Journal Searching and Citation Management with EndnoteWebJournal Searching and Citation Management with EndnoteWeb

Nancy B. Clark, M.Ed.Director of Medical Informatics Education

FSU College of MedicineSummer 2011

1All recourses are available online in Medical Informatics site under Topics: Research

My Goal

All faculty and students will correctly cite all copyrighted resources (images, articles, videos, etc.) in their:PresentationsPostersPapers –Annotated Bibliography, Health Topic

Brief, and Surgery Research Paper

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Session Objectives

Attendees will be able to Use Pubmed to search the medical journalsFind full text peer-reviewed journal articlesFind online health statsCite appropriately in a specified styleUse Endnote Web to manage citations and

references for papers, posters and presentations

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Tutorials Available

Tutorials at Pubmed Searching PubMedUsing Mesh TermsUsing My NCBI

Tutorials at EndnoteWeb.com

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Supportive Materials

Policy Brief InstructionsExamples of AMA style citations

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Essential Software

MSWord 2010Endnote Web Cite While you Write plugin

http://www.endnoteweb.com

Stedman’s Medical Spellchecker

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Find the JournalsFind the Journals

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Levels of References

Primary:

Peer Reviewed

journal articles

Secondary:

Not peer reviewed Primary

Secondary

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Levels of Peer Reviewed Information

Primary: original

research

Secondary: review

articles

Tertiary: textbooks,

summaries

Primary

Secondary

Tertiary

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Clarification for Assignment

Primary means original research on topicSecondary means everything elseAnnotated Bibliography 8 references requires

Periodical Databases

See FSU Libraries > Databases A-Z or Databases By Subject ERIC (education journals) Lexis-Nexis Academic Universe (business,

government, medical, legal...) Access World News (major newspapers) PsychINFO (social sciences) Web of Knowledge/Science (science, social

science, arts and literature citations)

MEDLINE (medicine)

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What is MEDLINE?

produced by the National Library of Medicineelectronic version of Index Medicus, International

Nursing Index, International Dental Literature1966 – present4,000+ international biomedical journalsincludes journal articles, reviews, letters, editorials,

comments, some conference proceedings and books

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MEDLINE Fields

AuthorTitleDateType of publicationJournal, Volume, IssuePage numbersAbstract

InstitutionMeSH HeadingsA lot of cataloging

numbers

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Where is MEDLINE?

Pubmed (NLM)Google ScholarMDConsultMedscape

Links to Full text journal

articlesBooksEBM databases

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Getting To PubMed From Library1. Use Search Engines PubMed Box or

2. Use MedResources List or Map

3. Type PubMed into Online Resources searchID is built into links

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PubMed MEDLINEEntering PubMed

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Tutorials

Type search terms

Save searches in NCBI

Why get NCBI Account?

Save searches Save citations in My Bibliography Automatically update and e-mail search results

from your saved searchesFilter search results Highlighting search terms

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PubMed MEDLINEPreliminary Results

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Large number of hits.

Scroll down to ‘Details’ to show how PubMed translated the search. (You can modify the search by typing in the text box.)

Boolean Operators

ANDORNOTParenthesis*quotes

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“medication errors” AND “quality improvement” NOT (ambulatory OR “nursing home”)

PubMed MEDLINELimit Results

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Click on ‘Limits’Limit by• Pub Date• Subjects• Type journal• Type research• Language• …Warning: Limits all searches until removed

Types of Articles

EditorialsLettersReview ArticlesMeta-Analysis

Systematic reviews

Clinical Guidelines

Original ResearchCase StudiesCase ControlTime SeriesCross sectionalCohortControl trialsRandomized Control

Trials

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PubMed MEDLINERefined Results

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Number of hits is still quite large. (384 from previous 22,441)

Add ‘cancer ethics’ to the search terms.

PubMed MEDLINE

Multiple Terms:Use Advanced

Search History#2 AND #3Click on number

of hits to see results

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Combining Searches

Getting the articles

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Display Settings:Select ‘Abstract’ view and click on ‘Apply’

Click on FSU icon to link to full text.

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Click on Article Title: Abstract View

Related Citations

Link to full text FSU subscriptions

MeSH Terms

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Use MeSH terms to find search terms.

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When there is no FSU Button…When there is no FSU Button…

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Identify the Full Journal Title

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Finding Full Text Articles

Pubmed Linked to full text? No…1. Medical E-Journals list from library

webpage? Not listed…2. FSU E-Journals from library webpage.

In electronic format? No...3. Interlibrary loans for titles not owned

by FSU: MedLibrary@med.fsu.edu

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Medical E-Journals

In electronic less than 12~ years

Each journal different

Digitizing old issues slowly

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PubMed MEDLINEGetting the articles when there is no FSU icon

If there is no FSU icon, there are other options:

1. Search E-Journal Titles for the journal name

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All FSU E-Journals

Under ResourcesExpand E-JournalsClick on

All FSU E-Journals

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FSU Libraries E-Journals

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FSU E-Journals

Consultant Pharmacist only up to 2000

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Interlibrary Loan

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Interlibrary Loan:1. Sign into EZProxy2. Fill out form3. Copy and Paste info from

PubMed Citation into Section 24. Get PMID #

Finding Journal Articles at FSU

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JOURNAL ARTICLES

Interlibrary

Loan

DOOR 1Direct Link to

full-textarticle.

DOOR 2Locate thee-journal

with Medical Library E-Journals list.

DOOR 3Locate the e-journal with Serials Solutions

INTER-LIBRARY LOAN

medlibrary@med.fsu.edu

Interesting New Tool: knalij.com

Use Chrome Browser (FireFox second choice)Open Library site and open PubmedIn another tab, open knalij.comAdditional Types of Searches

Journal Cluster MapCo-author MapImpact of funding Map

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Finding Health Statistics Finding Health Statistics

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Informatics Resources

Topic Areas > ResearchHealth Statistics

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Types of Health Statistics Questions

Fact lookups [population, demographics]ResearchPresentationsSocial and Policy indicators

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Strategies for Finding Health Stats

Google SearchUse PortalStart at Internet siteStart with book or article

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Internet Portals of Health Stats

Lists of links that provide starting points for browsing or searchingKeyword search in portal vs GoogleGeneral idea what you want

The National Center for Health Statistics portal: http://www.cdc.gov/nchs/

Health Services Research Information Central (NLM)

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Lexis-Nexis Statistical Universe

Subscription resourceSearches stat data

Subject ListLimit searchReports or tables

http://web.lexis-nexis.com/statuniv?B1=Connect+to+Statistical+Universe

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MMWR

Morbidity – illnessMortality – deathhttp://www.cdc.gov/mmwr/Disease TrendsTables - searchable

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Health Care Data

Healthcare Cost and Utilization ProjectHCUPnet

Hospital dischargesAmbulatory serviceCostsAmount of careBy diagnosis and procedureSurveys of hosp, physicians, nursing homes

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Health Consequences

Costs to society, individualsCost from careCosts of illnessImpact on infrastructureHCFACMS Health Accountshttp://cms.hhs.gov/

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State and International Data

Floridahealthstat.com - Where Florida Health Data Resides

KFF State Health Facts Online United Nations Statistics Division World Health Organization Research Tools

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Citations and ReferencesCitations and References

Note: Endnote Web Camtasia Tutorials on Library Tutorials Page

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Style Guides

Format of citation on referenced itemsAMA Style Guide* Examples of AMA Citations Other Style Guides

What do I mean by Style Guides?Format required for submitting articles to journal

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Informatics Resources|Topics|Research|Style Guides

APA Style

Now is the time for all good men to come to the aid of their country.(Alpay & Russell, 2002) Four score and seven years ago our forefathers brought forth a new nation conceived in liberty and dedicated to the proposition that all men are created equal.(Balen & Jewesson, 2004)

ReferencesAlpay, L., & Russell, A. (2002). Information technology training

in primary care: the nurses' voice. Comput Inform Nurs, 20(4), 136-142.

Balen, R. M., & Jewesson, P. J. (2004). Pharmacist computer skills and needs assessment survey. J Med Internet Res, 6(1), e11.

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JAMA Style

Now is the time for all good men to come to the aid of their country.1 Four score and seven years ago our forefathers brought forth a new nation conceived in liberty and dedicated to the proposition that all men are created equal.2

References1. Alpay L, Russell A. Information technology training in

primary care: the nurses' voice. Comput Inform Nurs. Jul-Aug 2002;20(4):136-142.

2. Balen RM, Jewesson PJ. Pharmacist computer skills and needs assessment survey. J Med Internet Res. Mar 29 2004;6(1):e11.

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EndnoteWeb

Stores your reference citations on the webAssign to topic groupsWord add-inManages CitationsInserts References in WordAutomatically formats in selected style

Does not store PDF articles. Endnote desktop does. 54

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Now is the time for all good men to come to the aid of their country. (citation)

References- Bibliographic citation-

Now is the time for all good men to come to the aid of their country. (citation)

References- Bibliographic citation-

Research Paper

Stack ofReferences:Journal articlesBook chaptersWeb sitesMonographs

Endnote Library of References

Word Document

First Time You Start Endnote Web

1. www.myendnoteweb.com

2. Set up Account

3. UserID: email

4. Password (8 character minimum, must have at least 1 letter, 1 number, 1 symbol)

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Start Endnote Web in Word 2010

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Endnote Web Tool Bar on RibbonWill ask you to sign in

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Use Endnote Web in Word

1. Create an Endnote Library online

2. Add all cited articles, books, websites, etc. to library

3. Set the Format to JAMA

4. As you type, Find and insert citation• Pick reference from library

5. Endnote creates the bibliography

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Organize Your ReferencesCreate New Group for a project

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How to Populate the Library - Options

Manually enter references Connect to Pubmed or other

database and capture Search Pubmed or other DB

and save results then import (see tutorials on Library website)

In Google Scholar, WOS or OVID, search and export directly to Endnote

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Endnote Web References

Add Citations to Library

Type them inBook chaptersImagesNewspaper articlesStatistical ReportsWebsites

Let Endnote Web grab from PubMed, PsychLit, OVID, etc.Journal articles

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How to Type in Citation

In Endnote Web Collect Tab Select New Reference

Pick reference typeType in fieldsPick Group to save toClick SAVE

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What Fields Do You Need to fill in?

Look at or print our Examples AMA CitationsUnder Style Guides in Research

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Citing Images

Use Audiovisual Material: should contain the following information about the image:Photographer's or artist's name (often not given)Title of picture or Name of subject Date of picture (often not given)Title of websiteURL of page in which image found (not of image itself)Date you accessed the picture.

SAMPLE: Kawasaki, Satoko. Bobby Valentine. October 14, 2005. The Japan Times. www.japantimes.co.jp/ sports/2004bbpreview.htm October 27, 2005.

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How to Capture References

Collect TabOnline SearchPick a sourcePubmed [NLM]Connect

Select Favorites to limit scrolling

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Perform Search

If article knownUse Author and Title wordSearch

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Perform Search

Retrieve Articles foundPick article(s)Add to Group Pick group

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Export References from Pubmed

Collect articles in Clipboard [Check articles as found and Send to Clipboard.]

Open Clipboard and check all articles to export

Send to >> FileFormat >> MEDLINESave on desktop

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Import file into Endnote Web

Collect Tab >> Import References

Browse to fileImport Options:

Pubmed (NLM)To: >> pick a group Import button

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Cite While You WriteIn Word

1. Put Cursor on spot2. Endnote Web

Ribbon• Find Citation

3. Type author or distinctive word in title

4. Click Find5. Click citation of

choice6. Click Insert 70

Insert

Citation and Reference Appear in Word Document

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Set AMA Style

Need to load 1 timeIn Endnote Web RibbonStyle: dropdownFind JAMAIf not there…Open Bibliography

dialog boxPick JAMA under

output style

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Export References

Citations for posters or presentations

Pick StyleFormat >>

BibliographySave as RTFOpen in WordCopy and paste in

PowerPoint/Publisher

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Hands on practiceHands on practice

Do a few on your own.If you are missing Endnote Web or

Stedmans, go by IT office or tell Help Desk and get them installed.

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In Summary

Use Pubmed to Search for Articles, My NCBI to manage

Use red FSU button to find articlesIf no button: Med eJournals list > FSU

eJournals > Interlibrary loanAny journal article you need, we will getUse Endnote to manage your citations in your

papers, presentations and posters

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Using NCBIUsing NCBI

Register and get a Username and Password

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Why get NCBI Account?

Save searches Save citations in My Bibliography Automatically update and e-mail search results

from your saved searchesFilter search results Highlighting search terms

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My NCBI

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Customize My NCBI

Tutorials: http://www.nlm.nih.gov/bsd/disted/myncbi.html Saving SearchesSaving ReferencesCustomizing the TabsHighlighting Search Terms

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My NCBI – Saving a Search

Develop a search.Click on ‘Save Search’.

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My NCBI – Saving a Search

Give name and Save

Complete form for email notification

‘My NCBI’ puts the search in your list.

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My NCBI – Saving References (1)

Develop a search.Check the references you want to save.Click on ‘Send To’ and select ‘Clipboard’.

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My NCBI – Saving References (2)

Go to the ‘Clipboard’Click on ‘Send To’ and select Collections.

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My NCBI – Saving References (3)

Tell My NCBI what to call the collection

Or Append to an existing collection

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My NCBI – Saving References (4)

To see the collection or saved search, click on ‘My NCBI’ > Collections

Can download collections into a reference manager such as EndNote or RefWorks.

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My NCBI – Customizing the Filters

1. Click on ‘My NCBI’2. ‘Manage Filters’

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My NCBI – Customizing the Filters

Try “Browse Filters” to see different types

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My NCBI – Highlighting Search Terms

Click on ‘NCBI Site Preferences’.

Click on ‘Highlighting’Pick colors

Have Journal Contents Sent (1)

1. Search ‘Journals Database’

2. Enter a general subject term, e.g. “Pediatrics”, then ‘Go’.

3. Click on a journal title to get information about that journal.

4. Continue with another search for a Journal, find and select

5. Click on ‘Send to’ and select ‘Search Box with OR’.

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Have Journal Contents Sent (2)

4. Click on ‘Search PubMed’.

5. Click on ‘Save Search’, name it, and set up email as earlier.

6. You will be notified when new articles are published in these journals.

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Links to Other NCBI Databases

NCBI has other databases that link to PubMed. (examples: CoreNucleotide,

Gene, HomoloGene, Protein, Protein)

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