Biomedical Information Retrieval from Net

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Information about Biomedical Information Retrieval from Net

Published on December 11, 2007

Author: sukhi

Source: slideshare.net

Description

The Presentation consists of over 90 Power Point PPT slides keeping in mind Bio-Medical Researchers. [Paid / Fee based services like Web of Science are not included in this presentation]
Presentation starts with an emphasis need for having a planned search strategy and evaluation of the retrieved results. The best tool and Internet resource to explore would depend upon the type of information being sought from the net. For general non-scholarly information Internet Search Engines, Meta Search Engines, Web Directories and Subject Guides would be the best way to start with. However there is need to evaluate all such information. Simple criteria - like the authority behind the information; the date of creation and modification and commercial interests if any - can be used to evaluate the authenticity of the information retrieved. Medical websites with "HONcode" logo could be easily evaluated and trusted.
For scholarly literature, researchers are advised to start with Bibliographic Databases. These databases provide references to high quality peer reviewed journals. PubMed and IndMED (For Indian Journals) are best known under this category. The presentation has some interesting pictures to explain the need for "Controlled Vocabulary" like MeSH. Other tools like Scirus can also be used for retrieving scholarly information. Google Scholar can be used to for limited "Cited By" information along with references.
Coming to Full Text of articles, looking for libraries' holdings would be a better strategy. "Union Catalogue" is useful tool to explore collection of neighborhood libraries. Many good journals are now coming out from Open Access Publishers like BioMed Central and PLoS. Some of the good Indian medical journals are also available for free through Internet. NIC's medIND project and MedKnow (an Indian Open Access Publisher) have been instrumental in putting most of them online. Directory of Open Access Journals is a useful tool to find out Open Access Journals in a subject domain. Other resources for finding full text articles are Institutional (like EPrints@IISc ) and Subject Repositories (like OpenMED@NIC). There are now about 1000 such registered and OAI-PMH compliant repositories all over the world. Tools like ROAR can used to find a relevant repository. These repositories can also be searched through search engine like Google and some special OAI-PMH search engines.
The presentation ends with some special type of resources like Cochrane Library (made freely accessible to Resident Indians through sponsorship by ICMR).

Bio-Medical Information Retrieval from Net By Sukhdev Singh

PLAN Problem of Plenty on Net. Without a proper plan, you would lost in the sea of Information. Therefore, have a PLAN Choose the most appropriate place to look Develop an effective search strategy Carry out the search Critically evaluate the results obtained

Problem of Plenty on Net.

Without a proper plan, you would lost in the sea of Information.

Therefore, have a PLAN

Choose the most appropriate place to look

Develop an effective search strategy

Carry out the search

Critically evaluate the results obtained

Appropriate Place?

General Information Web Search Engines / General Web Resources Journal References Databases like PubMed / IndMED etc) / Scholar Google Full Text Articles Free Open Access. Fee Based – From Libraries . Best Practices / Evidence Based Medicine Cochrane Library Appropriate Place? Will depend on what you are looking for !!!

General Information

Web Search Engines / General Web Resources

Journal References

Databases like PubMed / IndMED etc) / Scholar Google

Full Text Articles

Free Open Access.

Fee Based – From Libraries .

Best Practices / Evidence Based Medicine

Cochrane Library

General Information

Best for Non-Scholarly Information

General Information – Web Search Engines / Resources Search Engines Meta-Search Engines Subject Directories Subject Guides

Search Engines

Meta-Search Engines

Subject Directories

Subject Guides

 

Search Engines Full-text of selected Web pages. Search by keyword, trying to match exactly the words in the pages. No browsing, no subject categories. Databases compiled by "spiders" (computer-robot programs).

Full-text of selected Web pages.

Search by keyword, trying to match exactly the words in the pages.

No browsing, no subject categories.

Databases compiled by "spiders" (computer-robot programs).

 

 

Meta-Search Engines Meta-Search Engines quickly and superficially search several individual search engines at once. Return results compiled into a convenient format. They only catch about 10% of search results in any of the search engines they visit.

Meta-Search Engines quickly and superficially search several individual search engines at once.

Return results compiled into a convenient format.

They only catch about 10% of search results in any of the search engines they visit.

 

Web Directories Hand-selected sites. Organized into hierarchical subject categories. Often annotated with descriptions (not in Yahoo!). Browse subject categories or search using broad, general terms. NO full-text of documents. Can search only the subject categories and descriptions.

Hand-selected sites. Organized into hierarchical subject categories.

Often annotated with descriptions (not in Yahoo!).

Browse subject categories or search using broad, general terms.

NO full-text of documents. Can search only the subject categories and descriptions.

 

 

 

 

 

Subject Guides Web pages of collections of hypertext links on a subject. Compiled by "expert" subject specialists, agencies, associations, and hobbyists.

Web pages of collections of hypertext links on a subject.

Compiled by "expert" subject specialists, agencies, associations, and hobbyists.

 

 

 

 

Evaluating Your Web Search Results Each page should be examined and the following questions answered: Who? Who is the authoring agency or individual? What? What is the author's credentials? Where? Where is the author's affiliation? When? When was the page last updated Why? Why is the page in existence? What is the author's purpose? How? How does the page appear?

Each page should be examined and the following questions answered:

Who? Who is the authoring agency or individual?

What? What is the author's credentials?

Where? Where is the author's affiliation?

When? When was the page last updated

Why? Why is the page in existence? What is the author's purpose?

How? How does the page appear?

 

 

 

 

Remember !!! The Web just does not have it all. Even the best search engine will only search what is available. Remember that the Web is only the first tool in your arsenal of available resources. Each search engine is different. Read the help before you proceed. Determine if you are using a Web directory or a search engine. See if there is an "advanced search" feature.

The Web just does not have it all. Even the best search engine will only search what is available. Remember that the Web is only the first tool in your arsenal of available resources.

Each search engine is different. Read the help before you proceed. Determine if you are using a Web directory or a search engine. See if there is an "advanced search" feature.

So, What we have learned? For General Information (Non-Scholarly / Non Peer-Reviewed) Search Engines Meta Search Engines Web Directories Subject Guides Evaluate Your Web Search Results

For General Information

(Non-Scholarly / Non Peer-Reviewed)

Search Engines

Meta Search Engines

Web Directories

Subject Guides

Evaluate Your Web Search Results

Scholarly Information References Bibliographic Databases -PubMed -IndMED Search Engine -Scholar Google

Scholarly Information

References

Bibliographic Databases

-PubMed

-IndMED

Search Engine

-Scholar Google

Bibliographic Databases Cover Peer Reviewed Literature. Journals are selected after quality checks. References along with abstracts are available sometimes links to free full text of articles. Require familiarization on searching. Knowledge of Boolean Operators; Medical Subject Headings ( MeSH ) and Qualifiers are required for advanced searching.

Cover Peer Reviewed Literature. Journals are selected after quality checks.

References along with abstracts are available sometimes links to free full text of articles.

Require familiarization on searching.

Knowledge of Boolean Operators; Medical Subject Headings ( MeSH ) and Qualifiers are required for advanced searching.

http://pubmed.gov Includes MEDLINE® (Medical Literature Analysis and Retrieval System Online) is the U.S. National Library of Medicine's® (NLM) premier bibliographic database that contains over 16 million references to journal articles in life sciences with a concentration on biomedicine. A distinctive feature of MEDLINE is that the records are indexed with NLM's Medical Subject Headings (MeSH®).

http://pubmed.gov

Includes MEDLINE® (Medical Literature Analysis and Retrieval System Online) is the U.S. National Library of Medicine's® (NLM) premier bibliographic database that contains over 16 million references to journal articles in life sciences with a concentration on biomedicine. A distinctive feature of MEDLINE is that the records are indexed with NLM's Medical Subject Headings (MeSH®).

 

Overview of Boolean Searching

 

 

 

 

Is the life so Simple with Computers? Let us say I want - PITCH report of T20 World Cup Final between India and Pakistan

Let us say I want -

PITCH report of T20 World Cup Final between India and Pakistan

PITCH

Problem is with Natural Languages Synonyms (One Concept – different Words) Female Lady Woman Homonyms (One Word – different Concepts) Multiple Words (Phrase) Punctuation etc..

Synonyms

(One Concept – different Words)

Female

Lady

Woman

Homonyms

(One Word – different Concepts)

Multiple Words (Phrase)

Punctuation

etc..

 

 

 

 

All International Research !!! What about Indian Research?

Coverage of Indian Journals Only 25 – 32 Indian Medical Journals are covered in PubMed. This means world Indian research does not get exposed adequately. No credit for good work being done in the areas dealing with local medical problem.

Only 25 – 32 Indian Medical Journals are covered in PubMed.

This means world Indian research does not get exposed adequately.

No credit for good work being done in the areas dealing with local medical problem.

IndMED IndMED Database Bibliographic Database – indexes 77 Indian Biomedical Journals

IndMED Database

Bibliographic Database – indexes 77 Indian Biomedical Journals

 

 

 

 

Google Scholar   "Google Scholar uses Google search technology to search for scholarly materials such as: peer-reviewed papers, theses, books, abstracts and articles and more. Results come from academic publishers, professional societies, preprint repositories, universities and other scholarly organizations. Some of the literature will be freely found on the Web, while some links will offer the full-text of articles for payment." http://scholar.google.com

  "Google Scholar uses Google search technology to search for scholarly materials such as: peer-reviewed papers, theses, books, abstracts and articles and more. Results come from academic publishers, professional societies, preprint repositories, universities and other scholarly organizations. Some of the literature will be freely found on the Web, while some links will offer the full-text of articles for payment."

http://scholar.google.com

 

 

 

 

 

So, for Scholarly Information We start with Bibliographic Databases having references to journals and other scholarly literature Different from Search Engines in respect to relying on Boolean Operators and Controlled Vocabularies. PubMed, Scirus – International IndMED – Indian Scholar Google special in some aspects but scope not clearly defined.

We start with Bibliographic Databases having references to journals and other scholarly literature

Different from Search Engines in respect to relying on Boolean Operators and Controlled Vocabularies.

PubMed, Scirus – International

IndMED – Indian

Scholar Google special in some aspects but scope not clearly defined.

Scholarly Information Full text Journal Articles Most expensive library resource No Library can afford all the journals / Not even the core Journals of a subject Things can improve with “Open Access” to scholarly literature

Scholarly Information

Full text Journal Articles

Most expensive library resource

No Library can afford all the journals / Not even the core Journals of a subject

Things can improve with “Open Access” to scholarly literature

Some Free Resources for Full Text Articles From Open Access Publishers Indian Journals online From Institutional / Subject Repositories

From Open Access Publishers

Indian Journals online

From Institutional / Subject Repositories

http://uncat.nic.in

http://uncat.nic.in

 

 

 

 

 

 

 

 

 

 

 

MedKnow

OA Archives or Repositories OA archives or repositories are free to access and allows uploading of articles and other scholarly materials by authors. Archives may belong to institutions, such as universities and laboratories, or disciplines, such as physics and economics.

OA archives or repositories are free to access and allows uploading of articles and other scholarly materials by authors.

Archives may belong to institutions, such as universities and laboratories, or disciplines, such as physics and economics.

http://archives.eprints.org/

 

 

Some Other Examples http://dlist.sir.arizona.edu/ http://eprints.rclis.org/ http://eprints.iisc.ernet.in/index.html

Most of the Journals Requires High Subscription Fee – Libraries are find it difficult to afford even the core journals. Some relief by Open Access Journals / Repositories Use Directories like DOAJ and ROAR locate free resources Full Text Journal Articles

Most of the Journals Requires High Subscription Fee – Libraries are find it difficult to afford even the core journals.

Some relief by Open Access Journals / Repositories

Use Directories like DOAJ and ROAR locate free resources

Some Resources

Cochrane Library Paid Service Made accessible to Indian Residents through Sponsorship by ICMR Systematic Reviews

Paid Service

Made accessible to Indian Residents through Sponsorship by ICMR

Systematic Reviews

 

 

 

 

 

 

 

Was That Tooo Much?

Start with Google Learn to Use PubMed Use IndMED – http://indmed.nic.in Take help from your Librarian.

Start with Google

Learn to Use PubMed

Use IndMED – http://indmed.nic.in

Take help from your Librarian.

THANK YOU

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