bims-librar Biomed News
on Biomedical librarianship
Issue of 2019‒08‒18
nineteen papers selected by
Thomas Krichel
Open Library Society


  1. BMC Bioinformatics. 2019 Aug 16. 20(1): 429
    Ševa J, Wiegandt DL, Götze J, Lamping M, Rieke D, Schäfer R, Jähnichen P, Kittner M, Pallarz S, Starlinger J, Keilholz U, Leser U.
      BACKGROUND: Diagnosis and treatment decisions in cancer increasingly depend on a detailed analysis of the mutational status of a patient's genome. This analysis relies on previously published information regarding the association of variations to disease progression and possible interventions. Clinicians to a large degree use biomedical search engines to obtain such information; however, the vast majority of scientific publications focus on basic science and have no direct clinical impact. We develop the Variant-Information Search Tool (VIST), a search engine designed for the targeted search of clinically relevant publications given an oncological mutation profile.RESULTS: VIST indexes all PubMed abstracts and content from ClinicalTrials.gov. It applies advanced text mining to identify mentions of genes, variants and drugs and uses machine learning based scoring to judge the clinical relevance of indexed abstracts. Its functionality is available through a fast and intuitive web interface. We perform several evaluations, showing that VIST's ranking is superior to that of PubMed or a pure vector space model with regard to the clinical relevance of a document's content.
    CONCLUSION: Different user groups search repositories of scientific publications with different intentions. This diversity is not adequately reflected in the standard search engines, often leading to poor performance in specialized settings. We develop a search engine for the specific case of finding documents that are clinically relevant in the course of cancer treatment. We believe that the architecture of our engine, heavily relying on machine learning algorithms, can also act as a blueprint for search engines in other, equally specific domains. VIST is freely available at https://vist.informatik.hu-berlin.de/.
    Keywords:  Biomedical information retrieval; Clinical relevance; Document classification; Document retrieval; Document triage; Personalized oncology
    DOI:  https://doi.org/10.1186/s12859-019-2958-3
  2. PLoS One. 2019 ;14(8): e0220648
    Balogh SG, Zagyva D, Pollner P, Palla G.
      Hierarchical organisation is a prevalent feature of many complex networks appearing in nature and society. A relating interesting, yet less studied question is how does a hierarchical network evolve over time? Here we take a data driven approach and examine the time evolution of the network between the Medical Subject Headings (MeSH) provided by the National Center for Biotechnology Information (NCBI, part of the U. S. National Library of Medicine). The network between the MeSH terms is organised into 16 different, yearly updated hierarchies such as "Anatomy", "Diseases", "Chemicals and Drugs", etc. The natural representation of these hierarchies is given by directed acyclic graphs, composed of links pointing from nodes higher in the hierarchy towards nodes in lower levels. Due to the yearly updates, the structure of these networks is subject to constant evolution: new MeSH terms can appear, terms becoming obsolete can be deleted or be merged with other terms, and also already existing parts of the network may be rewired. We examine various statistical properties of the time evolution, with a special focus on the attachment and detachment mechanisms of the links, and find a few general features that are characteristic for all MeSH hierarchies. According to the results, the hierarchies investigated display an interesting interplay between non-uniform preference with respect to multiple different topological and hierarchical properties.
    DOI:  https://doi.org/10.1371/journal.pone.0220648
  3. Adv Med Educ Pract. 2019 ;10 461-467
    Nzabonimana E, Isyagi MM, Njunwa KJ, Hackley DM, Razzaque MS.
      Purpose: This study was conducted to determine the level of knowledge, attitude, and practice of oral health care providers toward the use of online medical databases for clinical decision-making processes. Subjects and methods: The study population included all the licensed oral health care providers living in Rwanda, registered either with the Rwanda Allied Health Professional Council (RAHPC) or Rwanda Medical and Dental Council (RMDC). A self-administered questionnaire was used to collect demographic data as well as data regarding knowledge, attitude, and practice of oral health care providers regarding the use of online medical databases for making clinical decisions. A pilot study with 12 oral health care providers was done before the main study to pretest the questionnaire. Results: The study results show that among the 201 respondents, 80% (N=160) reported using internet-based resources to support their clinical decisions, while 20% (N=41) of oral health care providers do not use online resources when making their clinical decisions. In general, there was a positive attitude towards internet-based resources among the participants, as 92% (N=184) respondents believe that internet-based resources are helpful in clinical decision-making processes. Of clinical importance, 68% respondents (N=136) believe that by using current internet-based information, better clinical care can be offered to their patients. Conclusion: Educating oral health care providers on the useful and appropriate online resources available for supporting clinical decision-making processes might increase the efficiency of patient care.
    Keywords:  awareness; clinical resources; internet access; oral health
    DOI:  https://doi.org/10.2147/AMEP.S146451
  4. J Nurs Manag. 2019 Aug 16.
    Gauthier R, Andersen E, Reid C, Taylor D.
      AIM: To explore the information seeking patterns of care aides who work in nursing homes.BACKGROUND: Under the direction and supervision of nursing professionals, care aides provide the majority of direct care to nursing home residents. Understanding how, why, when and where they seek information to perform their duties is important for managers, policy makers and stakeholders.
    METHOD: Semi-structured interviews with eight care aides employed in three Canadian nursing homes were analyzed using the Braun and Clarke method of Thematic Analysis.
    RESULTS: Eight prominent information seeking patterns emerged.
    CONCLUSIONS: Care aides were motivated to seek information for personal and job-based reasons that included wanting to avoid mistakes and preparing physically, mentally and emotionally for the work ahead. They described depending on a social hierarchy of verbal information and using personal time (before/after work) to seek the information they needed. Due to time constraints they relied on established patterns, accessed online information once-a-day at most, and preferred paper-based sources.
    IMPLICATIONS FOR NURSING MANAGEMENT: Programs to enhance care aide communication skills and shift care aide self-identities to include the role of information seekers are recommended. Time for formal information seeking during working hours should be provided. This article is protected by copyright. All rights reserved.
    Keywords:  Thematic Analysis; care aides; information; information seeking; nursing homes
    DOI:  https://doi.org/10.1111/jonm.12840
  5. J Med Internet Res. 2019 Aug 15. 21(8): e12610
    Pérez-Pérez M, Pérez-Rodríguez G, Fdez-Riverola F, Lourenço A.
      BACKGROUND: Nowadays, the use of social media is part of daily life, with more and more people, including governments and health organizations, using at least one platform regularly. Social media enables users to interact among large groups of people that share the same interests and suffer the same afflictions. Notably, these channels promote the ability to find and share information about health and medical conditions.OBJECTIVE: This study aimed to characterize the bowel disease (BD) community on Twitter, in particular how patients understand, discuss, feel, and react to the condition. The main questions were as follows: Which are the main communities and most influential users?; Where are the main content providers from?; What are the key biomedical and scientific topics under discussion? How are topics interrelated in patient communications?; How do external events influence user activity?; What kind of external sources of information are being promoted?
    METHODS: To answer these questions, a dataset of tweets containing terms related to BD conditions was collected from February to August 2018, accounting for a total of 24,634 tweets from 13,295 different users. Tweet preprocessing entailed the extraction of textual contents, hyperlinks, hashtags, time, location, and user information. Missing and incomplete information about the user profiles was completed using different analysis techniques. Semantic tweet topic analysis was supported by a lexicon-based entity recognizer. Furthermore, sentiment analysis enabled a closer look into the opinions expressed in the tweets, namely, gaining a deeper understanding of patients' feelings and experiences.
    RESULTS: Health organizations received most of the communication, whereas BD patients and experts in bowel conditions and nutrition were among those tweeting the most. In general, the BD community was mainly discussing symptoms, BD-related diseases, and diet-based treatments. Diarrhea and constipation were the most commonly mentioned symptoms, and cancer, anxiety disorder, depression, and chronic inflammations were frequently part of BD-related tweets. Most patient tweets discussed the bad side of BD conditions and other related conditions, namely, depression, diarrhea, and fibromyalgia. In turn, gluten-free diets and probiotic supplements were often mentioned in patient tweets expressing positive emotions. However, for the most part, tweets containing mentions to foods and diets showed a similar distribution of negative and positive sentiments because the effects of certain food components (eg, fiber, iron, and magnesium) were perceived differently, depending on the state of the disease and other personal conditions of the patients. The benefits of medical cannabis for the treatment of different chronic diseases were also highlighted.
    CONCLUSIONS: This study evidences that Twitter is becoming an influential space for conversation about bowel conditions, namely, patient opinions about associated symptoms and treatments. So, further qualitative and quantitative content analyses hold the potential to support decision making among health-related stakeholders, including the planning of awareness campaigns.
    Keywords:  communication; data mining; inflammatory bowel diseases; infodemiology; irritable bowel syndrome; natural language processing; social media
    DOI:  https://doi.org/10.2196/12610
  6. Facial Plast Surg. 2019 Aug 14.
    Mehta N, Gupta A, Nissan M.
      A growing number of patients are seeking answers for their health concerns online. This study assesses the reliability, quality, and readability of online materials patients have access to through the Internet and evaluates the social media presence of information providers. An online search was conducted for facial rejuvenation by utilizing three ubiquitously used web search engines: Google, Bing, and Yahoo. The first 25 result pages were collected from each search engine, and exclusionary criteria were applied to exclude online stores and advertisements. Website reliability and quality were assessed via the DISCERN method. Readability was measured through six measurements: Flesch-Kincaid Grade Level (FKGL), Gunning Fox score, SMOG index, Coleman Liau index, and automated readability index. Social media presence and profile followers on Facebook, Twitter, and Instagram were determined to gauge social media presence. Exclusionary criteria yielded 41 unique websites, with the majority of websites authored by physicians (54%) followed by professional organizations (19%). The DISCERN method demonstrated that journal websites yielded the highest overall quality (4.00) and physician websites yielded the lowest (2.72). Readability analysis demonstrated that online forums proved the most challenging to read, and encyclopedia articles were the least challenging. Physician websites maintained the highest social media presence (95%) followed by professional organizations (75%). However, professional organizations had more social media followers in comparison to physician websites. Physician websites and professional organizations overwhelmingly command social media presence compared to other information providers and provide information with serious deficits in reliability and quality. A strong majority of online information also surpasses the health care literacy of patients. This poses a serious concern for physicians who need to provide and guide patients to high quality and reliable information.
    DOI:  https://doi.org/10.1055/s-0039-1693033
  7. Health Lit Res Pract. 2019 Jul;3(3): e147-e160
    Drummond FJ, Reidy M, von Wagner C, Livingstone V, Drennan J, Murphy M, Fowler C, Saab MM, O'Mahony M, Hegarty J.
      Background: For cancer prevention information to be effective, it must be accessible to its target populations. Prevalence of inadequate health literacy (HL) is high, but there is a dearth of information on the impact of HL on men's cancer information seeking.Objective: We investigated (1) men's cancer information seeking behaviors, (2) the effect of HL on men's cancer information seeking behavior, and (3) men's preferences for cancer information, considering their HL level. From a national perspective, we investigated men's information seeking behavior from the Irish Cancer Society (ICS), the largest provider of cancer information in Ireland.
    Methods: Men from adult literacy classes and men's groups were invited to complete a questionnaire. General and ICS-specific cancer information seeking behavior was investigated. Univariate and multivariate logistic regression models were conducted with "ever" seeking cancer information from any source, and actively seeking and passively acquiring ICS information as dependent variables.
    Key Results: Overall, 259 men completed the questionnaire and 44% had inadequate HL. About one-half of responders reported "ever" actively looking for cancer information. In the study group, 19% actively sought and 67% passively acquired ICS-specific information. In multivariate analysis, the odds of actively seeking (2.93; 95% CI [1.05, 8.15]) or passively acquiring (4.7; 95% CI [1.99, 11.05]) ICS-specific cancer information was significantly higher among those with adequate versus inadequate HL, respectively. HL was not significantly associated with odds of "ever" cancer information seeking in multivariate analysis (odds ratio 1.81; 95% CI [0.90, 3.63]). Men want information about cancer prevention. Suggested future cancer information sources differed by HL levels. General practitioners and the Internet were the preferred source for men with inadequate (53.3%) and adequate HL (57%), respectively.
    Conclusions: Men both passively acquire and actively seek cancer prevention information. Multimodal dissemination of cancer prevention information is necessary to reach a wide cross-section of men, including those with inadequate HL. This could potentially lower men's cancer burden and reduce gender inequalities in cancer mortality. [HLRP: Health Literacy Research and Practice. 2019;3(3):e147-e160.].
    Plain Language Summary: Most men get cancer prevention information by coming across it passively in their daily lives, instead of actively looking for this information. Men with low health literacy are less likely to obtain cancer information both passively and actively. Men want this information. Organizations need to make this information available in many places and formats (e.g., Internet, doctor, television, sports clubs).
    DOI:  https://doi.org/10.3928/24748307-20190430-01
  8. Yearb Med Inform. 2019 Aug;28(1): 140-151
    Bona JP, Prior FW, Zozus MN, Brochhausen M.
      OBJECTIVES: There exists a communication gap between the biomedical informatics community on one side and the computer science/artificial intelligence community on the other side regarding the meaning of the terms "semantic integration" and "knowledge representation". This gap leads to approaches that attempt to provide one-to-one mappings between data elements and biomedical ontologies. Our aim is to clarify the representational differences between traditional data management and semantic-web-based data management by providing use cases of clinical data and clinical research data re-representation. We discuss how and why one-to-one mappings limit the advantages of using Semantic Web Technologies (SWTs).METHODS: We employ commonly used SWTs, such as Resource Description Framework (RDF) and Ontology Web Language (OWL). We reuse pre-existing ontologies and ensure shared ontological commitment by selecting ontologies from a framework that fosters community-driven collaborative ontology development for biomedicine following the same set of principles.
    RESULTS: We demonstrate the results of providing SWT-compliant re-representation of data elements from two independent projects managing clinical data and clinical research data. Our results show how one-to-one mappings would hinder the exploitation of the advantages provided by using SWT.
    CONCLUSIONS: We conclude that SWT-compliant re-representation is an indispensable step, if using the full potential of SWT is the goal. Rather than providing one-to-one mappings, developers should provide documentation that links data elements to graph structures to specify the re-representation.
    DOI:  https://doi.org/10.1055/s-0039-1677912
  9. Front Med (Lausanne). 2019 ;6 165
    Cassa Macedo A, Oliveira Vilela de Faria A, Ghezzi P.
      Background: The concept that one can "boost" immunity is a popular one. Although the only evidence-based approach to this is vaccination, the lay public is exposed to a wide range of information on how to boost immunity. The aim of this study was to analyze such information available on the Internet. Methods and findings: We visited 185 webpages returned from a Google search on "boost immunity" and classified them by typology (blogs, commercial, government, no-profit, news, professional, scientific journals) and by using standard indicators of health information quality (JAMA score, HONCode). We then analyzed their content in terms of disease and "boosters" mentioned. Commercial and news websites represented one third of the results each. Of the 37 approaches to boost immunity recorded, the top ones were diet (77% of webpages), fruit (69%), vitamins (67%), antioxidants (52%), probiotics (51%), minerals (50%), and vitamin C (49%). Interestingly, vaccines ranked 27th, with only 12% of webpages mentioning them. Conclusions: Commercial websites are an important component of the information available to the public on the topic, and thus contribute providing biased information.
    Keywords:  antioxidants; complementary and alternative medicine; google; immunity; internet; vaccines; vitamins
    DOI:  https://doi.org/10.3389/fmed.2019.00165
  10. J Hand Microsurg. 2019 Aug;11(2): 94-99
    Bakker D, Ottenhoff JSE, Ring D.
      Background The Internet is increasingly used by patients to seek health information about their medical conditions. The online information is of variable quality, often difficult to read, and sometimes inaccurate or misleading. This study assessed factors associated with the quality, readability, and dominant tones of online information about scapholunate interosseous ligament (SLIL) insufficiency. Materials and Methods Using the three most used search engines, we entered the terms "wrist sprain," "scapholunate ligament injury," and "SL dissociation" and assessed the quality of the 45 Web sites identified using the DISCERN tool, readability by the Flesch Reading Ease Score, the Flesch-Kincaid Grade Level, the Gunning Fog Index, and the Simple Measure Of Gobbledygook, and dominant tones using the IBM Watson Tone Analyzer and the Linguistic Inquiry and Word Count. Results Online information about SLIL injuries had a mean DISCERN score of 39 ± 8.2. A dominant Web site tone of "sadness" correlated with lower DISCERN scores. A dominant tentative tone in text was associated with easier to comprehend texts. Conclusion The online information regarding SLIL insufficiency is of generally low quality, limited readability, and the underlying tones may be misleading. Professional societies might consider efforts to provide appealing, readable, information about SLIL insufficiency and other less common diagnoses on the Internet.
    Keywords:  Internet; SLIL; health information; quality control; scapholunate insufficiency
    DOI:  https://doi.org/10.1055/s-0038-1675887
  11. Health Lit Res Pract. 2019 Jul;3(3): e170-e173
    Malik A, El-Haj M, Paasche-Orlow MK.
      Little research has been done about patient educational materials (PEMs) written in Arabic. Readability of Arabic PEMs has not previously been assessed because, until recently, there was no validated Arabic readability assessment tool. A total of 207 PEMs in both Arabic and English were collected from the Medline Plus portal. Readability was assessed using Flesch-Kincaid in English and the Open Source Metric for Measuring Arabic Narratives, a new Arabic readability test. We also examined Arabic documents for other linguistic features that could lead to confusion. Mean readability grades were 6.1 and 7.1 for Arabic and English, respectively (p < .01). In 31.6% of PEMs, the English text was higher by two or more grades than the Arabic text, and the Arabic text was higher by two or more grades than the English text in 3.8% of PEMs. No diacritical marks in Arabic were used. An array of esoteric Arabic medical terms, transliterated English terms, Arabicized English terms, and written versions of spoken Arabic dialects were used. [HLRP: Health Literacy Research and Practice. 2019;3(3):e170-e173.].
    DOI:  https://doi.org/10.3928/24748307-20190528-01
  12. Aust Vet J. 2019 Aug 16.
    Kogan LR, Hazel SJ, Oxley JA.
      OBJECTIVE: The aim of this study was to gain a better understanding of Australian pet owners' use of the internet for pet health; how trustworthy they rate various pet health information sources and the use of online information in subsequent veterinary consultations.METHOD: An anonymous questionnaire was developed, consisting of 30 questions, and distributed between March 2018 and May 2018 using convenience sampling through social media venues including Facebook and Twitter. All respondents were over the age of 18, lived in Australia and owned a pet animal.
    RESULTS: A total of 228 responses were received. The most common sources of pet health information were veterinarians (88.2%) and internet websites (81.1%). Most respondents reported using the internet 'many times per day' at either home or work. The majority of respondents used the internet to seek pet health information either 'not weekly but at least once a month' or 'less than once a month'. Nearly half of the respondents stated that they only 'sometimes' discuss their online findings with their veterinarian. Approximately one half of respondents agreed with the statement that online pet health information had affected their decision about whether to take their pet to the veterinarian.
    CONCLUSION: This study assesses how pet owners use the internet for pet health information and the role veterinarians can play in helping to facilitate these searches with tools such as information prescriptions. Further large-scale research is needed to help further understand this increasingly important aspect of pet health.
    Keywords:  health; information; online; owners; pets; veterinarians
    DOI:  https://doi.org/10.1111/avj.12870
  13. Yearb Med Inform. 2019 Aug;28(1): 95-100
    Werner OH, Alexander H, .
      OBJECTIVE: To summarize recent research and to propose a selection of best papers published in 2018 in the field of Clinical Information Systems (CIS).METHOD: Each year a systematic process is carried out to retrieve articles for the CIS section of the IMIA Yearbook of Medical Informatics and to select a set of pest papers for the section. The same query as in the last five years was used. The retrieved articles were categorized in a multi-pass review carried out by the two section editors. The final selection of candidate papers was then peer-reviewed by Yearbook editors and external reviewers. Based on the review results the best papers were then chosen at the selection meeting with the IMIA Yearbook editorial board. Text mining, and term co-occurrence mapping techniques were again used to get an overview of the content of the retrieved articles.
    RESULTS: The query was carried out in mid-January 2019, yielding a consolidated, deduplicated result set of 2,264 articles which had been published in 957 different journals. This year, we nominated twelve papers as candidates and three of them were finally selected as best papers in the CIS section. Again, the content analysis of the articles revealed the broad spectrum of topics which is covered by CIS research.
    CONCLUSIONS: We could observe ongoing trends from our 2017 analysis. The patient increasingly moves in the focus of the research activities and trans-institutional aggregation of data is still an important field of work. The move to use patient and other clinical data directly for the patient and to support data driven process management, the move away from clinical documentation to patient-focused knowledge generation and support of informed decision, is gaining momentum by the application of new or already known but, due to technological advances, now applicable methodological approaches.
    DOI:  https://doi.org/10.1055/s-0039-1677919
  14. Yearb Med Inform. 2019 Aug;28(1): 83-94
    Combi C, Pozzi G.
      OBJECTIVES: This survey aims at reviewing the literature related to Clinical Information Systems (CIS), Hospital Information Systems (HIS), Electronic Health Record (EHR) systems, and how collected data can be analyzed by Artificial Intelligence (AI) techniques.METHODS: We selected the major journals (11 journals) collecting papers (more than 7,000) over the last five years from the top members of the research community, and read and analyzed the papers (more than 200) covering the topics. Then, we completed the analysis using search engines to also include papers from major conferences over the same five years.
    RESULTS: We defined a taxonomy of major features and research areas of CIS, HIS, EHR systems. We also defined a taxonomy for the use of Artificial Intelligence (AI) techniques on healthcare data. In the light of these taxonomies, we report on the most relevant papers from the literature.
    CONCLUSIONS: We highlighted some major research directions and issues which seem to be promising and to need further investigations over a medium- or long-term period.
    DOI:  https://doi.org/10.1055/s-0039-1677915
  15. Adv Med Educ Pract. 2019 ;10 527-532
    Sharma S, Oli N, Thapa B.
      Background: The Internet has become a major source of health-related information. In order to provide better health services and health-care education to society, nurses should have acceptable electronic health (eHealth) literacy.Objective: The main aim was to measure eHealth-literacy skills among nursing students of Kathmandu Medical College Teaching Hospital, Nepal.
    Methods: A cross-sectional study was conducted among 152 Bachelor of Science nursing students at the hospital. Data were collected using the self-administered eHealth Literacy Scale. This is an eight-item tool that is assessed on 5-point likert scale to measure consumers' perceived skills at finding, evaluating, and applying eHealth information to health problems. Demographical and personal variables were collected to explore their relationship with eHealth literacy.
    Results: A total of 152 nursing students with mean age of 19.84±1.62 years participated in the study. While 44.7% perceived that they had average Internet skills, 65.1% found the Internet useful in helping them make decisions about their health. Nursing students had a moderate self-perceived level of eHealth literacy (median 3.69, IQR 0.87). Related factors included students' Internet skills, frequency of using the Internet for health related purposes, and self-perception of the usefulness and importance of the Internet.
    Conclusion: This study represents a baseline reference for eHealth literacy among nursing students. Students have some basic necessary skills, while other skills still need to be improved. There is a need to pay attention to eHealth-literacy needs of nursing students.
    Keywords:  digitization; health literacy; nursing students; technology; Internet
    DOI:  https://doi.org/10.2147/AMEP.S207353
  16. Yearb Med Inform. 2019 Aug;28(1): 208-217
    Conway M, Hu M, Chapman WW.
      OBJECTIVE: We present a narrative review of recent work on the utilisation of Natural Language Processing (NLP) for the analysis of social media (including online health communities) specifically for public health applications.METHODS: We conducted a literature review of NLP research that utilised social media or online consumer-generated text for public health applications, focussing on the years 2016 to 2018. Papers were identified in several ways, including PubMed searches and the inspection of recent conference proceedings from the Association of Computational Linguistics (ACL), the Conference on Human Factors in Computing Systems (CHI), and the International AAAI (Association for the Advancement of Artificial Intelligence) Conference on Web and Social Media (ICWSM). Popular data sources included Twitter, Reddit, various online health communities, and Facebook.
    RESULTS: In the recent past, communicable diseases (e.g., influenza, dengue) have been the focus of much social media-based NLP health research. However, mental health and substance use and abuse (including the use of tobacco, alcohol, marijuana, and opioids) have been the subject of an increasing volume of research in the 2016 - 2018 period. Associated with this trend, the use of lexicon-based methods remains popular given the availability of psychologically validated lexical resources suitable for mental health and substance abuse research. Finally, we found that in the period under review "modern" machine learning methods (i.e. deep neural-network-based methods), while increasing in popularity, remain less widely used than "classical" machine learning methods.
    DOI:  https://doi.org/10.1055/s-0039-1677918
  17. Yearb Med Inform. 2019 Aug;28(1): 65-68
    Bloomrosen M, , Berner ES.
      OBJECTIVES: To summarize the recent literature and research and present a selection of the best papers published in 2018 in the field of Health Information Management (HIM) and Health Informatics.METHODS: A systematic review of the literature was performed, with the help of a medical librarian, by the two editors of the HIM section of the International Medical Informatics Association (IMIA) Yearbook. In order to include papers that would address the special theme of the 2019 Yearbook on artificial intelligence (AI) as well as HIM, we searched bibliographic databases for HIM-related papers with an AI focus using both Medical Subject Headings (MeSH) descriptors and keywords in titles and abstracts. A shortlist of 15 candidate best papers was first selected by section editors before being peer-reviewed by independent external reviewers.
    RESULTS: While there were a significant number of manuscripts that addressed issues relevant to HIM, there were virtually none with MeSH headings indicating an HIM focus. Manuscripts that were considered related to the HIM field in terms of the practice of health information management as well as the profession included those that examined using machine learning and other AI approaches to identify protected health information in clinical text to aid with de-identification, automated coding approaches to translate free-text into standardized codes, and natural language processing approaches to extract clinical data to assist with populating cancer and other registries.
    CONCLUSIONS: The papers discussed in the HIM section reflect the special theme of the use of AI in healthcare on issues particularly relevant to the field of HIM. This synopsis discusses these papers and recommends that HIM practitioners be more involved in research and that researchers in AI and related areas recognize the applicability and relevance of their work to the field of HIM.
    DOI:  https://doi.org/10.1055/s-0039-1677941
  18. Yearb Med Inform. 2019 Aug;28(1): 190-193
    Smaïl-Tabbone M, Rance B, .
      OBJECTIVES: To summarize recent research and select the best papers published in 2018 in the field of Bioinformatics and Translational Informatics (BTI) for the corresponding section of the International Medical Informatics Association (IMIA) Yearbook.METHODS: A literature review was performed for retrieving from PubMed papers indexed with keywords and free terms related to BTI. Independent review allowed the two section editors to select a list of 14 candidate best papers which were subsequently peer-reviewed. A final consensus meeting gathering the whole IMIA Yearbook editorial committee was organized to finally decide on the selection of the best papers.
    RESULTS: Among the 636 retrieved papers published in 2018 in the various subareas of BTI, the review process selected four best papers. The first paper presents a computational method to identify molecular markers for targeted treatment of acute myeloid leukemia using multi-omics data (genome-wide gene expression profiles) and in vitro sensitivity to 160 chemotherapy drugs. The second paper describes a deep neural network approach to predict the survival of patients suffering from glioma on the basis of digitalised pathology images and genomics biomarkers. The authors of the third paper adopt a pan-cancer approach to take benefit of multi-omics data for drug repurposing. The fourth paper presents a graph-based semi-supervised method to accurate phenotype classification applied to ovarian cancer.
    CONCLUSIONS: Thanks to the normalization of open data and open science practices, research in BTI continues to develop and mature. Noteworthy achievements are sophisticated applications of leading edge machine-learning methods dedicated to personalized medicine.
    DOI:  https://doi.org/10.1055/s-0039-1677945