Use of JATS data to compile a bibliographic database / JATS-Con-Asia-20151019-04-Toshinori-Kurosawa

JATS-Con Asia
Monday, October 19, 2015
http://jats-con-asia.strikingly.com/

General Session:
Speaker 2 "Use of JATS data to compile a bibliographic database"
-Toshinori Kurosawa, NPO Japan Medical Abstracts Society (JAMAS)
Abstract: http://jats-con-asia.strikingly.com/#speakers
Materials: https://speakerdeck.com/jatsconasiasc/jats-con-asia-20151019-04-toshinori-kurosawa
Video: https://vimeo.com/150207491

Transcript

1. Use of JATS Data in Creating
   Ichushi Web Database
   JATS-Con Asia
   2015/10/19
   NPO Japan Medical Abstracts Society
   Database Management Division
   Toshinori Kurosawa
   1
   

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2. 2
   About Us
   ■Organization
   Japan Medical Abstracts Society (JAMAS, Ichushi)
   Non-profit organization.
   ■Activities
   Produce medical bibliographic & abstract database and
   provide “Ichushi Web”(which is just like PubMed).
   

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3. 3
   ■History
   Established in 1903.
   Since then we have continued publication of Ichushi
   for over 110 years.
   Shiro Amako (1865～1930) : Fouder of JAMAS
   

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4. 4
   ■Database detail
   Coverage:
   Totally about 6,000 journals published in Japan.
   (currently about 3,000)
   Target fields are Medicine, Dentistry, Pharmacology,
   Nursing science and other related fields.
   Number of Records:
   10 million articles.
   Keywords:
   Indexing keywords and subheadings to all articles
   manually with thesaurus which is based on MeSH.
   

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5. ■Users
   Corporate users: about 2,500
   Personal users: about 7,000
   ■Usage
   Login: about 18,000 per day
   Search: about 80,000 per day
   5
   

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6. 6
   Ichushi Web Interface
   

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7. Data Creation Flow
   7
   Journals
   ICHUSHI
   In-house
   system
   Ichushi-Web
   Users
   ･Bibliographic data
   ･Abstract
   ･Keywords
   ･Link inforamation to fulltext
   The problem is ･･･
   Almost all of journals are submitted by Printed Version.
   

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8. Collecting Journals by XML data
   8
   In 2007, for the purpose of efficient data processing,
   we started collecting journals by XML data that
   Ichushi original DTD.
   Unfortunately, because of local DTD, it did not become
   widespread.
   (Only a few publishers have submitted by Ichushi DTD.)
   

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9. 9
   In 2014, we launched the accepting JATS data.
   Number of Journals submitted by JATS data has been
   increasing gradually, but in Japan, it is still difficult to get
   electronic data from pubulishers.
   Format Number of Journals
   JATS 62
   JAMAS DTD 14
   Total 76 (2.5%)
   Acceptable Tag Set
   ･Journal Archiving and Interchange (green)
   ･Journal Publishing (blue)
   

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10. Publisher
    JATS Data Flow
    10
    JATS
    ICHUSHI
    Ichushi
    Web
    Parser
    Bibliographic data
    Abstract
    Citation data
    DOI
    URL
    Ichushi
    Link
    Service
    JALC
    e-journal
    Link to fulltext
    by DOI
    Get Citation data
    with fulltext link
    DOI
    server
    

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11. 11
    JATS for Ichushi Web
    Extract bibliographic and abstract data from
    , .
    ･Ichushi Journal ID
    To identify Journals exactly, it is recommended to put
    Ichushi Journal ID in .
    sample:
    J01858
    ･Abstract
    Use data only if we have license.
    Otherwise, we make our own abstract.
    

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12. 12
    ･Article subtitle
    Decide whether or not to get article subtitle value with attribute
    of .
    sample:
    
    
    Special
    
    Mass-Screening
    
    Cardiac Infarction
    
    
    
    
    
    Dietary instruction
    
    Article subtitle:
    “Mass-Screening Cardiac Infarction”
    Article title:
    “Dietary instruction”
    In this case, subj-group-type “features-heading-cat”
    is not target.
    ･Element in value
    Cut elements appeared in value. (emphasis elements etc.)
    sample:
    An experimental in vitro study
    Article title: “An experimental in vitro study”
    

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13. 13
    JATS for Ichushi Link Service
    Ichushi Link Service is optional service for citation link.
    If publishers send us citation data in JATS, we get link
    information to fulltext for each citaion. And publishers
    can get back citation data with fulltext link in their site.
    Target of fulltext links are Crossref, J-STAGE and other
    japanese e-journals.
    Both and data can
    be accepted.
    

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14. 14
    
    
    Woodford-Williams,
    E
    ,
    
    Watson,
    D
    , and
    
    Bushby,
    C
    .
    The day hospital in the community care of the elderly.
    Gerontology Clinic.
    1962;
    4(
    4):
    241-256.
    
    mixed-citation sample:
    

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15. ICHUSHI
    15
    Publisher
    JATS Parser Citation data
    Extract below and get Link ID
    from outside services
    ･Title
    ･Author
    ･Journal
    ･Volume
    ･Issue
    ･Page
    ･Published year
    Crossref
    J-STAGE
    PubMed
    Other
    japanese
    e-journals
    e-journal
    Ichushi
    Link
    Service
    get citation data with fulltext link
    

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16. 16
    Sample: MedicalFinder (produced by Igaku-Shoin Ltd.)
    

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17. 17
    JATS for DOI deposit
    Deposit DOI through JALC on behalf of publishers.
    Publisher
    JATS
    ICHUSHI
    Parser JALC XML
    JALC
    convert
    deposit DOI
    assign
    DOI prefix
    support team
    contact personnel
    assign DOI prefix
    assignDOI
    request to get DOI
    request
    DOI prefix
    

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18. 18
    Future
    ･Popularize JATS in scholarly publishing field through the
    activities of XML Scholary Publishing Association(XSPA).
    ･Prepare for BITS
    Although our collection is only Journal Articles now,
    we have a plan to add book data near future.
    

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19. 19
    Thank You !
    

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