1. Journal Searching and Citation Management with EndnoteWeb Nancy B. Clark, M.Ed. Director of Medical Informatics Education FSU College of Medicine Summer 2011 1 All recourses are available online in Medical Informatics site under Topics: Research

2. My Goal My Goal  All faculty and students will correctly cite all copyrighted resources (images, articles, videos, etc.) in their:  Presentations  Posters  Papers –Annotated Bibliography, Health Topic Brief, and Surgery Research Paper 2

3. Session Objectives Attendees will be able to  Use Pubmed to search the medical journals  Find full text peer-reviewed journal articles  Find online health stats  Cite appropriately in a specified style  Use Endnote Web to manage citations and references for papers, posters and presentations 3

4. Tutorials Available  Tutorials at Pubmed  Searching PubMed  Using Mesh Terms  Using My NCBI  Tutorials at EndnoteWeb.com 4

5. Supportive Materials  Policy Brief Instructions  Examples of AMA style citations 5

6. Essential Software  MSWord 2010  Endnote Web Cite While you Write plugin  http://www.endnoteweb.com http://www.endnoteweb.com  Stedman’s Medical Spellchecker 6

7. Find the Journals 7

8. 8 Levels of References Primary: Peer Reviewed journal articles Secondary: Not peer reviewed Primary Secondary

9. 9 Levels of Peer Reviewed Information  Primary: original research  Secondary: review articles  Tertiary: textbooks, summaries Primary Secondary Tertiary

10. 10 Clarification for Assignment  Primary means original research on topic  Secondary means everything else  Annotated Bibliography 8 references requires

11. Periodical Databases  See FSU Libraries > Databases A-Z or Databases By Subject  ERIC (education journals)  Lexis-Nexis Academic Universe (business, government, medical, legal...)  Access World News (major newspapers)  PsychINFO (social sciences)  Web of Knowledge/Science (science, social science, arts and literature citations)  MEDLINE (medicine) 11

12. What is MEDLINE?  produced by the National Library of Medicine  electronic version of Index Medicus, International Nursing Index, International Dental Literature  1966 – present  4,000+ international biomedical journals  includes journal articles, reviews, letters, editorials, comments, some conference proceedings and books 12

13. MEDLINE Fields  Author  Title  Date  Type of publication  Journal, Volume, Issue  Page numbers  Abstract  Institution  MeSH Headings  A lot of cataloging numbers 13

14. Where is MEDLINE?  Pubmed (NLM)  Google Scholar  MDConsult  Medscape  Links to  Full text journal articles  Books  EBM databases 14

15. Getting To PubMed From Library 1.Use Search Engines PubMed Box or 2.Use MedResources List or Map 3.Type PubMed into Online Resources search  ID is built into links 15

16. PubMed MEDLINE Entering PubMed 16 Tutorials Type search terms Save searches in NCBI

17. Why get NCBI Account?  Save searches  Save citations in My Bibliography  Automatically update and e-mail search results from your saved searches  Filter search results  Highlighting search terms 17

18. 18

19. PubMed MEDLINE Preliminary Results 19 Large number of hits. Scroll down to ‘Details’ to show how PubMed translated the search. (You can modify the search by typing in the text box.)

20. Boolean Operators  AND  OR  NOT  Parenthesis  *  quotes 20 “medication errors” AND “quality improvement” NOT (ambulatory OR “nursing home”)

21. PubMed MEDLINE Limit Results 21 Click on ‘Limits’ Limit by Pub Date Subjects Type journal Type research Language … Warning: Limits all searches until removed

22. Types of Articles  Editorials  Letters  Review Articles  Meta-Analysis  Systematic reviews  Clinical Guidelines  Original Research  Case Studies  Case Control  Time Series  Cross sectional  Cohort  Control trials  Randomized Control Trials 22

23. PubMed MEDLINE Refined Results 23 Number of hits is still quite large. (384 from previous 22,441) Add ‘ cancer ethics ’ to the search terms.

24. PubMed MEDLINE  Multiple Terms:  Use Advanced Search  History  #2 AND #3  Click on number of hits to see results 24 Combining Searches

25. Getting the articles 25 Display Settings: Select ‘Abstract’ view and click on ‘Apply’ Click on FSU icon to link to full text.

26. 26 Click on Article Title: Abstract View Related Citations Link to full text FSU subscriptions

27. MeSH Terms 27 Use MeSH terms to find search terms.

28. 28

29. When there is no FSU Button… 29

30. Identify the Full Journal Title 30

31. Finding Full Text Articles Pubmed Linked to full text? No… 1.Medical E-Journals list from library webpage? Not listed…Medical E-Journals 2.FSU E-Journals from library webpage. In electronic format? No...FSU E-Journals 3.Interlibrary loans for titles not owned by FSU: MedLibrary@med.fsu.eduMedLibrary@med.fsu.edu 31

32. Medical E-Journals  In electronic less than 12~ years  Each journal different  Digitizing old issues slowly 32

33. PubMed MEDLINE Getting the articles when there is no FSU icon If there is no FSU icon, there are other options: 1.Search E-Journal Titles for the journal name 33

34. All FSU E-Journals  Under Resources  Expand E-Journals  Click on All FSU E-Journals 34

35. FSU Libraries E-Journals 35

36. FSU E-Journals  Consultant Pharmacist only up to 2000 36

37. Interlibrary Loan 37 Interlibrary Loan: 1.Sign into EZProxy 2.Fill out form 3.Copy and Paste info from PubMed Citation into Section 2 4.Get PMID #

38. Finding Journal Articles at FSU 38

39. Interesting New Tool: knalij.com  Use Chrome Browser (FireFox second choice)  Open Library site and open Pubmed  In another tab, open knalij.com  Additional Types of Searches  Journal Cluster Map  Co-author Map  Impact of funding Map 39

40. Finding Health Statistics 40

41. Informatics Resources  Topic Areas > Research  Health Statistics 41

42. Types of Health Statistics Questions  Fact lookups [population, demographics]  Research  Presentations  Social and Policy indicators 42

43. Strategies for Finding Health Stats  Google Search  Use Portal  Start at Internet site  Start with book or article 43

44. Internet Portals of Health Stats  Lists of links that provide starting points for browsing or searching  Keyword search in portal vs Google  General idea what you want  The National Center for Health Statistics portal: http://www.cdc.gov/nchs/ http://www.cdc.gov/nchs/  Health Services Research Information Central (NLM) Health Services Research Information Central 44

45. Lexis-Nexis Statistical Universe  Subscription resource  Searches stat data  Subject List  Limit search  Reports or tables  http://web.lexis- nexis.com/statuniv?B1=Connect+to+Statistical +Universe http://web.lexis- nexis.com/statuniv?B1=Connect+to+Statistical +Universe 45

46. MMWR  Morbidity – illness  Mortality – death  http://www.cdc.gov/mmwr/ http://www.cdc.gov/mmwr/  Disease Trends  Tables - searchable 46

47. Health Care Data  Healthcare Cost and Utilization Project  HCUPnet HCUPnet  Hospital discharges  Ambulatory service  Costs  Amount of care  By diagnosis and procedure  Surveys of hosp, physicians, nursing homes 47

48. Health Consequences  Costs to society, individuals  Cost from care  Costs of illness  Impact on infrastructure  HCFA  CMS Health Accounts  http://cms.hhs.gov/ http://cms.hhs.gov/ 48

49. State and International Data  Floridahealthstat.com - Where Florida Health Data Resides Floridahealthstat.com - Where Florida Health Data Resides  KFF State Health Facts Online KFF State Health Facts Online  United Nations Statistics Division United Nations Statistics Division  World Health Organization Research Tools World Health Organization Research Tools 49

50. Citations and References Note: Endnote Web Camtasia Tutorials on Library Tutorials Page 50

51. Style Guides  Format of citation on referenced items  AMA Style Guide* AMA Style Guide  Examples of AMA Citations Examples of AMA Citations  Other Style Guides Other Style Guides  What do I mean by Style Guides?  Format required for submitting articles to journal 51 Informatics Resources|Topics|Research|Style Guides

52. APA Style Now is the time for all good men to come to the aid of their country.(Alpay & Russell, 2002) Four score and seven years ago our forefathers brought forth a new nation conceived in liberty and dedicated to the proposition that all men are created equal.(Balen & Jewesson, 2004) References Alpay, L., & Russell, A. (2002). Information technology training in primary care: the nurses' voice. Comput Inform Nurs, 20(4), 136-142. Balen, R. M., & Jewesson, P. J. (2004). Pharmacist computer skills and needs assessment survey. J Med Internet Res, 6(1), e11. 52

53. JAMA Style Now is the time for all good men to come to the aid of their country. 1 Four score and seven years ago our forefathers brought forth a new nation conceived in liberty and dedicated to the proposition that all men are created equal. 2 References 1.Alpay L, Russell A. Information technology training in primary care: the nurses' voice. Comput Inform Nurs. Jul-Aug 2002;20(4):136-142. 2.Balen RM, Jewesson PJ. Pharmacist computer skills and needs assessment survey. J Med Internet Res. Mar 29 2004;6(1):e11. 53

54. EndnoteWeb  Stores your reference citations on the web  Assign to topic groups  Word add-in  Manages Citations  Inserts References in Word  Automatically formats in selected style  Does not store PDF articles. Endnote desktop does. 54

55. 55 Now is the time for all good men to come to the aid of their country. (citation) References - Bibliographic citation - Now is the time for all good men to come to the aid of their country. (citation) References - Bibliographic citation - Research Paper Stack of References: Journal articles Book chapters Web sites Monographs Endnote Library of References Word Document

56. First Time You Start Endnote Web 1.www.myendnoteweb.comwww.myendnoteweb.com 2.Set up Account 3.UserID: email 4.Password (8 character minimum, must have at least 1 letter, 1 number, 1 symbol) 56

57. Start Endnote Web in Word 2010 57 Endnote Web Tool Bar on Ribbon Will ask you to sign in X

58. Use Endnote Web in Word 1.Create an Endnote Library online 2.Add all cited articles, books, websites, etc. to library 3.Set the Format to JAMA 4.As you type, Find and insert citation Pick reference from library 5.Endnote creates the bibliography 58

59. Organize Your References  Create New Group for a project 59

60. How to Populate the Library - Options  Manually enter references  Connect to Pubmed or other database and capture  Search Pubmed or other DB and save results then import (see tutorials on Library website)  In Google Scholar, WOS or OVID, search and export directly to Endnote 60 Endnote Web References

61. Add Citations to Library  Type them in  Book chapters  Images  Newspaper articles  Statistical Reports  Websites  Let Endnote Web grab from PubMed, PsychLit, OVID, etc.  Journal articles 61

62. How to Type in Citation  In Endnote Web  Collect Tab  Select New Reference  Pick reference type  Type in fields  Pick Group to save to  Click SAVE 62

63. What Fields Do You Need to fill in?  Look at or print our  Examples AMA Citations  Under Style Guides in Research 63

64. Citing Images  Use Audiovisual Material: should contain the following information about the image:  Photographer's or artist's name (often not given)  Title of picture or Name of subject  Date of picture (often not given)  Title of website  URL of page in which image found (not of image itself)  Date you accessed the picture.  SAMPLE: Kawasaki, Satoko. Bobby Valentine. October 14, 2005. The Japan Times. www.japantimes.co.jp/ sports/2004bbpreview.htm October 27, 2005. www.japantimes.co.jp/ sports/2004bbpreview.htm 64

65. How to Capture References  Collect Tab  Online Search  Pick a source  Pubmed [NLM]  Connect  Select Favorites to limit scrolling 65

66. Perform Search  If article known  Use Author and Title word  Search 66

67. Perform Search  Retrieve Articles found  Pick article(s)  Add to Group  Pick group 67

68. Export References from Pubmed  Collect articles in Clipboard [Check articles as found and Send to Clipboard.]  Open Clipboard and check all articles to export  Send to >> File  Format >> MEDLINE  Save on desktop 68

69. Import file into Endnote Web  Collect Tab >> Import References  Browse to file  Import Options: Pubmed (NLM)  To: >> pick a group  Import button 69

70. Cite While You Write  In Word 1.Put Cursor on spot 2.Endnote Web Ribbon Find Citation 3.Type author or distinctive word in title 4.Click Find 5.Click citation of choice 6.Click Insert 70 Insert

71. Citation and Reference Appear in Word Document 71

72. Set AMA Style  Need to load 1 time  In Endnote Web Ribbon  Style: dropdown  Find JAMA  If not there…  Open Bibliography dialog box  Pick JAMA under output style 72

73. Export References  Citations for posters or presentations  Pick Style  Format >> Bibliography  Save as RTF  Open in Word  Copy and paste in PowerPoint/Publisher 73

74. Hands on practice Do a few on your own. If you are missing Endnote Web or Stedmans, go by IT office or tell Help Desk and get them installed. 74

75. In Summary  Use Pubmed to Search for Articles, My NCBI to manage  Use red FSU button to find articles  If no button: Med eJournals list > FSU eJournals > Interlibrary loan  Any journal article you need, we will get  Use Endnote to manage your citations in your papers, presentations and posters 75

76. Using NCBI Register and get a Username and Password 76

77. Why get NCBI Account?  Save searches  Save citations in My Bibliography  Automatically update and e-mail search results from your saved searches  Filter search results  Highlighting search terms 77

78. 78

79. My NCBI 79

80. 80 80 Customize My NCBI  Tutorials: http://www.nlm.nih.gov/bsd/disted/myncbi.html http://www.nlm.nih.gov/bsd/disted/myncbi.html  Saving Searches  Saving References  Customizing the Tabs  Highlighting Search Terms

81. 81 My NCBI – Saving a Search  Develop a search.  Click on ‘Save Search’. April 29, 2008 Medical Informatics Seminar Session 6 81

82. 82 My NCBI – Saving a Search  Give name and Save  Complete form for email notification  ‘My NCBI’ puts the search in your list.

83. April 29, 2008 Medical Informatics Seminar Session 6 83 My NCBI – Saving References (1)  Develop a search.  Check the references you want to save.  Click on ‘Send To’ and select ‘Clipboard’. 83

84. 84 My NCBI – Saving References (2)  Go to the ‘Clipboard’  Click on ‘Send To’ and select Collections.

85. 85 My NCBI – Saving References (3)  Tell My NCBI what to call the collection  Or Append to an existing collection April 29, 2008 Medical Informatics Seminar Session 6 85

86. 86 86 My NCBI – Saving References (4)  To see the collection or saved search, click on ‘My NCBI’ > Collections  Can download collections into a reference manager such as EndNote or RefWorks.

87. 87 My NCBI – Customizing the Filters 1.Click on ‘My NCBI’ 2.‘Manage Filters’

88. 88 My NCBI – Customizing the Filters  Try “Browse Filters” to see different types

89. 89 My NCBI – Highlighting Search Terms  Click on ‘NCBI Site Preferences’.  Click on ‘Highlighting’  Pick colors

90. Have Journal Contents Sent (1) 1.Search ‘Journals Database’ 2.Enter a general subject term, e.g. “Pediatrics”, then ‘Go’. 3.Click on a journal title to get information about that journal. 4.Continue with another search for a Journal, find and select 5.Click on ‘Send to’ and select ‘Search Box with OR’. 90

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92. 92 Have Journal Contents Sent (2) 4.Click on ‘Search PubMed’. 5.Click on ‘Save Search’, name it, and set up email as earlier. 6.You will be notified when new articles are published in these journals.

93. 93 Links to Other NCBI Databases  NCBI has other databases that link to PubMed. (examples: CoreNucleotide, Gene, HomoloGene, Protein, Protein) 93