1. PubMed Database Interface (Basic Course Module 4)

2. Table of Contents  Connecting to PubMed  Navigating through PubMed  Selecting a database to search on the black database bar  Searching PubMed  Display options  Printing, saving and email options

3. Before logging into the Partner Publisher services websites, we will Login to the HINARI site using the URL http://www.who.int/hinari/

4. We will need to enter our HINARI User Name and Password in the appropriate boxes, then click on the Login button. To have access to the full text articles, you must properly sign in. Since the migration to a new authentication server (Jan. 2014), we strongly recommend use of Chrome or Mozilla. If you use Internet Explorer, you will need to login twice.

5. If you are using Internet Explorer, repeat the Login process on this 2 nd page and you will be redirected to the HINARI Contents page.

6. Once you are logged in to the HINARI Content page, access PubMed by clicking on Search inside HINARI full-text using PubMed.

7. Current PubMed situation (https): HINARI currently does not work with https sites (including PubMed and Lancet) although staff is working on a solution If you login into HINARI, most of the functions that will be discussed in this module will not work. See examples on following slides. To use the PubMed options, open HINARI but do not login! All the functions will work except for LINKOUT (access to HINARI full-text articles) For access to HINARI full-text articles, go to the HINARI content page Journals collection A-Z list

8. In the Forrnat display option, we have clicked on Abstract.

9. In the Sort by display option, we have clicked on Relevance.

10. In both cases, the Your browsing activity is empty message is displayed.

11. HINARI PubMed – Access to Full Text including temporary https issue (Dec 2015) HINARI LOGINPubMed LoginLINKOUT LINKFULL TEXT ALTERNATIVE Login to HINARISearch inside HINARI full-text using PubMed Click on LINKOUT link to obtain Full Text. Temporary https issue: DO NOT LOGIN to HINARI Click on “Access the content” Search inside HINARI full-text using PubMed LINKOUT (access to HINARI full-text articles) will not work. To access HINARI full- text articles, go to the HINARI content page Journals collection A-Z list. To use PubMed MyNCBI – do not login to HINARI. (save searches, create collections, custom filters) Login directly at PubMed: www.ncbi.nlm.nih.gov/pu bmed/ LINKOUT (access to HINARI full-text articles) will not work. To access HINARI full- text articles, go to the HINARI content page Journals collection A-Z list.

12. Instead of Login to HINARI, click on Access the content to open the HINARI content page.

13. Now click on Search inside HINARI full-text using PubMed. Note the Log In box that shows you are not properly logged in.

14. Remember to access PubMed through HINARI or you will not have access to the full-text articles.

15. The Search box on PubMed is active. Place your search statement in the box. In this example, we will enter a search for malaria infections AND africa into the Search or query box. To execute the query, click on the Search button.

16. Results of the search are displayed in the main body of the page in Summary Format, 20 per page and Sort by Most Recent options. This is the default setting when you complete a search. Note the two additional filters for Free Full Text and HINARI articles. These have been created for the HINARI/PubMed searches. Of the 5483 articles, 2499 are available via the HINARI filter and 2645 with Free full text filter (there are some overlaps).

17. Note the useful options in the right column of the PubMed search results: Sort by Relevance (new October 2013) option Results by year graph Titles with your search terms listing Free full-text articles in PubMed Central (a U.S. National Institute of Health repository) See next slide for Search details box.

18. Highlighted are the Search details that include all fields (keyword) for malaria, infection, infections and africa AND MeSH (Medical Subject Headings) Terms for malaria, infection and africa. The MeSH Terms are assigned by indexers of the National Library of Medicine. For more information, go to the Advanced Course Module 1.

19. Note the additional hypertext link for Free Article and Free PMC Article. By clicking on this link, you will be re- directed to the Abstract display and be able to access the full text. Also note the bolded terms of the search – malaria, infections and Africa.

20. If you click on the Free Article or Free PMC Article hyperlinks, you are re- directed to the Abstract Format. Click on the Full text links to the publisher’s website and the full text article.

21. You now have access to the full text article from the BioMed Central journal.

22. We now will check the Abstract Format bullet from the drop down menu. We have retained the 20 per page and Sort by Most Recent options.

23. Note the Abstract Format with 20 per page and the Sort by Most Recent options are displayed in the Display Settings line above the abstract. Note the Free Full Text and HINARI Filters. Using these options is up to your preference.

24. After clicking on the Abstract Format, a list of all articles appears including the HINARI and publisher’s icons and/or Free Full Text icons. By clicking on the HINARI icon or the publisher’s icon, the full-text article will display. Note that some articles will have both the HINARI and Free Full Text icons in the Abstract Format.

25. In August 2010, PubMed enhanced the Abstract display. For ‘structured abstracts’, the key headings (INTRODUCTION/BACKGROUND, METHODS AND FINDINGS RESULTS and/or, CONCLUSIONS and KEYWORDS) are listed at the beginning of each paragraph. Approximately 20% of the citations in PubMed use this format.

26. At the bottom of each citation, there is the Similar articles option. The results of this search is 101 articles with 56 Free Full Text and 38 HINARI articles.

27. We now will check the bullet for the MEDLINE Format and retain the 20 per page and Sort by Most Recent options.

28. Note the listing of Medical Subject Headings (MeSH) terms in the MEDLINE option.