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PubMed: Medline with a Future. Laura Larsson Research Librarian Health Services revised September 11, 2014 [email protected] Objectives. learn how to use this new Web-based software to perform online database searches learn basic and advanced searching

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Pubmed medline with a future

PubMed: Medline with a Future

Laura Larsson

Research Librarian

Health Services

revised September 11, 2014

[email protected]


Objectives
Objectives

  • learn how to use this new Web-based software to perform online database searches

  • learn basic and advanced searching

  • specialized tips for finding citations


Pubmed
PubMed

  • New development in the area of online database searching


Medline
MEDLINE

  • bibliographic citations and author abstracts

  • All fields of medicine

  • 3,900 current biomedical journals published in the United States and 70 foreign countries

  • >9 million records dating from 1966+

  • Medline is updated weekly and the records incorporated into PubMed


Premedline
PREMEDLINE

  • Basic citation information and abstracts done first, then MeSH added and record checked later on

  • New records added to PREMEDLINE daily


Pubmed s homepage
PubMed's Homepage

  • http://www.ncbi.nlm.nih.gov/pubmed

  • The sidebar provides help, an overview, gives you NLM news and announcements, and gives you clinical queries with built in search "filters”



Marvellous features include
Marvellous Features Include:

  • The Journal Browser

  • The Citation Matcher program

  • Related articles, or, “More Like This!!!!”


The journal browser
The Journal Browser

  • The Journal Browser enables the viewer to look up journal titles by the title, keyword, title abbreviation or ISSN number.


The citation matcher
The Citation Matcher

  • if you only have

    • the author’s family name and the date, you can locate the citation

    • the author’s family name and the pages, you can locate the citation

    • the date and pages

    • other variations on this theme


Related articles
Related Articles

  • once you’ve found one article, you can click on Related Articles and find ones which have similar indexing and content

  • very, very useful

  • more on this feature, below


Four different modes of searching
Four different modes of searching

  • Basic Search

  • Advanced Search

  • Boolean Search

  • Clinical Queries


Basic search mode
Basic Search Mode

  • Enter the terms in the query box

  • Terms are automatically ANDed together so that all terms or concepts appear in the records displayed

  • Click on Search after all terms are added to enable the search


Author searches
Author Searches

  • enter author as: surname ii

  • if you enter larsson l, you will get back larsson la, larsson lb, and so on

  • use quotes to prevent truncation from occurring: “larsson l”


Author subject
Author + Subject

  • health care administration “ross a”


Author article title
Author + Article title

  • “ross a” moving into the twentieth


Journal title searches
Journal Title Searches

  • enter the journal’s full name, e.g., journal of nutrition

  • enter the journal’s abbreviated name, e.g., j nutr

  • enter the ISSN, e.g., 0022-3166

  • retrieval will be limited to the specified journal

  • links to full text if articles are available on the Web


Journal title subject
Journal Title + Subject

  • j nutr obesity therapy



Advanced search options
Advanced Search Options

  • Click on Advanced Search from the Homepage sidebar

  • Field specific searches (use Search Field pull-down menu)

  • continue to Add Terms to Query box

  • terms are ANDed together

  • search statement is displayed at the top of the screen with the number of citations (if any)


Lists of mesh terms
Lists of MeSH Terms

  • select Mode | List Terms

  • select the term/s you want by highlighting and clicking on Select

  • scroll up and down the alphabetic display

  • modify the query as desired


Subheadings
Subheadings

  • are used with MeSH to arrive at a more specific aspect of a subject

  • examples include: /epidemiology, /trends, /complications, /diagnosis (and so on

  • look at the handout for subheadings

  • enter the term/subheading; e.g., asthma/drug therapy


Boolean searches
Boolean Searches

  • construct your search using the Boolean operators: AND, OR, NOT

  • AND - (reduces the number of hits) includes only those citations which contain ALL the specified terms

  • OR - (expands the number of hits) citations which contain the terms


Boolean searches continued
Boolean Searches, continued...

  • NOT - (limits) excludes those citations

  • RANGE - (limits) ranges the specified term (e.g., publication date)

  • Boolean operators must be entered in UPPERCASE


Truncating terms
Truncating Terms

  • Called wild card searching

  • use an asterisk *

  • use when youwant to use singular or plural, or when you have a word which might have several endings


Other boolean information
Other Boolean Information

  • Boolean search statements are processed left to right

  • sample search:

    ((neoplasms/etiology [majr] AND sexually transmitted diseases {majr]) NOT hiv infections [mh]) AND english [la] AND 1994:1993 [dp]



Clinical searches
Clinical Searches

  • for clinicians

  • has built-in search “filters”

  • four study categories - therapy, diagnosis, etiology, prognosis are provided

  • increase sensitivity (most relevant articles with some less relevant ones) or specificity (includes most relevant articles but does omit a few)


Clinical searches continued
Clinical Searches, continued…

  • select Clinical Queries from the PubMed Homepage sidebar

  • type in your subject and select the study Category and Emphasis | Search

  • do not use this search method if you wish to retrieve everything

  • this filter is designed to report research conducted with specific methodologies

  • retrieval is limited!!!!


Citation matcher
Citation Matcher

  • match a list of citations to PubMed entries using journal, volume, issue, page number, and year

  • select Journal Browser from the PubMed Homepage sidebar

  • then select Citation Matcher on the Journal Browser sidebar

  • use to locate a single article by selecting Citation Matcher for Single Articles


Retrieving citations
Retrieving Citations

  • if you click or Search (or Enter) in Basic Mode, or if you select: Retrieve # of Documents (Advanced Mode) the search will be run

  • citations are displayed in batches of 20

  • citations appear on a document summary page


Retrieving citations1
Retrieving Citations

  • to print or save a larger number of citations, click on the Docs Per Page pull-down menu and select a number larger than your total retrieval

  • then select Search

  • this redoes the search and re-displays all the citations


To display and print or save citations
To Display and Print or Save Citations

  • to view citations, or to print or save them, you must first display the citations

  • click on the Display button

  • click on the check box to the left of each item to select them

  • no selectons = display all citations


Display formats
Display Formats

  • Abstract report is the default: Journal Citation, Title, Authors, Address or Affiliation, and Abstract

  • MEDLINE report: two-character tagged field

    • use for importing into bibliographic management software!!!!!


Formats continued
Formats, continued...

  • Citation report: Journal Citation, Title, Authors, Address or Affiliation, Abstract, MeSH terms, chemical substances, MEDLINE and PubMed unique identifiers

  • ASN.1 report: A structured format for the full records, in which each data element is explicitly represented


Printing
Printing

  • File | Print or Print icon

  • to save the items to a file, you must first go to the bottom of the page and select your computer (e.g. UNIX, Mac, PC, select the desired file format (text or HTML), then Save

  • use text for saving to citation managers such as ProCite or EndNote


Print warning
Print Warning

  • the number of citations per page is set at 20 (the default)

  • if you want to print more than 20 citations at a time, click on the Docs Per Page pull-down menu and select some number greater than the number of citations you found and click Search.

  • you wil then be able to rerun your search and Save or Print from your browser


Saving
Saving

  • scroll to bottom and specify the kind of computer you are using: Mac, PC, UNIX

  • select format (text or HTML) from the pull-down menus

  • click on Save, select the subdirectory and give the file a name: filename.txt

  • save as Text if you want to save to citation management software


Printing into a citation manager
Printing into a Citation Manager

  • to change the display format, select the Display pull-down menu at the top of the document summary page

  • to import records into a citation manager, select Medline Report


Printing or saving citations
Printing or Saving Citations

  • display all the items, click on the check boxes to the left of the citations and then click on the Display button


Specialized tips for finding citations
Specialized Tips for Finding Citations

  • verifying a citation when all you have is the volume and pages

  • use the Citation Matcher

  • type in what you have


Mesh browser
MeSH Browser

displays MeSH terms in a hierarchical structure

lets users select terms for searching

searcher can attach subheadings directly and limit terms to a Main Concept


Stop words
Stop Words

these words do not get processed when you search

so don’t bother to type them in

examples: a, about, many, meanwhile, myself, sufficiently, where, yet, you


Other points of interest
Other Points of Interest

some shortcomings with the Related Articles algorithm

those articles "related" to an article without an abstract seem to generally also not have abstracts

updates and changes to the PubMed program are noted at:

http://www.ncbi.nlm.nih.gov/PubMed/news.html


Where to get help
Where to Get Help

The NLM PubMed Project. PubMed Overview

http://www.ncbi.nlm.nih.gov/PubMed/overview.html

PubMed Help

http://www.ncbi.nlm.nih.gov/PubMed/pubmedhelp.html


Interesting search
Interesting Search

Rural AND obstetrics AND access AND outcomes

what do you get when you type this search in?

what does clicking on Related Articles get you?


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