PubMed Overview

1
PubMed Overview
From the HINARI Content page, we can access
PubMed by clicking on Search inside HINARI
full-text using PubMed. Note If you do not
properly sign on, you will not have access to
full text articles from the HINARI/PubMed
database.
2
In October 2009, the PubMed display was
re-designed in a simpler and more intuitive
fashion. Remember to access PubMed through
HINARI or you will not have access to the
full-text articles.
3
The bottom part of the initial PubMed page that
is displayed here contains hypertext links to
numerous databases and tools produced by the U.S.
National Center for Biotechnology Information
(NCBI). Note the Bookshelf option that gives you
access to numerous full text e-books.
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The Search box on PubMed is active. Place your
search statement in the box. In this example, we
enter a search for malaria infections AND Africa
into the Search or query box. To execute the
query, click on the Search button.
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Results of the search are displayed in the main
body of the page in Summary Format, 20 Items per
Page and Recently Added Sort by 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
in the HINARI/PubMed searches saved in My NCBI
(see module 4.5). Of the 4849 articles, 2159 are
available via the HINARI filter and 2115 with
Free full text filter ( there are some overlaps).
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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) Search details
that include all fields (keyword) AND MeSH
(Medical Subject Headings) Terms. (below those
displayed)
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Note the additional hypertext link for Free
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 how the terms
of the search malaria, infections and Africa -
are bolded if found in the title.
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If you click on the Free Article or Free PMC
Article hyperlinks, you are re-directed to the
Abstract display. Click on the Full text for
publication link to the publishers website and
the full text article.
9
We now will set the Display Settings drop down
menu for the Abstract Format, 20 Items per Page
and Recently Added Sort by options. To activate
these options, you will click on the Apply box.
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Note the Abstract Format with 20 Items per page
and the Recently Added Sort by options are
displayed in the Display Settings line above the
abstract. Note the Free Full Text and HINARI
Filters. We now will click on the HINARI one.
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After clicking on the HINARI or Publishers icon
in the Abstract display, a list of all the HINARI
articles appears with the HINARI icon. By
clicking on this icon or the publishers icon,
the full-text article will display. The Free
Full Text filter will work in the same way. Note
that some articles will have both the HINARI and
Free Full Text icons in the Abstract display.
12
In August 2010, PubMed enhanced the Abstract
display . For structured abstracts, the key
headings (INTRODUCTION, RESULTS, CONCLUSIONS and
KEYWORDS) are listed at the beginning of each
paragraph. Approximately 25 of the citations in
PubMed use this format.
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At the bottom of each citation, there is the
Related citations option. The results of this
search is 100 articles with 45 Free Full Text and
79 HINARI articles.
14
We now view the Display Settings drop down menu
for the Medline Format, 20 Items per Page and
Recently Added Sort by options. To display click
on the Apply box.
15
Note the listing of Medical Subject Headings
(MeSH) terms in the Medline option. These MeSH
terms are assigned by the National Library of
Medicine for the indexing in PubMed. The terms
can be used to make searches broader or more
precise.
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We now view the Display Settings drop down menu
for the Summary Format, 200 Items per Page and
Relevance Sort by options. To activate, click
on the Apply box. Note The relevance sort order
is based on an algorithm that analyzes each
PubMed citation. For each search query, "weight"
is calculated depending on how many search terms
are found and in which fields they are found plus
a higher weight for recently-published articles.
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The larger listing of 200 Citations is useful in
low-bandwidth situations. These Summaries are
Sorted by Relevance.
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We now view the Display Settings drop down menu
for the Summary Format, 20 Items per Page and
Sort by Title options.
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By using the Sorted by Title option, this list of
citations begins with National Institute of
Health book chapters and then the articles are
listed by title.
20
Another option for accessing the full-text
article is to use the PubMed ID . In
HINARI/PubMed, enter the ID number in the search
box. The abstract version will be displayed. If
this article is a free full text or HINARI
article, the icon/link will be in the top right
corner of the page.
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From the Send To drop down menu, we will be able
to select the File, Collections, Order,
Clipboard, E-mail and other options.
22
You must place check marks in the boxes to the
left of the citations that you wish to send to
File, Collections, Order, Clipboard and E-mail
options. If you do not place check marks in the
boxes, the entire search will be sent to the
option you choose.
23
From the Send To drop down menu, we will click on
File, with the Abstract and Recently Added
options. This will be a document to be
downloaded from your Search. Note how PubMed
lists the of citations you have checked.
24
The pubmed_results has displayed as a .txt file
at the bottom of this web browser. We will use
Notepad to display the file. Note This file
is displayed in Google Chrome. In other web
browsers, this will display in different places.
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We now view the text from a downloaded .txt file
in Notepad. You can save this file to the C/
drive or a flash drive or a CD-Rom. Once saved,
you can print the document. Note these are the
citations of the articles. Go to the HINARI
Journals Collection list to access the full-text
documents.
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From the Send To drop down menu, we have selected
to E-mail a file, with the Summary and Recently
added options. This will be a document to be
sent to the e-mail address you entered as the
recipient.
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In the above message, PubMed has noted that an
E-mail has been sent to the e-mail address you
entered as the recipient.
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Exercises 8-11

• Complete exercises 8-11 in the workbook.