Research and Learning Presentation on Advanced PubMed search strategies and EndNote support.

1. May 23, 2014

2.  Will learn techniques for constructing
effective search strategies
 Explore PubMed related tools
 Will increase efficiency in utilizing PubMed
and other databases
 Will be sharing trends and ways to stay
current
 Identifying resources for citation
management support

3. Topic: Intra-aortic balloon pumps intra-aortic balloon pump counterpulsation for refractory
symptomatic vasospasm
 Search Builder
◦ Advanced search
◦ Boolean Search (AND/OR/NOT)
 doctors OR physicians
 tumor OR tumour
 doctors AND managed care
 injuries AND automobiles

4. OR AND
Boolean operators:
AND, OR, and NOT
must be entered in UPPERCASE.

5.  Enclose a phrase in double quotes
◦ Example: “spinal surgery”
 Try without quotes first
 Truncate a search by using an asterisk (*).
This is commonly referred to as a “wildcard
search”
◦ Example: mimic*
 PubMed searches: mimic, mimics, mimicing etc..
 “Nest” search terms in parentheses. The
terms inside the set of parentheses will be
processed as a unit and then incorporated
into the overall strategy.
◦ Example: salmonella AND (hamburger OR eggs)
 PubMed will retrieve records that contain the term salmonella, as well
as one or both of the terms hamburger OR eggs.
PubMed also refers to a list of
commonly found words that are
referred to as "stopwords."
Stopwords are words that, if indexed,
could potentially return every
document in the database if the word
was used in a search statement.
Consequently, commonly found words
are not indexed and PubMed will
ignore them.

6. Search Details
The Search Details portal is an important tool to use when building a search.
If you notice that the results PubMed has retrieved for a search are not
relevant, you should check the Search Details section to see exactly how
PubMed has translated your query.
An example would be a broad search for nursing (profession). While
you have just searched the word nursing, PubMed translated that as:
"nursing"[Subheading] OR "nursing"[All Fields] OR
"nursing"[MeSH Terms] OR "nursing"[All Fields] OR "breast
feeding"[MeSH Terms] OR ("breast"[All Fields] AND
"feeding"[All Fields]) OR "breast feeding"[All Fields]
PubMed mapped “nursing” to “breast feeding” and returned 578358
results. While taking out those terms in red will return 550360. A
28,000 article difference!

8.  Filters
◦ Article Types
◦ Publication Dates
◦ Subjects
◦ Journal categories
◦ Language
 Custom Filters
◦ KUMC Research: university of kansas medical center
[ad]
◦ BMJ, JAMA, & NEJM: "BMJ (Clinical research
ed.)"[Jour] OR "JAMA : the journal of the American
Medical Association"[Jour] OR "The New England
journal of medicine"[Jour]

9.  Related Citations
134 Related Citations!
Related Citations
View the full record for an article
(Abstract or Summary view) and
click on the Related Citations link to
retrieve closely related citations,
based on shared MeSH (Medical
Subject Heading) terms.
Reviews
To narrow your search results to
review articles, click on Review in
the left-hand column of your search
results, under Article types.
Or, from the Advanced Search
screen, select Publication Type from
the pull-down Search Builder menu.
Enter Review in the Search Builder
box, then click Add to Search Box.
Enter any additional search terms,
then click Search.

10. Mine citations from related articles to build
your citation base!

11.  1. Find five citations on using dog therapy with dementia patients. Write
down their PMIDs
 2. Find a list of articles written by someone from the University of Kansas
Medical Center.
 3. Find citations in English on randomized control trials that address the
treatment of fibromyalgia using alternative medicine. How many did you
get? How many are available Free Full Text?
 4. (ADVANCED) You are watching a documentary on how Abraham Lincoln
died. According to the documentary, Lincoln died because a doctor inserted
the tip of his finger into the bullet hole in his skull during the examination.
Is this true? Find an article to back up your answer.

12. What is MeSH and when
should you use it?

13. Why should you use MeSH?
 If you use two or more words in a
keyword search there is no guarantee
that they will be linked.
 MeSH headings are an efficient way to
find information on “concepts” or topics
where authors use different language to
discuss the same ideas.
 For example: Accidental Falls

14.  Do a Title word search; display results in Citation
format; identify MeSH
OR
 Search the MeSH database
◦ Scope Note
◦ Subheadings
◦ Major Topics
◦ Explode

15. Thorough search Quick search
 MeSH
◦ Provides ‘true’ meaning of
term where a word might be
use in more than one
context
◦ Includes synonyms
◦ Deals with homonyms
◦ Aids in term discovery
◦ Helps with spelling
variations and/or errors
 Keyword search
◦ Recent publications (in
process)
◦ Records supplied by
publishers
◦ New phenomenon

16. Article: Use of intra-aortic balloon pump counterpulsation for refractory symptomatic vasospasm.

17.  Find MeSH Headings for your topic
◦ Do an Advanced Search for your topic
 Use MeSH and Keywords
Extra: Using the Advanced Search builder,
determine how many articles are available on the
psychology of bullying (MeSH terms). How many
did you find?

18. Clinical Queries, PubMed Specific
Topics, ClinicalTrials.gov &
PubMed Health

19. Three filters:
• Clinical Study Categories
• Systematic Reviews
• Medical Genetics
What do you get when you do
a broad search on
‘neurosurgery’….

21. Helps with filtering the evidence.
The clinical studies side also lets you choose broad or narrow
scope. If you choose narrow, the search will be more focused with
fewer results, while broad will get you more results but they’ll be
less focused.

23. Core clinical journal subset

24. Abridged Index
Medicus (AIM) Journals
• 119 titles
• Considered “core
clinical journals”
You can search just
the core journal
subset by searching
the NLM Catalog
using:
jsubsetaim[All
Fields]

26.  PubMed Health provides
information for consumers and
clinicians on prevention and
treatment of diseases and
conditions.
 PubMed Health specializes in
reviews of clinical effectiveness
research, with easy-to-read
summaries for consumers as well
as full technical reports
 Clinical effectiveness research
finds answers to the question
“What works?” in medical and
health care.
 Can subscribe to RSS feeds

27.  You are writing a literature review and need a
list of seminal resources
◦ Answer: Topic Specific Queries

28.  You wish to quickly find bedside information
regarding therapy and prognosis for
moyamoya disease.
◦ Answer: Clinical Queries

29.  You are in a morning huddle and you need to
quickly access clinical effectiveness research,
which you must share with the patient.
◦ Answer: PubMed Health

30.  You need to find information regarding
current clinical trials.
◦ Answer: ClinicalTrails.gov

31. Tips and Tricks for
Searching and Using PubMed

32. PMID will link you directly to the article.
You can link to any PubMed article using the format:
http://www.ncbi.nlm.nih.gov/pubmed/PMID#
Example: http://www.ncbi.nlm.nih.gov/pubmed/19112134

33. Some articles will have
a PMID and a PMCID.
The PMCID will link you
to the ePub Reader.

34. Link: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2096491/

35. Use when you know
exactly what you need
.
 The Single Citation Matcher,
available from the PubMed
Home page and the
Advanced Search page,
allows you to fill in the
information you have about
a citation (e.g., author, title,
journal, volume, issue,
page) by field.

36. Useful when you are determining
possible publishing avenues.

37.  How to Search the
Catalog
◦ Title
◦ Author
◦ Subject
◦ Phrase
◦ Boolean search
◦ Index

38.  Send to
 Favorites
 Save Searches
 Collections
 My Bibliography
Using MyNCBI Tutorials

40.  http://www.nlm.nih.gov/mobile/
 PubMed Mobile
 UnBound MEDLINE
 GoPubMed
 PLoS One
 PubChase
 PubMedster
 PubMed Trends
 PubMed4Hh
 PubSearch
 PubGet
 PubMedHH (PICO)
http://pubmedhh.nlm.nih.gov/nlmd/pico/piconew.php

41.  Ability to do basic searches in
PubMed
 Ability to view “Free Articles”
only
 Open PDF documents on your
mobile device
 Not device specific
 Automatically directs you to
the mobile site when on a
mobile device

42.  Log in only once and access
any journal from your
library’s subscription
 Search all of PubMed and
more
 Save full-text PDFs to take
with you and read offline
 Add notes to any PDF while
reading
 Share papers with friends
and colleagues

43.  PICO search
 askMEDLINE
 Consensus
Abstracts
 Search
MEDLINE/PubMed
journal abstracts

44.  Search trends for more than 230,700
phrases / terms based on MeSH
 Trend graph 1: Growth [%], in relation to
published articles
 Trend graph 2: Number of related PubMed
articles p.a.
 Trend graph 3: Number of occurrences in
articles p.a.
 Trend graph 4: Associated articles in MeSH
category
 Option to aggregate multiple phrases in a
single graph
 View MeSH category tree (hierarchical
structure) for a given phrase
 Suggestions (similar / related phrases) for
a given phrase
 Browse available phrases for a given term
 FAQ explaining the graphs in more detail
PubMed Trends is a meta-database containing aggregated information
from 7.14 million scientific papers published over the last 10 years. Get
trends for a large set of phrases / terms based on MeSH 2012 (Medical
Subject Headings), a hierarchically structured vocabulary for the
purpose of indexing journal articles in life sciences.

45.  A simple PubMed interface
 Limited searching options
 Real functionality comes
from being able to access
your account via a web
browser (desktop or mobile)
 If you work on a computer,
but also want to access
your research on a mobile
device, consider this app

46.  Retrieves lists of citations
and, if available, free full
text articles from PubMed
Central
 Quickly retrieves articles,
sorted in descending order
of similarity
 Search results can be
emailed, printed or copied
to the clipboard
 LinkOut’s connect to free
full text articles if available

47. PubMed “New and Noteworthy”
topics are located at:
http://www.ncbi.nlm.nih.gov/feed/rss.
cgi?ChanKey=PubMedNews

48.  The Abstract display for PubMed clinical trial
citations may now include a "Cited by
systematic reviews" portlet if the trial is cited
in a PubMed Health systematic review.

49.  PubMed Advanced Search
Builder (embedded)
 Use MeSH to Build a Better
PubMed Query
 PubMed Commons
 Retrieving Citations from a
Journal Issue
 E-mail Alerts for Articles from
Your Favorite Journals

50.  To be eligible to use PubMed
Commons, you must be an
author of a publication in
PubMed.
 You will need an invitation to
join PubMed Commons and an
NCBI account. This is free of
charge

51. Search PubMed using:
has_user_comments[sb]

52. Allows hyperlinking
Moderated Comment

53. Let’s Play a Game!
The PubMed® Game
From PubMed for Experts
Brought to you by NN/LM Pacific Southwest Region
February 2013
rev 5. 5x4

55.  http://endnote.com/training
Citation Management Subject Guide:
http://guides.library.kumc.edu/citation
management
Guide includes:
• How-to Guides (Mac & PC)
• KUMC specific EndNote links
• Information on output styles
• Information on filters
• Additional EndNote support options*
*You can also call Thomson and Reuters tech support at 800-336-4474
(at the prompts dial 4, 1, 1).

56. Link: http://endnote.com/if/online-user-manual/x7

57. Easy to use playlists:
• Learn EndNote
Podcast
• Starting & Upgrading
• Adding References
• Groups, Preferences,
and Miscellany
• EndNote Full Class
Recordings
• EndNote for iPad
• Creating
Bibliographies
https://www.youtube.com/user/End
NoteTraining/playlists

58. Contact us:
• by email: dykesresearch@kumc.edu
• by phone: 913-945-5990
• by IM: (Lync)
• by walk-in: G023 Murphy
Heather Collins
Assistant Director, Research and Learning
hcollins@kumc.edu
Sara Robertson
Research and Learning Specialist
srobertson@kumc.edu
Christina Magnifico
Research and Learning Specialist
cmagnifico@kumc.edu