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Expert Searching for Basic Science: PubMed, Scopus, Web of Science, Biosis, Google Scholar

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peggy gross

on 3 November 2014

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Transcript of Expert Searching for Basic Science: PubMed, Scopus, Web of Science, Biosis, Google Scholar

Basic Science Databases:
Search the
MeSH Database
with one of your concepts
this process
for all your
other concepts

Peggy Gross - mgross21@jhmi.edu
Getting from
"The role of Ubiquitin in Plasmodium falciparum"
Concept 2: Plasmodium falciparum
"Plasmodium falciparum"[Mesh] OR "Plasmodium falciparum"[tw] OR "P. falciparum"[tw]
PubMed, Scopus, Web of Science, Biosis, Google Scholar
embedded in your research question
"The role of Ubiquitin in Plasmodium falciparum"
Concept #2 -
Concept #1 -
Start a Word document as a place to build your search as you go. This will be the place you can record concepts and their synonyms and make revisions.
Concept #1 -
MeSH stands for Medical Subject Headings.
MeSH terms are uniformly applied to articles in PubMed by human indexers.
Using MeSH terms ensures precision.
Only articles with these terms as
important concepts will appear in your results.
Using MeSH also ensures comprehensiveness.
All the variations of a concept
will map to the same MeSH term.
The MeSH database is an important source
of synonyms for searching.
Why use MeSH?
The MeSH Database is a specialized tool available from the PubMed homepage.
Copy and paste this code
into your Word document.
Use entry terms in your search with the field tag [tw], for text word (e.g. "plasmodium falciparum"[tw]). Add entry terms as synonyms on your Word document.
Use text words (keywords) derived from entry terms in the MeSH database (or from article titles or abstracts) in addition to MeSH terms.
This ensures that your search is comprehensive.
Text words catch errors in indexing. They also pull very new articles into your search results that haven't been assigned MeSH terms yet.
This is the format copied from the search builder in the MeSH Database.
Use the Boolean operator "OR" (in all caps to distinguish it from the other text), because these two terms are synonyms.
[tw] is a field tag. Field tags in PubMed are always represented in brackets. The "tw" stands for "text word," which is like a keyword.
to combine concepts.
Run individual searches for each of the other concepts.
Contact me!
Run separate searches for each concept as a way to test that you have the proper syntax for each search and as a way to test the predicted scope of each search. This also cuts down on syntax errors when you combine these large strings of terms.
Click on "Add" to combine searches in the search builder.
Web of Science
Concept 1: ubiquitin
"Ubiquitin"[Mesh] OR "Ubiquitin"[tw] OR "ubiquitination"[tw] OR "ubiquitinated"[tw] OR "HMG-20"[tw] OR "Small Ubiquitin-Related Modifier Proteins"[Mesh] OR "Small Ubiquitin Related Modifier"[tw] OR "SUMO"[tw] OR "Sentrin"[tw] OR "Sumoylation"[Mesh] OR "Sumoylation"[tw] OR "sumoylated"[tw]
p. falciparum
Are there other ways to say plasmodium falciparum? If so, add them as keywords.
2013 journals-only coverage Scopus=19,809 WoS=12,311
Google Scholar

Website or domain
site:ncbi.nlm.nih.gov "genomics resources"
site:edu "genomics resources"

File type
filetype:ppt site:edu "genomics resources"

Google Search Tips
Google Scholar Limitations
Limits indexing of collected files to the first 100-120K-bytes of text (depending on the file type).
The size of most scholarly articles is close to or even exceeds this.
If the search term occurs first beyond Google's limit, the item would not be found.

Web of Knowledge

Use Advanced search
Why Use Scopus?
50 million records
Covers nearly 19,000 titles from over 5,000 international publishers
Includes coverage of 16,500 peer-reviewed journals in scientific, technical, medical, social sciences (including arts and humanities)
21 million records pre-1996
which go back as far as 1823
Why Use
Web of Science?
40 million records

Indexes over 110,000 journal and book proceedings in Science, Social Sciences, humanities, across 256 disciplines
Index chemicus contains over 2.6 million compounds
Cites forward in time (Like Scopus)
Why Use Biosis?
Find first mention of plants, organisms, chemicals, or lab techniques in life sciences fields.
Access indexed journal content from Biological Abstracts, supplemental, indexed; Access non-journal content from Biological Abstracts/Reports, Reviews, Meetings
Non-journal coverage includes meetings, meeting abstracts, conferences, literature reviews, U.S. patents, software, book chapters, notes, letters, and selected reports
Areas of coverage include: botany, bio-chemistry, bioengineering, biotechnology, 
ecology, marine biology, zoology, etc.
Most comprehensive biological database
Adjust your laptop settings to link Google Scholar to the Hopkins Find-it icon.

Access and order otherwise unavailable pdf's via Welch Library.
Welch Library Youtube tutorials

Peggy Gross MA, MLIS, AHIP
Public Health Informationist
Welch Medical Library
Full transcript