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bims-librar       Biomed News on Biomedical librarianship
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Issue of 2019‒07‒21          │ 
eleven papers selected by    │
Thomas Krichel (Open Library │
 Society)                    │
 http://e.biomed.news/librar │
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 1. Are paper print scientific journals doomed?
 2. The plan to mine the world's research papers.
 3. Towards cross-platform interoperability for machine-assisted text 
     annotation.
 4. Resources for assigning MeSH IDs to Japanese medical terms.
 5. YouTube™ as a source of information on food poisoning.
 6. Adolescents' Use of Digital Technologies and Preferences for Mobile 
     Health Coaching in Public Mental Health Settings.
 7. Evaluating and providing quality health information for adolescents 
     and young adults with cancer.
 8. Document vectorization method using network information of words.
 9. Automated classification platform for the identification of otitis 
     media using optical coherence tomography.
10. Biotea-2-Bioschemas, facilitating structured markup for semantically 
     annotated scholarly publications.
11. The digital age: A scoping review of nursing students' perceptions of 
     the use of online discussion boards.

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                      Foot Ankle Surg. 2019 Jul 08. pii: S1268-7731(19)30106-7. 
 1. Are paper print scientific journals doomed?
   Richter M
  DOI: https://doi.org/10.1016/j.fas.2019.07.001
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31320207

                                             Nature. 2019 Jul;571(7765): 316-318
 2. The plan to mine the world's research papers.
   Pulla P
   Keywords: Computer science; Databases; Developing world; Publishing
  DOI: https://doi.org/10.1038/d41586-019-02142-1
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31316198

                                            Genomics Inform. 2019 Jun;17(2): e19
 3. Towards cross-platform interoperability for machine-assisted text 
     annotation.
   Eckart de Castilho R, Ide N, Kim JD, Klie JC, Suderman K
  In this paper we investigate cross-platform interoperability for natural 
  language processing (NLP) and, in particular, annotation of textual 
  resources, with an eye toward identifying the design elements of annotation 
  models and processes that are particularly problematic for, or amenable to, 
  enabling seamless communication across different platforms. The study is 
  conducted in the context of a specific annotation methodology, namely 
  machine-assisted interactive annotation (also known as human-in-the-loop 
  annotation). This methodology requires the ability to freely combine 
  resources from different document repositories, access a wide array of NLP 
  tools that automatically annotate corpora for various linguistic phenomena, 
  and use a sophisticated annotation editor that enables interactive manual 
  annotation coupled with on-the-fly machine learning. We consider three 
  independently developed platforms, each of which utilizes a different model 
  for representing annotations over text, and each of which performs a 
  different role in the process.
   Keywords: annotation software; biomedical text mining; interoperability
  DOI: https://doi.org/10.5808/GI.2019.17.2.e19
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31307134

                                            Genomics Inform. 2019 Jun;17(2): e16
 4. Resources for assigning MeSH IDs to Japanese medical terms.
   Tateisi Y
  Medical Subject Headings (MeSH), a medical thesaurus created by the National 
  Library of Medicine (NLM), is a useful resource for natural language 
  processing (NLP). In this article, the current status of the Japanese 
  version of Medical Subject Headings (MeSH) is reviewed. Online investigation 
  found that Japanese-English dictionaries, which assign MeSH information to 
  applicable terms, but use them for NLP, were found to be difficult to 
  access, due to license restrictions. Here, we investigate an open-source 
  Japanese-English glossary as an alternative method for assigning MeSH IDs to 
  Japanese terms, to obtain preliminary data for NLP proof-of-concept.
   Keywords: Japanese language resource; MeSH; medical vocabulary
  DOI: https://doi.org/10.5808/GI.2019.17.2.e16
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31307131

                                      BMC Public Health. 2019 Jul 16. 19(1): 952
 5. YouTube™ as a source of information on food poisoning.
   Li M, Yan S, Yang D, Li B, Cui W
  BACKGROUND: YouTube™ ( http://www.youtube.com ), as a very popular video 
  site around the world, is increasingly being used for health information. 
  The objectives of this review were to assess the overall usefulness of 
  information on food poisoning presented on YouTube™ for patients.
   METHODS: The YouTube™ website was systematically searched using the key 
  words "food poisoning", "foodborne diseases" and "foodborne illness". One 
  hundred and sixty videos meet the inclusion criteria. Two independent 
  reviewers scored the videos utilizing a customized usefulness scoring scheme 
  separately and assessed the video duration, views, days since upload, likes, 
  and dislikes. The videos were categorized as education, entertainment, News 
  & Politics and People & Blogs. A usefulness score was devised to assess 
  video quality and to categorize the videos into "slightly useful", "useful", 
  and "very useful".
   RESULTS: Most videos were educational 66 (41.3%). Educational videos had 
  significantly higher scores, but had no significant differences in likes, 
  views or views/day. Over half of the videos (97/160) were categorized as 
  "useful". The mean posted days (885.2 ± 756.1 vs 1338.0 ± 887.0, P = 0.043) 
  and the mean duration of video (12.8 ± 13.9 vs 3.5 ± 3.4, P < 0.001) were 
  both significantly different in the very useful group compared with the 
  slightly useful group. There was no correlation between usefulness and the 
  number of likes, the number of dislikes, the number of views, or views/day.
   CONCLUSION: YouTube™ is a promising source of information regarding food 
  poisoning. Educational videos are of highest usefulness. Considering that 
  there is a lot of low-credibility information, consumers need to be guided 
  to reliable videos in the field of healthcare information.
   Keywords: Epidemiology; Food poisoning; Foodborne diseases; Foodborne 
    illness
  DOI: https://doi.org/10.1186/s12889-019-7297-9
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31311523

                                                Front Public Health. 2019 ;7 178
 6. Adolescents' Use of Digital Technologies and Preferences for Mobile 
     Health Coaching in Public Mental Health Settings.
   Aschbrenner KA, Naslund JA, Tomlinson EF, Kinney A, Pratt SI, Brunette MF
  Objective: Youth with mental illnesses often engage in unhealthy behaviors 
  associated with early mortality from physical diseases in adulthood, but 
  interventions to support positive health behaviors are rarely offered as 
  part of routine mental health care for this group. Digital health technology 
  that is desirable, accessible, and affordable has the potential to address 
  health behaviors in public mental health settings where many adolescents 
  with severe mental health problems receive care. The aims of this study were 
  to examine how adolescents receiving public mental health services use 
  digital technology and social media and to explore their preferences using 
  technology to support health and wellness. Methods: Using a convergent 
  parallel mixed methods design, we surveyed adolescents ages 13-18 from four 
  community mental health centers in one state and conducted focus group 
  interviews to explore their perspectives on using digital technology and 
  social media to receive health coaching and connect with peers to support 
  healthy behaviors. The survey and focus group data were merged to inform the 
  future development of a digital health intervention for adolescents 
  receiving public mental health services. Results: Of 121 survey respondents 
  (mean age 15.2, SD = 1.5), 92% had a cell phone, 79% had a smartphone, 90% 
  used text messaging, and 98% used social media. Focus group interviews 
  revealed that adolescents were interested in receiving strengths-based 
  mobile health coaching, and they preferred structured online peer-to-peer 
  interactions in which a professional moderator promotes positive connections 
  and adherence to privacy guidelines. Conclusions: Adolescents receiving 
  public mental health services in this study had access to smartphones and 
  were frequent social media users. These data suggest that digital health 
  interventions to promote health and wellness among adolescents may be 
  scalable in community mental health settings. Adolescent participants 
  suggested that digital health interventions for this group should focus on 
  strengths and online peer support for health promotion should include a 
  professional moderator to foster and manage peer-to-peer interactions.
   Keywords: adolescents; digital health interventions; health promotion; 
    mental illness; mobile health coaching; peer-to-peer support; social media
  DOI: https://doi.org/10.3389/fpubh.2019.00178
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31312629

                                       Pediatr Blood Cancer. 2019 Jul 19. e27931
 7. Evaluating and providing quality health information for adolescents 
     and young adults with cancer.
   Grace JG, Schweers L, Anazodo A, Freyer DR
  Adolescents and young adults (AYAs, 15-39 years old) are an ideal population 
  to benefit from the ever-expanding number and variety of cancer information 
  and health resources available via the Internet and other digital platforms. 
  However, the ability of individual AYAs to fully utilize such resources 
  depends on their degree of health literacy. Across the trajectory of cancer 
  care, an important role for the oncology clinician is assisting AYAs and 
  caregivers in accessing quality health information consistent with their 
  level of health literacy. Working from the premise that all AYAs with cancer 
  and their caregivers deserve to be empowered with maximal knowledge about 
  their condition, this review provides information to assist oncology 
  clinicians in (1) understanding the variety of contemporary online resources 
  that are currently available, including their strengths and limitations; (2) 
  evaluating the quality of health information; and (3) recommending specific 
  health information resources to their AYA patients.
   Keywords: adolescent and young adult; health communication; health 
    education; health information; health literacy; health promotion; patient 
    education
  DOI: https://doi.org/10.1002/pbc.27931
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31322817

                                                 PLoS One. 2019 ;14(7): e0219389
 8. Document vectorization method using network information of words.
   Lee SY
  We propose a new method for vectorizing a document using the relational 
  characteristics of the words in the document. For the relational 
  characteristics, we use two types of relational information of a word: 1) 
  the centrality measures of the word and 2) the number of times that the word 
  is used with other words in the document. We propose these methods mainly 
  because information regarding the relations of a word to other words in the 
  document are likely to better represent the unique characteristics of the 
  document than the frequency-based methods (e.g., term frequency and term 
  frequency-inverse document frequency). In experiments using a corpus 
  consisting of 14 documents pertaining to four different topics, the results 
  of clustering analysis using cosine similarities between vectors of 
  relational information for words were comparable to (and more accurate than 
  in some cases) those obtained using vectors of frequency-based methods. The 
  clustering analysis using vectors of tie weights between words yielded the 
  most accurate result. Although the results obtained for the small dataset 
  used in this study can hardly be generalized, they suggest that at least in 
  some cases, vectorization of a document using the relational characteristics 
  of the words can provide more accurate results than the frequency-based 
  vectors.
  DOI: https://doi.org/10.1371/journal.pone.0219389
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31318881

                                                       NPJ Digit Med. 2019 ;2 22
 9. Automated classification platform for the identification of otitis 
     media using optical coherence tomography.
   Monroy GL, Won J, Dsouza R, Pande P, Hill MC, Porter RG, Novak MA, Spillman 
   DR, Boppart SA
  The diagnosis and treatment of otitis media (OM), a common childhood 
  infection, is a significant burden on the healthcare system. Diagnosis 
  relies on observer experience via otoscopy, although for non-specialists or 
  inexperienced users, accurate diagnosis can be difficult. In past studies, 
  optical coherence tomography (OCT) has been used to quantitatively 
  characterize disease states of OM, although with the involvement of experts 
  to interpret and correlate image-based indicators of infection with clinical 
  information. In this paper, a flexible and comprehensive framework is 
  presented that automatically extracts features from OCT images, classifies 
  data, and presents clinically relevant results in a user-friendly platform 
  suitable for point-of-care and primary care settings. This framework was 
  used to test the discrimination between OCT images of normal controls, ears 
  with biofilms, and ears with biofilms and middle ear fluid (effusion). 
  Predicted future performance of this classification platform returned 
  promising results (90%+ accuracy) in various initial tests. With integration 
  into patient healthcare workflow, users of all levels of medical experience 
  may be able to collect OCT data and accurately identify the presence of 
  middle ear fluid and/or biofilms.
   Keywords: Biomedical engineering; Imaging and sensing; Machine learning; 
    Paediatric research; Translational research
  DOI: https://doi.org/10.1038/s41746-019-0094-0
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31304369

                                            Genomics Inform. 2019 Jun;17(2): e14
10. Biotea-2-Bioschemas, facilitating structured markup for semantically 
     annotated scholarly publications.
   Garcia L, Giraldo O, Garcia A, Rebholz-Schuhmann D
  The total number of scholarly publications grows day by day, making it 
  necessary to explore and use simple yet effective ways to expose their 
  metadata. Schema.org supports adding structured metadata to web pages via 
  markup, making it easier for data providers but also for search engines to 
  provide the right search results. Bioschemas is based on the standards of 
  schema.org, providing new types, properties and guidelines for metadata, 
  i.e., providing metadata profiles tailored to the Life Sciences domain. Here 
  we present our proposed contribution to Bioschemas (from the project 
  "Biotea"), which supports metadata contributions for scholarly publications 
  via profiles and web components. Biotea comprises a semantic model to 
  represent publications together with annotated elements recognized from the 
  scientific text; our Biotea model has been mapped to schema.org following 
  Bioschemas standards.
   Keywords: biomedical text mining; literature metadata; semantic 
    annotations; structured data; web page markup
  DOI: https://doi.org/10.5808/GI.2019.17.2.e14
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31307129

                     Nurse Educ Today. 2019 Jul 05. pii: S0260-6917(19)30295-3. 
11. The digital age: A scoping review of nursing students' perceptions of 
     the use of online discussion boards.
   Massey D, Johnston ANB, Byrne JH, Osborne DM
  DOI: https://doi.org/10.1016/j.nedt.2019.06.013
  URL: http://www.ncbi.nlm.nih.gov/pubmed/31306851

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