Not to be distributed without permission Using SciFinder Scholar as a Research Tool HBZ Meeting Paul Peters, Manager European Marketing Taken from presentation

Not to be distributed without permission

Using SciFinder Scholar as a Research ToolHBZ Meeting

Paul Peters, Manager European Marketing

Taken from presentation by Prof. Damon RidleySchool of Chemistry

University of Sydney

NSW 2006 Australia

[email protected]


Copyrights

– SciFinder Scholar screens are reproduced with permission of the Chemical Abstracts Service, a Division of the American Chemical Society

– CAPLUS, REGISTRY, and CASREACT data is copyright the American Chemical Society and reproduced with permission

– Data from Journal of the American Chemical Society is copyright the American Chemical Society and reproduced with permission

– Data from Angewandte Chemie International Edition is copyright John Wiley & Sons Inc. and reproduced with permission


Searching for information

• What sources do you currently use?

• Why have you chosen these sources?

• How do they compare with other sources?– in content

– in ease of use

– in search opportunities

– in quality!

– (in price)

• What information are you missing?

• Search skills?


Searching the literature

• Is very complicated!

• The “text book” approach for electronic information retrieval is to– start with general searches

– examine initial results

– modify search

• This helps:– overcome some of the difficulties relating to different terminologies (used by authors and database producers)

– alert us to new opportunities

• So, it helps to ….


In the laboratory Information retrieval

Know the subject Know the content and coverage of databases and of search options

Conduct experiment Run initial search

Observe/understandresults

Examine/understand answer sets

Revise experiment Explore alternative search options

…apply Scientific Method to Information Retrieval!


Databases in SciFinder Scholar

• Over 23.5M bibliographic records (CAPLUS) – from over 9,000 serials

– from over 35 patent issuing organizations

– from 1907

– updated daily

• Over 13.7M bibliographic records (MEDLINE)– from over 4,300 serials

– from 1958

– updated 4 times weekly

• Over 61M substances/sequences from 1907 (REGISTRY)

• Over 7.5M chemical reactions from “1974*“ (CASREACT)

• Inventory Information (CHEMLIST)

• Commercially available substances (CHEMCATS)

* some earlier information available and more is being added


Search opportunities in SciFinder Scholar

• SciFinder Scholar has over 50 search options including:

– Topics

– Authors

– Companies

– Substances• by name

• by formula

• by structure

• by substructure

– Citations

– Reactions

• SciFinder Scholar has an unique interface, and the key to its use as a research tool is to understand the Analyze/Refine and Get Related options!


Distribution of SciFinder explores by German Universities


SciFinder Scholar

“This is a

magic tool”


(Database Content:) Original Article

..

..

..

..


Bibliographic Database Record

The record we search consists of author terms...

The Chemical Abstracts Service bibliographic database

Database

Content


Bibliographic Database Record

...and terms added by the indexers ...

this is how substances are indexed!

these are the ‘roles’ for substances

Indexing is very important!

Database

Content

CA Section Title


Original article

Reaction

Search


CAPLUS Record

Abstract written by

Indexer!

Reaction

Search

Information on reactions

in title and abstract


CAPLUS Record

Reaction

Search

Information on reactions in indexing

… all in CAPLUS!


CASREACT Record

• All the atoms, bonds, functional groups in starting material and products are included in the database record

Reaction

Search


Searching Bibliographic Databases

• We are searching entries written by authors and by indexers. It helps if we try to think how they may have written about the topic of interest to us.

• (It helps if authors remember that most people will find articles through electronic databases, so write your titles and abstracts with this in mind!)

• SciFinder Scholar automatically helps us in many ways, but we still need to “apply Scientific Method in information retrieval”.

Database

Content


Substance Database Record

There are many issues relating to the indexing of substances, and we shall learn some of them soon

The Chemical Abstracts

Service substance database

Database

Content


Reaction Database Record

There are many issues relating to building reaction databases, and we shall learn some of them soon

The Chemical Abstracts

Service reaction database

Database

Content


Topic Search

• The topic we are going to discuss may not interest you - but please consider the process and then try to think how to use the functionality to facilitate your research

• We shall see how to work through the problem - using Scientific Method!

Topic

Search

• The topic:– how to analyze for benzaldehydes in sake


Initial Search: Selection of Candidates

Topic

Search

• Use prepositions

• Identifies concepts

• Finds synonyms

• Attempts truncation


Research Topic: 1,590 references

Topic

Search


Post-Processing

• Analyze/Refine – tools to narrow answers– Take them in steps so that we understand what we are retrieving and what we

are omitting

Topic

Search

• Get Related – tools to “expand” answers– Get additional information: citations, substances, reactions, Internet


To narrow answers ….Analyze/Refine

• Many options

• Take them in steps so that we understand what we are retrieving and what we are omittingT

opic

Search


Analyze References: CA Section Title

• 80 Section Titles

• Very useful for initial

filtering of answers

Topic

Search


More precise answers (572)

Topic

Search


Analyze References: Index Term

• >30,000 Index Terms for Topics

• >125,000 Index Terms for organisms etc

• Systematic entries

• Very useful!Topic

Search


494 Answers ...

Topic

Search


Where are we?

• We did a search: “analysis of (benzaldehydes in) sake”

• We found the algorithm retrieved hits (>1500) with:– Sakhalin

– sakuraii ...

• We restricted answers (Analyze References):– to CAPLUS

– to Sections of Chemical Abstracts (broad refinement)

– to Index Terms (more precise refinement)

– 494 answers

• But….

How do we find the ‘benzaldehydes’? And how do we analyze for them in sake?

Topic

Search


Refine References: Research Topic

Topic

Search


Refine References: Research Topic

Topic

Search


Get Related: Expanding our search!

Topic

Search


Refine Substances: Structure

Topic

Search


The Benzaldehydes indexed in the 494 References

Now we have to find references to the analysis of these substances in sake

Topic

Search


Get References: Analytical Study

Topic

Search


Refine by Research Topic

Topic

Search


(Final) Answer Set!

• 7 answers

Topic

Search

Including ….


Abstract and Indexing

Topic

Search


Get Related: Substances

• Function = > structure

• The ability to find substances with specific properties/ functions is a key area:– What proteins/sequences have <the properties> I need?

– What monomers/polymers are useful for miniemulsions?

– What natural products have been isolated from these organisms?

– What phthalocyanines/porphyrins have been used in photodynamic therapy?

– What polymers have been used for automobile brakes?

– What antidiabetic agents are known?

– What drug formulations have been used in gene therapy?

– What co-ordination compounds has Dave Garner reported recently?

Topic

Search


Summary

• SciFinder Scholar applies intelligence at the initial search level– relevance ranked list of candidates - choices!

– automatic application of synonyms

• SciFinder Scholar provides post-processing tools– Narrowing answers

• Analyze/Refine References - indexing!

– Additional information (broadening answers)

• Get Related

– citations

– substances

– reactions

Topic

Search

Documents

Not to be distributed without permission Using SciFinder Scholar as a Research Tool HBZ Meeting Paul Peters, Manager European Marketing Taken from presentation