How to Search on Pubmed Farrukh Malik March 2013

9/2/2013

1

Searching

Farrukh Malik (M Pharm, MPH, PhD ©)

To begin...To begin...

Farrkh Malik (M Pharm, MPH)

PubMed Home Page


9/2/2013

2

Searching PubMed


Click MeSH Database


MeSH Database

Terms in the database are called

Medical Subject Headings or MeSH.is a “controlled vocabulary list” of more than

26,000 subject headings (26853).

10‐15MeSH are assigned to each article

in PubMed.

The MeSH index of 10‐15 subject headings

is like a keyword abstract of the article.

MeSH are updated annually in December.Farrukh Malik (M Pharm, MPH, PhD ©)

9/2/2013

3

A1 Body RegionsA2 Musculoskeletal SystemA3 Digestive SystemA4 Respiratory SystemA5 Urogenital SystemA6 Endocrine SystemA7 Cardiovascular SystemA8 Nervous SystemA9 Sense OrgansA10 TissuesA11 CellsA12 Fluids and SecretionsA13 Animal StructuresA14 Stomatognathic SystemA15 Hemic and Immune SystemsA16 Embryonic StructuresA17 Integumentary SystemA18 Plant StructuresA19 Fungal StructuresA20 Bacterial StructuresA21 Viral Structures

B1 EukaryotaB2 ArchaeaB3 BacteriaB4 VirusesB5 Organism Forms

Frequently Used Mesh Categories – 2013

A Anatomy

B Organisms

C1 Bacterial Infections & MycosesC2 Virus DiseasesC3 Parasitic DiseasesC4 NeoplasmsC5 Musculoskeletal DiseasesC6 Digestive System DiseasesC7 Stomatognathic DiseasesC8 Respiratory Tract DiseasesC9 Otorhinolaryngologic DiseasesC10 Nervous System DiseasesC11 Eye DiseasesC12 Male Urogenital DiseasesC13 Female Urogenital Diseases

& Pregnancy ComplicationsC14 Cardiovascular DiseasesC15 Hemic & Lymphatic DiseasesC16 Congenital, Hereditary, &

Neonatal Diseases & AbnormalitiesC17 Skin & Connective Tissue DiseasesC18 Nutritional & Metabolic DiseasesC19 Endocrine System DiseasesC20 Immune System DiseasesC21 Disorders of Environmental OriginC22 Animal DiseasesC23 Pathologic Conditions,

Signs, and SymptomsC24 Occupational DiseasesC25 Substance‐Related DisordersC26 Wounds and Injuries

C Diseases D Chemicals & Drugs

D1 Inorganic ChemicalsD2 Organic ChemicalsD3 Heterocyclic CompoundsD4 Polycyclic CompoundsD5 Macromolecular SubstancesD6 Hormones, Hormone Substitutes,

& Hormone Antagonists D8 Enzymes, & CoenzymesD9 CarbohydratesD10 LipidsD12 Amino Acids, Peptides,

& ProteinsD13 Nucleic Acids, Nucleotides,

& NucleosidesD20 Complex MixturesD23 Biologic FactorsD25 Biomedical and Dental MaterialsD26 Pharmaceutical PreparationsD27 Chemical Actions and Uses


Analytical, Diagnostic, & Therapeutic Techniques & Equipment

Psychiatry and Psychology

Biological Sciences

Natural Sciences

Technology, Industry, Agriculture

Anthropology, Education, Sociology & Social Phenomena

Publication Characteristics

Information Science

Named Groups

Health Care

Geographic Locations

Other Categories Include:


How to create a Search Strategy Plan

Identify the question and key concepts:

alanine or threonine in the

genetics of neoplasms

Write the search program using

medical subject headings (MeSH)


9/2/2013

4


(Note: If there is a Boolean ORrelationship, start with the

“OR” statement first.)

Enter and click a

aSearchalanine

(Note: If there is a Boolean OR relationship, start with the“OR” statement first.)



9/2/2013

5

Term Definitions


1) Check the box nextto the MeSH headinga

✔

2) Then click Add to search builder


The first term is in

the search program “box”MeSH


9/2/2013

6

Enter and click a

a

(Note: If there is a Boolean ORrelationship, start with the

“OR” statement first.)

Searchthreonine


1) Check the box nextto the MeSH headinga

✔


2) Select OR


The second term is in

the search program “box”

MeSH


9/2/2013

7

Boolean Logic ‐ OR

threonineORalanine


a

a

Enter neoplasms and click Search

Click the underlined term

9/2/2013

8

Scroll screen down to view…


terms arranged in

tree structure hierarchy

MeSH

Terms are listed from

broadest to narrowest.

If Abdominal Neoplasms

yields zero results, try using a

broader term: Neoplasms by Site.

Scroll screenback up


9/2/2013

9

Sub-headings narrow the “meaning” of a

articles under the MeSH term: Neoplasms.

M They are a “subset” of all the MeSH term.


embryology physiologyabnormalities enzymology physiopathologyadministrations & dosage epidemiology poisoningadverse effects ethics prevention & controlagonists ethnology psychologyanalogs & derivatives etiology radiation effects analysis radiographyanatomy & histology genetics radionuclide imagingantagonists & inhibitors radiotherapybiosynthesis growth & development rehabilitationblood history secondaryblood supply immunology secretioncerebrospinal fluid injuries standardschemical synthesis innervation statistics & numerical data chemically induced instrumentation supply & distributionchemistry isolation & purification surgeryclassification legislation & jurisprudence therapeutic usecomplications manpower therapycongenital metabolism toxicitycontraindications methods transmissioncytology microbiology transplantation deficiency mortality trendsdiagnosis nursing ultrasonographydiagnostic use organization & administration ultrastructurediet therapy parasitology urine drug effects pathogenicity utilization drug therapy pathology veterinaryeconomics pharmacokinetics virologyeducation pharmacology

83 SUBHEADINGS:

✔

1) Check the box nextto the subheadinga


2) Select AND

9/2/2013

10

Boolean Logic ‐ AND

neoplasms/genetics

alanine

OR

threonine

and


The search program is complete.

Click Search PubMed

Search Results


9/2/2013

11

PubMed identifies

242 articlesFarrkh Malik (M Pharm, MPH)

Choose Filters

Filters IncludeA

Text Availability

Publication Dates

Species: Human/Animal

Type of Article

Languages

Sex

Subjects

Journal Categories

Ages

Limiting to articles that are

human studies and

written in English.

Results are reduced

From 242 to 218Farrkh Malik (M Pharm, MPH)

9/2/2013

12

AA

go to article #30 on the next page

Select article(s).X

X

AA

Scroll back up

Click Display Settings

9/2/2013

13

Apply

Select Abstract, change to Pub Date to

sort to most recent articles appearing first,

then click

Click for MeSH terms.+

AND

ORthreonine

neoplasms/genetics

alanine

MeSH Database

searches only

the MeSH terms for:


9/2/2013

14

Look at subject headings

in the

MeSH Terms Indexfor additional terms.

You may want to

write a new search

program using:

Polymorphism, Genetic*


Links from this record

to NCBI databases.

Click Gene.

Enter Gene record

Click the back button.

9/2/2013

15

.

Click Send to: and selectFile to save citations to a file on your computer orClipboard to temporarily store selected citations or

E‐mail to send citations to self or colleague or

Send it to Citation Manager (end note etc) OR Click icon for FULL TEXT ARTICLE

Full Text Article

Close Article

Other Searching Featuresa

a

1) MeSH, phrase, & title word searching

2) Truncation


9/2/2013

16

Enter and click a

a

human genome Search

✔


2) Select AND1) Check the box next

to the MeSH heading

Enter and click“dark matter” Search

9/2/2013

17

PubMed identifies

7 articles

Results narrowed to 5

Enter and click“dark matter” [ti] Search

Truncation


9/2/2013

18

Enter gene* to truncate.

PubMed locates:genegenerationgeneratedgenetic


Save Search


9/2/2013

19

Click Save search

Click Save to receive automatic email updates of newly

published articles on this topic.

Click Save

Select when and how often

you wish to receive updates,

report format,

and number of results.

Set up an e‐mail address

if you have not done so.

9/2/2013

20

For a new search…


Click PubMed

Click Remove

9/2/2013

21

PubMed Home Page

Online Tutorial


Click Training & Tutorials for hands‐on learning.

9/2/2013

22

Thank you & good luck with the Practice

[email protected] 03002163516

64

How to Search on Pubmed Farrukh Malik March 2013

Documents

Transcript of How to Search on Pubmed Farrukh Malik March 2013