PubMed Searching Workshop
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Workshop given to first year MD students at McGill University, October 2012
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PubMed Searching Workshop
- 1. LIFE SCIENCES LIBRARY PubMed Workshop Basis of Medicine Unit 2 October 2012
- 2. What do you know about PubMed? “Unfiltered” information tool – contains individual studies Good for answering foreground questions Produced by the U.S. National Library of Medicine Funded by U.S. taxpayers Open for anyone to use Contains over 22 million citations (as of Oct 1)
- 3. Objectives By the end of this PubMed workshop, you will be able to construct an effective search and locate articles using: 1. MeSH headings 2. MeSH subheadings 3. AND operator 4. PubMed filters 5. Publishers’ links or “Find it @ McGill” links
- 4. Give it a try You’re preparing for a class on disabilities impacting people living with AIDS. Find articles in PubMed on hearing loss for people with AIDS.
- 6. Which Subject Heading Explodes? A. Bird Diseases B. Neutropenia
- 7. Practice finding MeSH terms St. John’s Wort Upper extremity
- 8. Using subheadings You observe a patient with chronic fatigue syndrome, and you want to know more about the research on possible causes
- 9. Narrowing the search You observe a patient with multiple sclerosis suffering from chronic fatigue syndrome. Find articles on possible causes of chronic fatigue in MS.
- 10. Using Filters Sara is a 70 year old patient with breast cancer. You are wondering about the use of tamoxifen for this patient. Find articles discussing the use of tamoxifen in older breast cancer patients.
- 11. Putting it all together You’re working in a community clinic and have seen many older adults at risk for developing type 2 diabetes. As a research project, you want to test the effectiveness of a patient education program for adults 65 years and older to prevent this disease. Find out if any similar projects have been reported in the literature.
- 12. Assignment Prep George is a 40 year old obese man diagnosed with non-alcoholic fatty liver disease. You would like to see if diet therapy is an option for him.
- 13. Assignment Three questions based on one case scenario To be completed individually Due by 5 pm on October 30, 2012 Submitted to Dean’s office, 6th Floor of McIntyre Questions? Contact Robin Featherstone robin.featherstone@mcgill.ca
Notas del editor
- Let the class answer this question on their own, then show them the answers. Note: if you want to find out how many citations are in PubMed on the day of the class, run a search for all[sb]
- Read the question, and then ask them to search it. After they have done the search, ask volunteers how many results they got ask students to look at the abstracts—are the articles about Acquired Immunodeficiency Syndrome? Note: most of the results are about “hearing aids” and not AIDS. Check the search details box to show class how PubMed interprets your search.
- Show the students this record. Point out how MeSH headings were used to describe it. Link to the mesh heading for Hearing Loss/ – show that it explodesGo back to the citationLink to the mesh heading for AIDS – show that it does not explodePoint out that we can use MeSH and the MeSH database to improve our searching. Demonstrate the search using MeSH and the PubMed Search Builder:(”Hearing Loss"[Mesh]) AND "Acquired Immunodeficiency Syndrome"[Mesh] = 42 results
- Do a little test of the class to make sure they know which terms explode
- Ask the class to find the MeSH terms for these concepts.Note: St. John’s Wort maps to Hypericum (does not explode)Upper extremity maps to the same term (explodes)When they are done – ask the class which term exploded.
- Use of SubheadingsAsk the class: What concepts do we have here? Click to underline chronic fatigue syndrome (CFS) and causes. Explain that subheadings are used with MeSH terms to further describe a particular aspect of a MeSH concept,such as "etiology" or ”drug therapy”.Explain that each MeSH term has a predefined list of subheadings which may be used with it.You may select one, several or all the applicable subheadings for your MeSH term. BEST PRACTICE: use one or two only.Demonstrate > Look up the MeSH term for CFS > point out the “subheadings” link to define each subheading. Point out the heading for therapy. Does not include drug therapy, diet therapy, radiotherapy, and surgeryRun the search > "Fatigue Syndrome, Chronic/etiology"[Mesh] = 1751 results (still a lot!)
- Using AND to narrow a searchAsk: What are the main ideas of this question? Animation: Chronic fatigue and causes still there—now add a third oneDemonstrate using the PubMed search builder to add two terms using ANDPoint out that Multiple Sclerosis explodes, ask if they may want to turn that function off? Why? Why not? Point out: logic of using the etiology subheading with CFS (and not MS). ("Fatigue Syndrome, Chronic/etiology"[Mesh]) AND "Multiple Sclerosis"[Mesh] = 43 results
- FiltersWhat are the concepts? Tamoxifen, breast cancer. Then talk about filters, older patient, etc. ("Breast Neoplasms/drug therapy"[Mesh]) AND "Tamoxifen"[Mesh]If filter for Ages does not appear: Show additional filters > select AgesAges will now appear as one of the possible filtersFilter to 65 and older = 2159 Still a lot! So use another limitFilter to Review = 109 Explain how could use language, years , Publication typeProblematic filters: sex, text availabilityIMPORTANT: MENTION THAT YOU HAVE TO TURN FILTERS OFF BEFORE STARTING A NEW SEARCH
- ("Diabetes Mellitus, Type 2/prevention and control"[Mesh]) AND "Patient Education as Topic"[Mesh]Filters: Aged 65+Note: have the students find the concepts independently. Demo the search when they are done. IMPORTANT -Note: point out options to send yourself the search strategy (email without selecting any checkboxes next to citations)Note: point out options to send yourself citations (email after selected the checkboxes next to chosen articles)
- Concepts in this slide: Using subheadings Using AND Relevancy of results Practicing for the assignmentThis question is most like their assignment, so have them practice as if it were their assignment= have them email a relevant article to themselves and the search strategyDon’t explode here b/c Fatty Liver, alcoholic/ is narrow term for Fatty Liver/Trick Non-alcoholic fatty liver maps to a supplementary concept record. Link to Fatty Liver to get the correct MeSH heading.