|The University of Adelaide||Home | Faculties & Divisions | Search|
|You are here: Library Home > Subjects G - Z > Pharmacology||
Pharmacology Journal Club Talk
by Mick Draper May 2011
Variability in the P-glycoprotein drug transporter and its influence on immunosuppressant (Tacrolimus) efficacy and safety in renal transplant patients.
A logic grid is useful to sort out the language and logic needed to produce a good search strategy.
There are 4 concepts here.
Now to find subject headings, synonyms, or alternative terms for these concepts.
I like to begin with PubMed because it includes a standardised set of subject headings that goes back a long way, and an excellent search engine.
PubMed citations come mostly in 3 types
[As supplied by publisher]
It's useful to search using MeSH because this should find most of the citations in the database that are on a particular concept.
I begin in the MeSH database looking for p-glycoprotein.
Type in one concept at a time, and it's best to use the term that is most often used in the literature.
The MeSH database finds 10 subject headings. The first two look promising, especially the first one.
I click on the link to P-Glycoprotein.
I scroll down the screen to find where this MeSH appears in a hierarchy of related MeSH.
Now that I've confirmed p-glycoprotein as a MeSH I can add it to my logic grid.
I'll demonstrate a search of the PubMed FAQ to show [tiab] and [tw].
Because p glycoprotein doesn't have more specific headings listed below it, I can search for it as a MeSH and in the titles, and abstracts of citations as a text word.
If I look at the Entry Terms in the MeSH database I might find some synonyms or alternative terms for this concept.
I can add these terms to the logic grid with [tw]
I'll look at the MeSH for tacrolimus next.
Again this concept is at the bottom of the hierarchy and so we can use [tw] as the field tag.
I've also added the terms for the concept of renal transplant as well.
Notice that I've used * in the second and third columns.
Searching renal transplant* will let me find
renal transplant OR renal transplants OR renal transplantation OR renal transplantations etc
I've decided that the final concept includes either efficacy or safety.
Here's the MeSH for Safety.
The MeSH Safety has a more specific term listed below it in the MeSH hierarchy.
Because I also want to search safety and safe etc as text words I'll include both safety[mh] and safe*[tw] in the logic grid.
Now comes the slightly trickier bit because there are other terms that have to do with safety that don't appear on this MeSH screen.
I think it would be worth searching treatment outcome as an alternative term for safety.
Now I'd like to add subheadings that have to do with safety.
Because [tw] covers subheadings then I could choose to use this tag instead of [sh].
I could have used the subheadings added to MeSH such as p-glycoprotein/adverse effects[mh], but I prefer to add them as floating subheadings so that they can be associated with any appropriate MeSH such as p-glycoprotein, tacrolimus or kidney transplantation
I'll demonstrate the reason for the brackets(p-glycoprotein[tw] OR multidrug resistance protein 1[tw] OR p-gp[tw] OR mdr1 protein[tw] OR abcb1[tw]) AND (tacrolimus[tw] OR prograf*[tw] OR fr 900506[tw] OR fr900506[tw] OR fk 506[tw] OR fk506[tw]) AND (renal transplant*[tw] OR kidney transplant*[tw] OR kidney graft*[tw] OR renal graft*[tw] OR kidney allograft*[tw] OR renal allograft*[tw]) AND (safety[mh] OR safe*[tw] OR treatment outcome[mh] OR outcome*[tw] OR adverse effects[sh] OR administration and dosage[sh] OR standards[sh] OR efficacy[tw] OR effectiveness[tw])
This search can now go into the PubMed database.
How does this result compare with the 'naive' search
p-glycoprotein AND tacrolimus AND renal transplant AND (efficacy OR safety)
I scroll down the screen and click on Clinical Queries.
Using the Abstract display will allow me to find those citations that have links to the online full text articles.
Access to online full text is through the Uni of Adelaide Online icons.
If there isn't a Uni of Adelaide Online icon don't give up.
Look for this journal title in the Library Catalogue or Summon.
If the Library really doesn't have the article, postgrads and staff can make up to 50 interlibrary requests for articles each calendar year without cost.
Now you can select citations to add to EndNote or other bibliographic management software.
You can view similar citations by clicking on the Related citations links.
You can limit your search by date, language, and other options but you should be warned that most of the Limits are MeSH and if you use them you will lose your in process and as supplied by publisher citations.
MyNCBI allows me to save searches and create email alerts.
Details of how to do this are available here Saving Searches and Creating E mail Alerts.
A few other things about MeSH
Notice that this MeSH turns up under three separate subject 'branches'.
Pharmacological Action [pa]
Supplementary Concept [NM]
The MeSH for opioid analgesics seems well short of being comprehensive.
Embase has a reputation for covering many more articles on drugs than PubMed, and allowing more specific searching on drug topics.
Embase searches part of PubMed at the same time as searching Embase.
One of the things Embase does better than PubMed is providing more synonyms for subject headings.
Here's a search for opioids as a subject heading.
Opiate is a more specific Emtree term under narcotic analgesic agent, and so is included in any exploded search.
Sex differences in opioid-alcohol interactions
First I look for sex differences in Emtree
If my preferred term doesn't come up I can try another term or what I usually do is search for my term in the titles of citations and then look at how these citations are indexed.
I use Advanced search which allows me to use field tags to specify that the search should be made only in the title field.
When searching in Embase phrases have to be enclosed in single or double quotes.
I usually check several citations to make sure that the Emtree terms are consistent.
I look at the definition to make sure this is the term I want.
Because there are no other terms listed below then I don't need to explode the search. I can add it to the logic grid to be searched as a descriptor, in the title, or in the abstract of citations.
The synonyms suggest other terms to search in titles and abstracts.
drug alcohol interaction is an Emtree term so I can combine it with the terms in column 3
I find it easier to do the searches from each column separately and then combine them.
('sex difference':de,ab,ti OR (sex NEXT/1 difference*):ab,ti OR (sex NEXT/1 dimorphism*):ab,ti OR (sexual NEXT/1 dimorphism*):ab,ti OR (sex NEXT/1 factor*):ab,ti)
('narcotic anelgesic agent'/exp OR opioid*:ab,ti OR opiate:ab,ti)
('drug alcohol interaction':de OR alcohol:de,ab,ti OR ethanol:ab,ti)
Drug Searches in Embase
Click on the Drug search tab.
You can select a wide range of subheadings and routes of administration