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Literature search resources
Search engines recommended for bio-literature for different types of needs
(based on our research work: see http://precedings.nature.com/documents/2101/version/3)
Resources
Post-analysis categorization
Literature search
Post-survey categorization
Features validated in most cases
Gene expression
Pathways
Primer designing
Protein-protein interactions (commonly used resources)
Features not validated
DNA motif detection
MicroRNA
Multiple sequence alignment
Next generation sequencing
Simple lists
Gene ID conversion
Promoter prediction
Protein-protein interactions (all resources)
Protein structure prediction
SNP analysis
Under preparation
Alternative splice form analysis
Microarray data analysis
CLICK ON YOUR NEED:
Most of the relevant citations
(better recall)
e.g., while writing review OR reviewing literature as part of a research project etc.
Details
By spending time and effort on building complex/tool specific query-set
Click here for examples
Use at least the following 4 search engines
Click here to know why
-Scopus (paid tool)
-PubMed
-HighWire Press and
-Google Scholar (and use Citation-Compiler to compile results)
Other options
-Scopus (paid tool)
-Google Scholar
By using simple set of terms or phrases
Click here for examples
Most preferred option
-HighWire Press
Other suggested options
-CiteXplore
-Google Scholar
Minimal unwanted hits
(better precision)
e.g., to collect & read some of the important articles relevant to a topic OR to get an idea of
current research on a specific topic.
Details
By spending time and effort on building complex/tool specific query-set
Click here for examples
Most preferred option
-EBIMed
Other suggested options
-PubMed
-CiteXplore
By using simple set of terms or phrases
Click here for examples
Most preferred option
-Scopus (paid tool)
-EBIMed
Other suggested options
-CiteXplore
-HighWire Press
-PubMed
-Google Scholar
Full-text search
es for articles with terms of your interest in areas other than the citations
(i.e., not present in title, abstract, author, journal or affiliation fields)
e.g., to find out the usage frequency of software or equipment and/or to scan the methods
or other sections of the articles
Details
Most preferred option
-HighWire Press
-Google Scholar
Other suggested options
-Scirus
-PubMed Central
Find experts
in a specific area of interest
e.g., to find out authors with maximum publications in a specific area of research
Details
Most preferred option
-GoPubMed
Other suggested options
-BioAsk
-eTBLAST
-PubFocus
Year-wise trend in publications
on a specific topic
Details
Most preferred option
-GoPubMed
Other suggested options
-BioAsk
-eTBLAST
-PubFocus
Publication-trends across countries/cities
Details
-GoPubMed
-PubFocus
Collaborative trends
among authors
Details
-GoPubMed
Frequency of citations
Details
-Google Scholar
Track citations
Details
-HighWire Press
Patent search
Details
-Most of the tools have this option except
-askMEDLINE
,
-EBIMed
,
Brij.in
&
-HighWire Press
Group citations
based on important contents
e.g., to collect & read some of the articles relevant to a topic like cancer, and to get only those
related drugs/genes among all hits
Details
Most preferred option
-GoPubMed
Other suggested options
-ClusterMed
Broad domain-specific search
e.g., to collect & read some of the articles relevant to a topic specific to Computational
biology, Economic science, Medical science, etc.
Details
Most preferred option
-Google Scholar
Other suggested options
-Scopus (paid tool)
-PubMed
To search for a group of entities.
e.g., to search for all the genes reported in context of cervical cancer, to study p53 in context of all diseases/cell types)
Details
-Quertle
Tools specialized for
clinical activities
Details
-CancerLit
-CAMbase
-CENTRAL
-CINAHL
Search by
author(s)
Details
Most preferred option
-PubMed
-Scopus (paid tool)
Other suggested options
-Google Scholar
-HighWire Press
-ReleMed
Search by
institute or a place
(affiliation)
Details
Most preferred option
-PubMed
-ReleMed
Other suggested options
-ReleMed
Search by
journal(s)
Details
Most of the tools have this option except
-askMEDLINE
,
-EBIMed
,
-Brij.in
&
-HighWire Press
Search by
time periods
Details
Most of the tools have this option except
-ReleMed
,
-askMEDLINE
-Brij.in
History option
to search citations with combination of multiple features mentioned above
Details
-PubMed
-Scopus
-PubMed Central
FIND YOUR TOOLS OF INTEREST BASED ON THEIR FEATURES
Best
query
features
Click here for features
Overall
-Scopus
,
-PubMed
& -PubMed Central
Building complex but specific queries
-Scopus
,
-Scirus
&
-BioIE
Available field (title, abstract, keywords, etc) selection
-PubMed
,
-PubMed Central,
-PubMed Assistant
&
-PubMed Interact
Query refinement (e.g., history of the searches)
-Scopus
,
-PubMed
&
-PubMed Central
Best
output
features
Click here for features
Overall
-GoPubMed
&
-Scopus
Primary output quality
-HighWire Press
,
-GoPubMed
&
-PubMed
Bio-entities (genes, proteins, disease, etc)
-GoPubMed
-EBIMed
&
-BioAsk
Statistical features (top publishing authors/souces/journals etc)
click here for details
-GoPubMed
&
-Scopus
Sorting efficiency
-Scopus
,
PubMed Assistant
&
-PubMed
Visualization features (e.g., graphical display of entities)
-HighWire Press
,
-GoPubMed
,
-Scopus
,
-BioAsk
&
-BioIE
Other
best features
Click here for features
Storage
Scopus
,
-PubMed
,
-BioAsk
&
-PubMed Central
Saving/export/import/download
-Scopus
&
-PubMed
TYPES OF TOOLS
Citation Scanner
-Simple summary scanners
-Summary scanners with information processing ability
Full-text Scanners
Text-mining tools
Tools for clinical activities
LIST OF TOOLS
askMEDLINE
ALIBABA
Anne O'Tate
ARROWSMITH
BioAsk
BioIE
Bitola
CAMbase
CancerLit
Chilibot
CiteSeerX
CiteXplore
ClusterMed
CENTRAL
CINAHL
Brij.in
Dragon
EBIMed
eTBLAST
G2D
www.shodhaka.com
Google Scholar
GoPubMed
HighWire Press
HubMed
iHOP
Info-PubMed
iProLink
LitMiner
MedKit
MEDSUM
MiSearch
Novoseek
OvidSP
PubFinder
PubFocus
PubGene
PubMed
PubMed Assistant
PubMed Central
PubMed Gold
PubMed Informer
PubMed Interact
PubReMiner
PubWindows
Quertle
ReleMed
Scirus
Scopus
Textpresso
Web of Science
Whatizit
XplorMed
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