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Medicine Discipline HonoursLast update February 2009
Databases for finding journal articles
The Databases web site includes a short essay about which databases are most appropriate for searching.
PubMed is the major free medicine and life sciences database It's available from the databases site,
From the Library home
and from the Resource Guide for the discipline
PubMed is available from the Catalogue To get the Uni of Adelaide customized version PubMed Logic Grids Write out the main concepts and underneath each concept add any synonyms or alternative terms. Logic grid for a search on Gastroduodenal Motility and Type 2 Diabetes Mellitus
MeSH (Medical Subject Headings)
The subject heading has been in use since 1966. Add gastrointestinal motility to the logic grid. gastrointestinal motility[mh] Now look at the Entry Terms.
You could also add gastrointestinal motilities, intestinal motility, and intestinal motilites to the logic grid.
Your first logic grid column should now be looking something like this
Scroll down the MeSH Database screen and view the MeSH Gastrointestinal Motility in the hierarchy of MeSH.
You can use * to truncate terms to reduce typing, but don't truncate MeSH or phrases.
Now look at the next concept, Type 2 diabetes mellitus
Add the MeSH to the second column of the logic grid, then look at the Entry Terms to see if there are any terms that authors might use in titles and abstracts of articles to describe the contents. There are a lot of Entry Terms that you might add to the logic grid
You should use this grid to sort out the logic for your search. Join the sets of bracketed terms by AND logic. (gastroduodenal motility[tiab] OR gastrointestinal motility[mh] OR intestinal motility[tiab] OR gastric emptying[tiab] OR gastrointestinal transit[tiab] OR migrating motor complex[tiab] OR migrating myoelectric complex[tiab] OR peristals*[tiab]) AND (type 2 diabetes[tiab] OR diabetes mellitus, type 2[mh] OR adult onset diabetes[tiab] OR ketosis resistant diabetes[tiab] OR maturity onset diabetes mellitus[tiab] OR niddm[tiab] OR mody[tiab] OR non insulin dependent diabetes mellitus[tiab]) This can be entered into the PubMed search box.
When You Can't Find a MeSH
When this happens it's often useful to search for your term in the titles of articles.
Change the Display format to Citation.
Make sure you check several of the citations for consistency. Related Articles Click on the Related Articles link to the right of a PubMed citation.
Study Types Major MeSH example search asthma AND child In the MeSH database find the first of your search terms.
Scroll down to where you can restrict your search to Major MeSH and click in the box to the left.
Click on Sent to and then on Search Box with AND
Repeat with the second MeSH child.
Limit Searches Using MeSH Subheadings
Find the first MeSH androgen antagonists.
Click on Send to
The software begins setting up a search to run in PubMed. Now type in your second concept term prostate cancer.
PubMed redirects from this term to the MeSH Prostatic Neoplasms.
Click in the box to the left of the MeSH.
Click on the Search PubMed button to run the search in the PubMed database.
Limiting Using PubMed Clinical Queries Filter
PubMed Limits
You can limit by date
You can limit to English
Click on Go at the top or bottom of the screen to enforce the Limits.
Display Formats and Fulltext Access
If there is no Uni of Adelaide Online icon then check the journal title (not the article title) in the Uni of Adelaide Library catalogue.
Just because there isn't an icon doesn't mean that we don't have access to the article. Saving Searches and Alerts
Once registered you can save searches.
For more information on My NCBI look at the online tutorial Saving Searches (4 min) Importing Citations from PubMed To EndNote Mark the citations you want, or if you want all of them mark none.
Change the display to MEDLINE
Click on the Send to box. Click on File.
Save the file, don't open it.
Change the name of the file if you like, and remember where you put it on your computer.
Open EndNote.
Make sure the PubMed filter is showing.
Here are two animated tutorials on using EndNote Animated tutorial on importing PubMed Citations into EndNote. The next presentation will show you how to add citations from EndNote to a Word document First year PubMed Tutorial on the basics not covered here. Other DatabasesScopus You can use almost the same search for Scopus as you used for PubMed, but Because Scopus can find a MeSH such as asthma, and also find title and abstract words such as asthmas, asthmatic, asthmatics etc you can use both asthma & asthma* in your search. There is a link to Scopus from the Databases site and from the Library home.
Use Advanced search unless your search has only a few terms.
Scroll down the 'Codes' box to find and double click on TITLE-ABS-KEY
Enter the terms from the first column of your logic grid inside the brackets generated by Scopus.
Scopus as well as finding citations also provides a link to other articles that cite the articles found
You can select and save citing references to a list.
You can collect citations from those found by your search, and from the citing articles and continue to add them to a list.
Select All the citations in your list.
Click on Output to move the citations to EndNote
Change the Export format to RIS.
This is direct export so click on Open in the dialogue box.
Web of Science and Google Scholar can also be used to find citing articles. Saving Searches and Alerts in Scopus
Web of Science Citation Search As with Scopus you can use this database to find citations to articles that you know about already. Buchanan G, Irvine RA, Coetzee GA, Tilley WD 2001. Contribution of the androgen receptor to prostate cancer predisposition and progression. Cancer Metastasis Reviews 2001;20(3-4):207-23
Click on the CITED REF SEARCH button
You can now select individual citations from those found.
You can Save, Export, email, Print selected citations or all the citations.
I suggest at this stage it's often useful to add citations to the Marked List.
You can continue to search any of the Web of Knowledge databases and your citations in the Marked List will be held for you.
Select the fields you want included in the citations.
Leave the formats as Field Tagged and choose Save to EndNote not EndNote Web.
Other Web of Knowledge Databases Biosis Previews covers many medical and life sciences journals and can find citations not included in PubMed. Current Contents Connect covers a wide range of disciplines including life sciences and clinical medicine. It's designed to be very up to date. CAB Abstracts has some articles on human health, and a lot on animal health. Medline appears as a Web of Knowledge database but it's less flexible, and not as up to date as PubMed. To select another Web of Knowledge database click on Select a Database.
Saving Searches and Alerts |
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