advanced searching for meta-analysis 9 september 2016 ... · 9/8/2016 2 systematic review process 1...
TRANSCRIPT
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Sakda Arj-Ong Vallipakorn, M.D., PhD.,MSIT(Information Technology), MAIS (Information Science)
Pediatrics, Ped Cardiology, Ped Emergency
Section for Clinical Epidemiology & Biostatistics, Ramathibodi Hospital Mahidol University
Topics•Concepts of Searching in Meta‐analysis• Study identification process• Medical Database(s)/Resources• PICO Based of Searching Concept • How to construct Searching Terms & Strategies
•Example of Advances PubMed Searching For Meta‐Analysis
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Systematic Review Process1 • Formulate Review Question (PICO)
2 • Locate/identify Study
3 • Define Inclusion & Exclusion Criteria
4 • Select Studies
5 • Risk of Bias Assessment (Quality Assessment)
6 • Extract Data
7 • Analyze and Present Results
8 • Interpret Results
ExhaustiveSearching
Study Identification ProcessSelect Databases
Develop Search Terms & Strategy
Searching
Explore Results from Searching
Export into Reference Manager
ModifySearch Strategy
RCT:รีบคิดรีบจองรีบ conduct
Prospero ?Cochrane ?
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Lead Poisoning
vs. Different modes of RX
From your current Background,What are searching DB for Systematic Reviews ?
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Searching Resource(s)1. Pubmed
2. ..
3. ..
4. ..
5. ..
6. ..
Database/Resources Domains•Physicals/Characteristic of DB Resources• Abstract Database• Full Text Database • Systematic Review/Meta‐Analysis Database• Others
•Groups of purpose• System/Guideline• Synopses• Summaries• Original articles/studies
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Journal Articles Databases• MEDLINE• EMBASE• SCOPUS• OVID• Cochrane DB• DARE (Database of Abstracts of Reviews of Effects)
• Web of Science• CINAHL• PsycINFO• Etc.
Grey Literature• Organization reports
• Governmental reports
• Conference Proceedings*
• Dissertation & Theses
•Web
•White papers
(original & recent report)
Summary of Databases
http://www.greylit.org/about
• Google Scholar
Others Search Engines
Information Sources/Databases
Systems Synopses
Summaries Studies
Pre‐appraised journals
and databases
Regularly Updated Evidence & Some CPG ‐Guideline
Well conducted Systematic Review & Meta‐analysis Original primary studies
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System• “Regularly updated evidence”•Sometimes with guidance/recommendations
•ACP online: http://smartmedicine.acponline.org
•UpToDate: http://www.uptodate.com/ (Rama: library.ra.mahidol.ac.th/utd/)
•BMJ Clinical Evidence:http://www.clinicalevidence.com
Synopses•Pre‐appraised journals and databases•ACP Journal Club: https://acpjc.acponline.org•Essential Evidence Plus: http://www.essentialevidenceplus.com/•EBM Journal (by BMJ): http://ebm.bmj.com/
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Summaries•Systematic reviews that are well conducted
•The Cochrane Library:http://www.cochrane.org/
Studies•Original primary studies• Randomized/Nonrandomized Controlled Trials• Cohort studies• Case‐control studies• Cross sectional studies• Case reports
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Ex. Search Engine & Databases
Pubmed
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PubMed
SCOPUS
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OVID
OVID
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ScienceDirect
EMBASE (http://www.elsevier.com/online-tools/embase)
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http://www.thecochranelibrary.comCochrane Library
http://www.thecochranelibrary.com
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Clinical Trialshttps://clinicaltrials.gov/
http://clinicaltrials.gov/ct2/show/NCT00374894?term=%22Lead+poisoning%22+AND+%22Children%22&rank=2
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Clinical Trials
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DARE Databasehttp://site.ovid.com/products/ovidguide/daredb.htm
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CINAHLhttp://www.ebscohost.com/nursing/products/cinahldatabases/cinahl-complete
Web of Sciencehttp://thomsonreuters.com/thomson‐reuters‐web‐of‐science/
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American Psychological Associationhttp://www.apa.org/pubs/databases/psycinfo/
Google Scholar
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Search Engine(s) and Database(s)Search Engine Database(s)
PubMed MEDLINE
Ovid MEDLINE, EMBASE, …
Scopus SCOPUS
Overlapped of Databases
MEDLINE
EMBASECINAHL
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A Girl 12 Year old present with Bell Palsy
What are you do next step ?•Clinical Question•Transform Clinical Question to Research Question•PICO
•Select Database Resources•Construct search terms & Do its, Exhaustive
•Select the papers
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P
I
C
O
P
I
C
O
Bell Palsy
Antiviral
Steroid
Recovery Rate
AND
AND
AND
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PBell Palsy
Idiopathic Facial Palsy
I AntiviralAntiviral
Acyclovir
Valacyclovir
C Steroid
Prednisolone
Methylprednisolone
O
Recovery Rate
House‐Brackmann Scale
Sunnybrook Scale
AND
AND
AND
oror
oror
oror
oror
oror
Group Your Question into Terms
•Terms #1 Bell Palsy• Subject Headings “Bell Palsy” [MeSH]• Text words “Bell Palsy”, “Idiopathic facial
paralysis”, …[Text words]
•Terms #2 Antiviral• Subject Headings “Antiviral agents”[MeSH]• Text words “Antivirus”, “Antiviral drug”,
………………….[Text words]
•Terms #3 Steroid• Subject Headings “Steroids”[MeSH]• Text words “Steroid”, “Prednisolone”, …
……………… …[Text words]
P
I
C
OR
OR
OR
And
And
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Combination of Search Terms
Operators :
•Use “AND” between domains (P/I/C/O)
•Use “OR” inside domains for similar terms or terms that have several synonyms
Query ExampleQuery Number
Search QueryNumber of Results
1 Facial nerve.mp. or exp Facial Nerve/ 136452 Paralysis.mp. or exp Paralysis/ 732673 1 and 2 43064 Facial Nerve Paraly$.mp. 7275 exp Facial Paralysis/ 89426 Fac$ Paralys$.mp. 94657 Idiopath$.mp. 649508 (3 or 4 or 5 or 6) and 7 4309 Palsy.mp. or exp Palsy/ 47510 $ Pals$.mp. 161911 8 or 9 or 10 182812 Antiviral Agents.mp. or exp Antiviral Agents/ 21640013 Antivir$.mp. 5949514 Ac?clovir.mp. or exp Acyclovir/ 1178415 Valac?clovir.mp. 75816 11 and (12 or 13 or 14 or 15) 14917 limit 16 to randomized controlled trial 9
P
I
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Advanced PubMed Searching
PubMed•Free search engine•Comprises of MEDLINE database
•Maintain by US National Library of Medicine, National Institutes of Health
•First released in 1996•Accessed from “http://www.pubmed.gov”
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MEDLINE•1946 to present material
•5,600 journals in 39 languages•2,000 ‐ 4,000 references added each day•Biomedicine and health
Frequently Used Functions in PubMed
1. MeSH
2. Search Operators
3. Limits (Filters)
4. Clipboard
5. Save searches in many output formats
6. Register to My NCBI Account
7. Advanced search
8. Citation matcher
9. Clinical Queries
10. Retrieval of full text paper
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Subject HeadingsDatabase Subject Headings
MEDLINE MeSH
EMBASE EMTREE
CINAHL CINAHL Headings
Cochrane Library MESH
PsycINFO Thesaurus of PsychologicalIndex Terms
SCOPUS N/A
Web of Science N/A
MeSH•Medical Subject Heading
• “Tag” of subject in database1
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Search Operators•Truncated search term (wildcards)• flavor* = flavoring + flavored + flavors• synerchi* = synerchiae + synerchia
•Combining search terms• AND• OR• NOT• ( ) : e.g. (Au)
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Limits(Filters)
•Filter wanted/unwanted results• Age: infants, adults, …• Article types: original studies, RCTs, Meta‐analysis, …• Article language• Human/animal• Recently published
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Clipboard•Stored items for later review
•Max 500 items
•8 hours before deleted•Send to ‘collection’ instead if you want to permanently stored
(Need My NCBI account)
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Register to My NCBI 5
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Saved search to many formats
•Save for later updates•Useful when you’re doing systematic review
•Can also automatically e‐mail updates
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Advanced Search•Search in command line‐based
•Useful for complex searches
•Use # for referring to previous searches
•Operators: AND, OR, NOT, and ()
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Download History (Useful for Meta-analysis)
•CSV File•Will open in Spreadsheet programs (Excel)
•For use in report of search strategy supplementary table
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Export to EndNote
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Export to EndNote•Send To command
•File•Choose MEDLINE• In EndNote choose PubMed (NLM)
•Citation manager• .nbib EndNote• Limit 200 article maximum
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Citation Matcher• Locate an article when you know the author name / title / journal name / volume / pages
• http://www.ncbi.nlm.nih.gov/pubmed/citmatch or visit pubmed.gov and look for Single Citation Matcher
• Single vs. Batch
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Single Citation Matcher
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Single Citation Matcher10
Single Citation Matcher
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Single Citation Matcher
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Single Citation Matcher
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Single Citation Matcher
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Single Citation Matcher10
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Clinical Queries
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Clinical Queries
“Very helpful to quickly check to Meta‐analysis publications”
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Clinical Queries11
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Clinical Queries11
Example
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HRTs in Postmenopausal Woman with Insomnia/Sleep Problem
PIO
AndAnd
AndAnd
AndAnd
OROR
OROR
OROR OROR
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OR
OR
AND
AND
P
I
O
SearchQuery Items found#1 Search Menopause[MeSH Terms] 50135
P1
#2 Search "Menopause" 40740#3 Search *menopaus* 54777#4 Search Climacteric* 8389#5 Search "the Stages of Reproductive Aging Workshop" 67
#6Search ((((Menopause[MeSH Terms]) OR "Menopause") OR *menopaus*) OR Climacteric*) OR "the Stages of Reproductive Aging Workshop" 74907
#9 Search Dyssomnias[MeSH Terms] 53779
P2
#10 Search Insomnia 18934#11 Search sleep difficulty 2376#12 Search Sleep disorder 79138#13 Search sleep initiation 11381#14 Search initiate sleep 329#15 Search sleep deprivation 10675#16 Search sleepless* 722
#17Search (((((((Dyssomnias[MeSH Terms]) OR Insomnia) OR sleep difficulty) OR Sleep disorder) OR sleep initiation) OR initiate sleep) OR sleep deprivation) OR sleepless* 89301
#18
Search ((((((Menopause[MeSH Terms]) OR "Menopause") OR *menopaus*) OR Climacteric*) OR "the Stages of Reproductive Aging Workshop")) AND ((((((((Dyssomnias[MeSH Terms]) OR Insomnia) OR sleep difficulty) OR Sleep disorder) OR sleep initiation) OR initiate sleep) OR sleep deprivation) OR sleepless*) 1110 P1+P2
#20 Search Estrogens[MeSH Terms] 58155
I
#22 Search "Estrogen" 129460#23 Search progest* 115761#24 Search "Hormone Replacement Therapy" 17741
#25Search (((Estrogens[MeSH Terms]) OR "Estrogen") OR progest*) OR "Hormone Replacement Therapy" 240761
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#27 Search polysomnography[MeSH Terms] 16353
O
#28 Search polysomnogra* 21864#29 Search actiwatch 181#30 Search actigra* 5015#31 Search "quality of life" 236636#32 Search "Insomnia Severity Index" 438#33 Search "Epworth Sleepiness Scale" 2710#34 Search sleep diar* 1008#35 Search "visual analogue scale" 16826#36 Search "Basic Nordic Sleep Questionnaire" 29#37 Search "Pittsburgh Sleep Quality Index" 2384#38 Search "Jenkins Sleep Scale" 11#39 Search "sleep duration" 4297#41 Search Sleep quality 19821
#42
Search ((((((((((((polysomnography[MeSH Terms]) OR polysomnogra*) OR actiwatch) OR actigra*) OR "quality of life") OR "Insomnia Severity Index") OR sleep diar*) OR "visual analogue scale") OR "Basic Nordic Sleep Questionnaire") OR "Pittsburgh Sleep Quality Index") OR "Jenkins Sleep Scale") OR "sleep duration") OR Sleep quality 286515
#43
Search (((((((((Menopause[MeSH Terms]) OR "Menopause") OR *menopaus*) OR Climacteric*) OR "the Stages of Reproductive Aging Workshop")) AND ((((((((Dyssomnias[MeSH Terms]) OR Insomnia) OR sleep difficulty) OR Sleep disorder) OR sleep initiation) OR initiate sleep) OR sleep deprivation) OR sleepless*))) AND ((((Estrogens[MeSH Terms]) OR "Estrogen") OR progest*) OR "Hormone Replacement Therapy")) AND (((((((((((((polysomnography[MeSH Terms]) OR polysomnogra*) OR actiwatch) OR actigra*) OR "quality of life") OR "Insomnia Severity Index") OR sleep diar*) OR "visual analogue scale") OR "Basic Nordic Sleep Questionnaire") OR "Pittsburgh Sleep Quality Index") OR "Jenkins Sleep Scale") OR "sleep duration") OR Sleep quality) 127 PIO
Search Terms and Strategies
(((((((((Menopause[MeSH Terms]) OR "Menopause") OR *menopaus*) OR Climacteric*) OR "the Stages of Reproductive Aging Workshop")) AND ((((((((Dyssomnias[MeSH Terms]) OR Insomnia) OR sleep difficulty) OR Sleep disorder) OR sleep initiation) OR initiate sleep) OR sleep deprivation) OR sleepless*))) AND ((((Estrogens[MeSH Terms]) OR "Estrogen") OR progest*) OR "Hormone Replacement Therapy")) AND (((((((((((((polysomnography[MeSH Terms]) OR polysomnogra*) OR actiwatch) OR actigra*) OR "quality of life") OR "Insomnia Severity Index") OR sleep diar*) OR "visual analogue scale") OR "Basic Nordic Sleep Questionnaire") OR "Pittsburgh Sleep Quality Index") OR "Jenkins Sleep Scale") OR "sleep duration") OR Sleep quality)
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Selection of Studies
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Send to Citation Manager (EndNote)
• If Overview TITLE+ABS of 1,2,4,6,9 and 14 relevant with what dose we want.• Background VS. Foreground• Inclusion and Exclusion Criteria• Optimized Filters Usage
•Select them, then
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Send to Citation Manager (EndNote)
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