships between actors (eg, coauthors, MeSH terms, or journals). The methods used in this study can be replicated to evaluate other productive studies on RA and RD in the future.

A search filter to identify pragmatic trials in MEDLINE was highly specific but lacked sensitivity.

OBJECTIVES: Identifying pragmatic trials from among all randomized trials is challenging because of inconsistent reporting. Our objective was to develop and validate a search filter to identify reports of pragmatic trials from Ovid MEDLINE. STUDY DESIGN AND SETTING: Two sets of known and probable pragmatic trial records were analyzed using text mining to generate candidate terms. Two large population sets comprising clinical trials and explanatory trials were used to select discriminating terms. Various combinations of terms were tested iteratively to achieve optimal search performance. Two externally derived sets were used to validate sensitivity and specificity of the derived filters. RESULTS: Our validated sensitivity-maximizing filter (combines trial design terms with terms relating to attributes of pragmatic trials) retrieves over 42,000 records in MEDLINE and has sensitivity of 46.4% (95% confidence interval (CI) 37.2 to 55.7%) and estimated specificity of 98.1% (95% CI 93.4 to 99.8%). Search performance is superior to other ad hoc filters for pragmatic trials. The Cochrane search for randomized trials has much better sensitivity (98.2%), but poorer specificity (1.9%) and retrieves 4.5 million records. CONCLUSION: A highly specific filter (low false positive rate) with moderate sensitivity is available for identifying reports of trials more likely to be pragmatic.

[Analysis of Argentine scientific production in MEDLINE in the area of hypertension]. / Análisis de la producción científica argentina en MEDLINE en el área hipertensión arterial.

INTRODUCTION: Argentine science has played an important role in the study of blood pressure. However, this scientific production has not been classified. We set out (1) to analyse the contribution of scientific publications indexed in MEDLINE of authors with Argentinean academic affiliation in the field of blood pressure and hypertension in the last 50 years and, (2) determine the characteristics of the scientific journals in which they were published. METHODS: The 831 indexed MEDLINE publications by authors from Argentina were analysed quantitatively and qualitatively (period 1966-2017). RESULTS: The number of publications has increased 5.4 times in the last 20 years. Eighty percent of the publications were original manuscripts and 15% reviews. Sixty-five percent of the publications addressed clinical research, 33% basic research. The average authors per paper was 6 (89% as first author), 74% belonged to public institutions. The research was published in journals published in the United States (36%), the United Kingdom (27%), the Netherlands (12%), Spain (6%) and Argentina (4%). Eighteen percent of the publications were in journals with impact factor >3.88 (first quartile). Only 5% accessed journals with a factor ≥10. The average SJR index was 1.66. CONCLUSIONS: Argentine scientific production in MEDLINE in the field of blood pressure and hypertension showed constant growth. The vast majority is original research, directed by researchers with affiliation to public institutions. Foreign journals are accessed in the main, with acceptable quality indexes.

Ramadan and Health. Bibliometric study of the biomedical literature indexed in «Medline¼ database.

OBJECTIVE: To describe both editorial and thematic profile of biomedical publications related to the theme «Ramadan and Health¼, indexed in «Medline¼ database till December 31th 2018. METHODS: This is a bibliometric study via «Medline¼ database using the following documentation query: «Fasting¼ [Majr] AND («Islam¼ [Majr] OR Ramadan [All Fields]). Data was collected through the «Medline¼ Material Safety Data Sheets from the NLM Library. Publications' themes have been defined by major descriptors (Majr). The generic descriptor corresponded to the Majr word hierarchically superior in the «Medline¼ Mesh descriptor thesaurus. RESULTS: A total of 508 articles were captured, of which 13% were reviews and 5% were randomized controlled trials. These publications were published by 272 journals belonging to 38 countries, and signed by 108 authors in first position and 398 in last position. The number of major descriptors used to index these publications related to «Ramadan and Health¼ was 484. Endocrine System Diseases (Diabetes mellitus) and Human Activities (Exercise) were the main major generic keywords, indexing respectively 28% and 20% of this literature. CONCLUSION: «Ramadan and Health¼ is increasingly, a theme of scientific and biomedical research of great interest worldwide in order to manage health problems, especially diabetes mellitus. Expanding the scope of its applications to other global burden of disease's areas would be useful.

Examination of CIs in health and medical journals from 1976 to 2019: an observational study.

OBJECTIVES: Previous research has shown clear biases in the distribution of published p values, with an excess below the 0.05 threshold due to a combination of p-hacking and publication bias. We aimed to examine the bias for statistical significance using published confidence intervals. DESIGN: Observational study. SETTING: Papers published in Medline since 1976. PARTICIPANTS: Over 968 000 confidence intervals extracted from abstracts and over 350 000 intervals extracted from the full-text. OUTCOME MEASURES: Cumulative distributions of lower and upper confidence interval limits for ratio estimates. RESULTS: We found an excess of statistically significant results with a glut of lower intervals just above one and upper intervals just below 1. These excesses have not improved in recent years. The excesses did not appear in a set of over 100 000 confidence intervals that were not subject to p-hacking or publication bias. CONCLUSIONS: The huge excesses of published confidence intervals that are just below the statistically significant threshold are not statistically plausible. Large improvements in research practice are needed to provide more results that better reflect the truth.

Search results outliers among MEDLINE platforms.

OBJECTIVE: Hypothetically, content in MEDLINE records is consistent across multiple platforms. Though platforms have different interfaces and requirements for query syntax, results should be similar when the syntax is controlled for across the platforms. The authors investigated how search result counts varied when searching records among five MEDLINE platforms. METHODS: We created 29 sets of search queries targeting various metadata fields and operators. Within search sets, we adapted 5 distinct, compatible queries to search 5 MEDLINE platforms (PubMed, ProQuest, EBSCOhost, Web of Science, and Ovid), totaling 145 final queries. The 5 queries were designed to be logically and semantically equivalent and were modified only to match platform syntax requirements. We analyzed the result counts and compared PubMed's MEDLINE result counts to result counts from the other platforms. We identified outliers by measuring the result count deviations using modified z-scores centered around PubMed's MEDLINE results. RESULTS: Web of Science and ProQuest searches were the most likely to deviate from the equivalent PubMed searches. EBSCOhost and Ovid were less likely to deviate from PubMed searches. Ovid's results were the most consistent with PubMed's but appeared to apply an indexing algorithm that resulted in lower retrieval sets among equivalent searches in PubMed. Web of Science exhibited problems with exploding or not exploding Medical Subject Headings (MeSH) terms. CONCLUSION: Platform enhancements among interfaces affect record retrieval and challenge the expectation that MEDLINE platforms should, by default, be treated as MEDLINE. Substantial inconsistencies in search result counts, as demonstrated here, should raise concerns about the impact of platform-specific influences on search results.

Methodology and reporting characteristics of studies using interrupted time series design in healthcare.

BACKGROUND: Randomised controlled trials (RCTs) are considered the gold standard when evaluating the causal effects of healthcare interventions. When RCTs cannot be used (e.g. ethically difficult), the interrupted time series (ITS) design is a possible alternative. ITS is one of the strongest quasi-experimental designs. The aim of this methodological study was to describe how ITS designs were being used, the design characteristics, and reporting in the healthcare setting. METHODS: We searched MEDLINE for reports of ITS designs published in 2015 which had a minimum of two data points collected pre-intervention and one post-intervention. There was no restriction on participants, language of study, or type of outcome. Data were summarised using appropriate summary statistics. RESULTS: One hundred and sixteen studies were included in the study. Interventions evaluated were mainly programs 41 (35%) and policies 32 (28%). Data were usually collected at monthly intervals, 74 (64%). Of the 115 studies that reported an analysis, the most common method was segmented regression (78%), 55% considered autocorrelation, and only seven reported a sample size calculation. Estimation of intervention effects were reported as change in slope (84%) and change in level (70%) and 21% reported long-term change in levels. CONCLUSIONS: This methodological study identified problems in the reporting of design features and results of ITS studies, and highlights the need for future work in the development of formal reporting guidelines and methodological work.

The development of search filters for adverse effects of medical devices in medline and embase.

BACKGROUND: Objectively derived search filters for adverse drug effects and complications in surgery have been developed but not for medical device adverse effects. OBJECTIVE: To develop and validate search filters to retrieve evidence on medical device adverse effects from ovid medline and embase. METHODS: We identified systematic reviews from Epistemonikos and the Health Technology Assessment (hta) database. Included studies within these reviews that reported on medical device adverse effects were randomly divided into three test sets and one validation set of records. Using word frequency analysis from one test set, we constructed a sensitivity maximising search strategy. This strategy was refined using two other test sets, then validated. RESULTS: From 186 systematic reviews which met our inclusion criteria, 1984 unique included studies were available from medline and 1986 from embase. Generic adverse effects searches in medline and embase achieved 84% and 83% sensitivity. Recall was improved to over 90%, however, when specific adverse effects terms were added. CONCLUSION: We have derived and validated novel search filters that retrieve over 80% of records with medical device adverse effects data in medline and embase. The addition of specific adverse effects terms is required to achieve higher levels of sensitivity.

The Interplay of Knowledge Representation with Various Fields of Artificial Intelligence in Medicine.

INTRODUCTION: Artificial intelligence (AI) is widespread in many areas, including medicine. However, it is unclear what exactly AI encompasses. This paper aims to provide an improved understanding of medical AI and its constituent fields, and their interplay with knowledge representation (KR). METHODS: We followed a Wittgensteinian approach ("meaning by usage") applied to content metadata labels, using the Medical Subject Headings (MeSH) thesaurus to classify the field. To understand and characterize medical AI and the role of KR, we analyzed: (1) the proportion of papers in MEDLINE related to KR and various AI fields; (2) the interplay among KR and AI fields and overlaps among the AI fields; (3) interconnectedness of fields; and (4) phrase frequency and collocation based on a corpus of abstracts. RESULTS: Data from over eighty thousand papers showed a steep, six-fold surge in the last 30 years. This growth happened in an escalating and cascading way. A corpus of 246,308 total words containing 21,842 unique words showed several hundred occurrences of notions such as robotics, fuzzy logic, neural networks, machine learning and expert systems in the phrase frequency analysis. Collocation analysis shows that fuzzy logic seems to be the most often collocated notion. Neural networks and machine learning are also used in the conceptual neighborhood of KR. Robotics is more isolated. CONCLUSIONS: Authors note an escalation of published AI studies in medicine. Knowledge representation is one of the smaller areas, but also the most interconnected, and provides a common cognitive layer for other areas.

Global Contributions to Aesthetic Surgery Journal Over the Past Decade.

BACKGROUND: The Aesthetic Surgery Journal (ASJ) is a world-renowned publication with valuable contributions from around the globe. OBJECTIVES: To better characterize the journal's evolving representation of global contributions to aesthetic surgery, the authors examined the author affiliations of all articles published in ASJ over the last decade. METHODS: A PubMed search was performed for all journal articles published in ASJ from January 2008 to August 2018. For each article, the first author's primary affiliation as indexed in MEDLINE was recorded as the source country. Data were tabulated by source country and year. The authorless errata, corrigenda, and Cosmetic Surgery National Data Bank Statistics were excluded from analysis. RESULTS: A total of 1746 articles were published during this period, contributed from 49 distinct countries. All continents other than Antarctica were represented. Higher income countries where aesthetic surgery is more prevalent produced 87% of published articles. The total number of published articles in ASJ has climbed from 77 annually in 2008 to 318 in 2018 as of August. In 2008, 27.3% of articles were from non-US countries, whereas in 2018 this increased to 43.7%. In particular, Turkey, the United Kingdom, Australia, Brazil, and Italy demonstrate steady increases in contributions over the 10-year period. CONCLUSIONS: Publications in ASJ have increased in number over the past decade, and the journal has become increasingly global in its network of contributing authors. The increased global contribution to the ASJ may enhance readers' experience both in the United States and in the world beyond.

O plágio na produção científica na área da saúde: uma revisão da literatura / Plagiarism in scientific production in the health area: a literature review

A presente pesquisa é de natureza bibliográfica, compreendida como uma revisão sistemática da literatura. Tem como questão principal: "Qual é o estado da arte no que tange a temática do plágio na produção científica da área da saúde no Brasil?". Considera que o plágio, apesar de se agravar na era da informação, existe há muito tempo e que este, quando se prolifera no fazer científico, nas publicações e passa despercebido por avaliadores, acarreta prejuízos financeiros, ético-morais e desprestígio da ciência. Uma forma de verificar como estão avançando as discussões e observar a apropriação desse tema pela comunidade científica brasileira dá-se mediante a apreciação de artigos sobre plágio publicados nos periódicos indexados em bases de dados. Este trabalho objetivou delinear o cenário da produção científica acerca do plágio na área da saúde a partir de artigos indexados em periódicos científicos brasileiros entre os anos de 2010 a 2015. A revisão sistemática da literatura foi realizada nos bancos de dados eletrônicos LILACS, MEDLINE e ColecionaSUS, utilizando-se palavra-chave para capturar os artigos. Após aplicação dos critérios de inclusão e exclusão, foram selecionadas 14 publicações. Verificou-se que a discussão sobre o plágio é ainda incipiente no Brasil. O plágio é visto como um assunto complexo que necessita de enfrentamento, com ações educativas desde a formação inicial, com corresponsabilização da sociedade e pesquisadores. Verificou-se que ainda há lacunas na produção científica brasileira.

This is a bibliographic research, understood as a systematic literature review. It attempts to answer the main question: "What is the state of the art regarding the topic of plagiarism in the scientific production in the health area in Brazil?". It considers that plagiarism, although worsened in the information age, has existed for a long time. And when it proliferates in the scientific work and publications, going unnoticed by evaluators, results in financial losses, damaging both ethical and moral prestige of the sciences. One way to check the advancement in the discussions and observe the appropriation of this issue by the Brazilian scientific community is through the appreciation of articles regarding plagiarism published in database-indexed journals. This study aimed to outline the scientific production scenario regarding plagiarism in health from articles indexed in Brazilian scientific journals between 2010 and 2015. A systematic literature review was conducted in the electronic databases LILACS, MEDLINE and ColecionaSUS using keyword to capture the articles. After the application of inclusion and exclusion criteria, a total of 14 publications were selected. It could be observed that the discussion regarding plagiarism is still incipient in Brazil. Plagiarism is seen as a complex issue that requires actions to be taken, including educational activities from the initial training, with co-responsibility of the society and researchers. It was also observed that gaps still exist in the Brazilian scientific production.