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eXtreme Searching: Getting the Most from PubMed and Google Part I: PubMed. Arpita Bose, MLIS Outreach and Communications Coordinator National Network of Libraries of Medicine Middle Atlantic Region April 30, 2009. Objectives/Agenda. Quick Review of Basic Skills Mapping Phrase Searching

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Extreme searching getting the most from pubmed and google part i pubmed

eXtreme Searching: Getting the Most from PubMed and GooglePart I: PubMed

Arpita Bose, MLIS

Outreach and Communications Coordinator

National Network of Libraries of Medicine

Middle Atlantic Region

April 30, 2009

Objectives agenda

  • Quick Review of Basic Skills

    • Mapping

    • Phrase Searching

    • Limits

  • What’s New

  • MeSH Database

  • Field Tag Searching

  • Subsets

  • Clinical Queries and Special Queries

What is pubmed
What Is PubMed?

  • Produced by the National Center for Biotechnology Information & the National Library of Medicine

  • Accessible worldwide at no charge

  • PubMed includes:

    • MEDLINE (1966 to present)

    • In-process & publisher supplied citations

    • OLDMEDLINE (1950s to 1965)

    • Out-of-scope citations

What is medline

  • The world’s largest biomedical database

  • MEDLINE covers:

    • Medicine

    • Dentistry

    • Veterinary Science

    • Nursing

    • Other Biological Sciences

  • MEDLINE is indexed with MeSH terms

What is mesh
What Is MeSH?

  • Medical Subject Headings

  • Controlled vocabulary terms

  • Explode

  • Automatic Term Mapping

Pubmed teaching tools
PubMed Teaching Tools

MEDLINE/PubMed Resources Guide


  • MEDLINE citation counts

  • Journal counts

  • Field tag abbreviations

  • Subheading hierarchies

  • Subset strategies

  • Fact sheet: What is the Difference between MEDLINE and PubMed?

Pubmed teaching tools http nnlm gov mar training
PubMed Teaching Toolshttp://nnlm.gov/mar/training/

Presentations, manuals

Trifold brochures


  • These limits are assigned at the indexing stage  Restricted to MEDLINE:

    • Humans or Animals

    • Gender

    • Type of Article

    • Ages

  • These limits are assigned prior to indexing:

    • Languages

    • All Subsets (except MEDLINE)

What s new automatic term mapping change
What’s New? Automatic Term Mapping Change

Atm tips
ATM Tips

  • Details, Details, Details!

  • Modify the Query Translation box

  • Use Boolean operators: AND OR NOT

  • Use search tags

  • Use MeSH Database

  • Use Advanced Search

Advanced search try it
Advanced Search -- Try It!

  • Single Citation Matcher will be discontinued

    • Use Advanced Search box (Citation Sensor)

    • Use field searching

  • Limits, Preview/Index, History, Clipboard, Details will move

    • Links in Advanced Search

New summary display
New Summary Display

  • No icons

    • Replaced with links to PMC and/or publisher

  • Article title and author fields

    • Positions flipped

    • Clickable link now article title, not author names

  • Related Articles link moved

Discovery tools
Discovery Tools

Goal: Serendipitous searching

  • Recent Activity

  • Free full text in PubMed Central

  • Patient Drug Information

  • Drug Sensor

  • Related Reviews

Myncbi redesign
MyNCBI Redesign

  • New look and navigation

  • New features

    • Username retrieval

    • My Bibliography

Changes to mesh
Changes to MeSH

  • New MeSH terms

    • Evidence-Based Dentistry

    • Evidence-Based Nursing

    • Evidence-Based Practice

    • Integrative Medicine

  • New age check tag: Young Adult

    • 19-24 (U.S. Census definition)

  • Summary of changes: http://www.nlm.nih.gov/pubs/techbull/nd08/nd08_medline_data_changes_2009.html

Mesh database
MeSH Database

  • Search with MeSH terms (Headings, Subheadings, Publication Types); Supplementary Concept terms (Substance Names); Pharmacological Action terms

  • See scope note and other helpful information

  • Display MeSH terms in the hierarchy

  • Limit MeSH terms to a major concept

  • Attach subheadings

  • Link to NLM MeSH Browser

Floating a subheading
Floating a Subheading

  • Definition: Search for a subheading without attaching it to a particular MeSH heading

  • Goal: Broader retrieval (but less precision)

  • Examples

    • Not sure which drug should be used for therapy? /tu

    • Not sure which drug caused the adverse effect? /ae

    • The subheading aspect is of interest, but it is not associated with the searched MeSH term

    • Indirect questions: What conditions does smoking affect?

Searching with field tags
Searching with Field Tags

  • Affiliation [AD]

    • Institutional affiliation and address of the first author of the article

    • Be creative/comprehensive: Institution name; endowed name; abbreviations; zip code; e-mail suffix

  • Journal Name [TA]

    • All single-word journal titles should be tagged

  • Personal Name as Subject [PS]

Searching with field tags continued
Searching with Field Tags (continued)

  • MeSH Headings [MH]

    • Major MeSH [majr]

    • To turn off auto-explode

      • [mh:noexp]

      • [majr:noexp]

  • Subset [SB]

    • LinkOut provider: loprovmedlib [sb]

Searching with field tags continued1
Searching with Field Tags (continued)

  • Journal subsets

    • Bioethics journals: jsubsete

    • Health administration journals, non-Index Medicus: jsubseth

    • Index Medicus journals: jsubsetim

    • Consumer health journals, non-Index Medicus: jsubsetk

    • Health technology assessment journals: jsubsett

Other search types
Other Search Types

  • Clinical Queries

    • Evidence-based medicine hedges

    • Systematic Reviews: Also found in Limits > Subsets

    • Clinical Study Category

  • Special Queries


Use a MyNCBI personal account to:

  • Save citations

  • Save searches

  • Create automatic e-mail updates (current awareness)

  • Add custom filters (results tabs)

  • Personalize the look of PubMed

    Use a MyNCBI shared account to:

  • Create MyNCBI Shared Filters

  • Activate Shared Filters with a Specialized URL

Saving citations
Saving Citations

1. Select citations

2. Send to Collections

Saving searches
Saving Searches

You will be prompted to sign into your MyNCBI account

When to use e mail updates
When to Use E-Mail Updates

  • Subject search for yourself or a patron

  • Table of contents (TOC) for a journal

  • Publications from your institution

    • Use [ad] for affiliation, e.g. NYU Medical Center [ad]

  • Publications from an individual



Thank You!

Arpita Bose