Science 2.0 basics and some examples Endre Sebestyén 2009 09.30.

Web 2.0 – Open source Impact of web 2.0 Impact on journal/article publishing Participation of scientists Structuring and mining information Impact of open source Open access journals Open data and datasharing Open science and research

Impact of web 2.0

Impact on journal/article publishing

Participation of scientists

Structuring and mining information

Impact of open source

Open access journals

Open data and datasharing

Open science and research

Three examples PLoS ONE: Background, future development, and article-level metrics by Peter Binfield Microblogging the ISMB: A New Approach to Conference Reporting by Neil Saunders et al. The Gene Wiki: Community Intelligence Applied to Human Gene Annotation by Jon W. Huss III et al.

PLoS ONE: Background, future development, and article-level metrics by Peter Binfield

Microblogging the ISMB: A New Approach to Conference Reporting by Neil Saunders et al.

The Gene Wiki: Community Intelligence Applied to Human Gene Annotation by Jon W. Huss III et al.

Public Library of Science PLoS Biology – 2003 Aim: a high quality open access journal PLoS Medicine, Pathogenes, Genetics, Computational Biology, Neglected Tropical Diseases They soon became high-quality titles in their field

PLoS Biology – 2003

Aim: a high quality open access journal

PLoS Medicine, Pathogenes, Genetics, Computational Biology, Neglected Tropical Diseases

They soon became high-quality titles in their field

PLoS ONE It is for every scientific discipline Online only and fully open access Peer review focuses on scientific rigor, not on “impact”, “interest”, “advance in the field”, etc Using web 2.0 and internet, you can Rate articles Comment them Leave trackbacks

It is for every scientific discipline

Online only and fully open access

Peer review focuses on scientific rigor, not on “impact”, “interest”, “advance in the field”, etc

Using web 2.0 and internet, you can

Rate articles

Comment them

Leave trackbacks

PLoS ONE Pre-publication actions Peer review only for the scientific validity Experiment are well designed Correct statistical tests are used Etc Post-publication actions How impactful is the article? Does it advance the field? Feedback, discussion, etc

Pre-publication actions

Peer review only for the scientific validity

Experiment are well designed

Correct statistical tests are used

Etc

Post-publication actions

How impactful is the article?

Does it advance the field?

Feedback, discussion, etc

PLoS ONE interface

Article level metrics Traditional: Impact factors and other similar factors They are for ALL of the articles appearing in a given journal It is widely misused and easily manipulated High IF brings more subscribers, more articles so it has content and financial benefits It is a poor measure AND the industry supports it. What is the REAL scientific contribution of a given article, author, etc? Bad examples: Cereal Research Communications PNAS and its editorial policy (changed/will change recently)

Traditional: Impact factors and other similar factors

They are for ALL of the articles appearing in a given journal

It is widely misused and easily manipulated

High IF brings more subscribers, more articles so it has content and financial benefits

It is a poor measure AND the industry supports it.

What is the REAL scientific contribution of a given article, author, etc?

Bad examples:

Cereal Research Communications

PNAS and its editorial policy (changed/will change recently)

Article level metrics Citation activity in the literature Scopus Pubmed Central Blog coverage Similar to media coverage, for a wider audience Postgenomic Nature blogs Bloglines Trackback data

Citation activity in the literature

Scopus

Pubmed Central

Blog coverage

Similar to media coverage, for a wider audience

Postgenomic

Nature blogs

Bloglines

Trackback data

Article level metrics Comments and notes Social bookmarking “ wisdom of the crowd” Delicious.com Connotea CiteULike Numerical ratings 1-5 stars Download statistics HTML PDF XML

Comments and notes

Social bookmarking

“ wisdom of the crowd”

Delicious.com

Connotea

CiteULike

Numerical ratings

1-5 stars

Download statistics

HTML

PDF

XML

Other examples BMC Research Notes Nature Communications Similar to PLoS ONE Rapid publication of research Open access

BMC Research Notes

Nature Communications

Similar to PLoS ONE

Rapid publication of research

Open access

Participation, social networking, etc Web 2.0 “keywords” Blogs, microblogs Social networks Wikipedia Community annotation Good for Preliminary result sharing Discussing ideas Sharing experimental data

Web 2.0 “keywords”

Blogs, microblogs

Social networks

Wikipedia

Community annotation

Good for

Preliminary result sharing

Discussing ideas

Sharing experimental data

Some web 2.0 resources Online bookmarking/article sharing Delicious http://delicious.com Connotea http://connotea.org CiteULike http://citeulike.org Mendeley http://mendeley.com Networks LinkedIn http://linkedin.com Nature Networks http://network.nature.com MyExperiment http://myexperiment.org Communication/sharing ideas/discussion Twitter http://twitter.com FriendFeed http://friendfeed.com Sharing documents Slideshare http://slideshare.net

Online bookmarking/article sharing

Delicious http://delicious.com

Connotea http://connotea.org

CiteULike http://citeulike.org

Mendeley http://mendeley.com

Networks

LinkedIn http://linkedin.com

Nature Networks http://network.nature.com

MyExperiment http://myexperiment.org

Communication/sharing ideas/discussion

Twitter http://twitter.com

FriendFeed http://friendfeed.com

Sharing documents

Slideshare http://slideshare.net

An example of online collaboration From http://plindenbaum.blogspot.com The Gene Wiki: Community Intelligence Applied to Human Gene Annotation by Jon W. Huss III et al. Started with “just” an innocent question Several of them never met in person.

From http://plindenbaum.blogspot.com

The Gene Wiki: Community Intelligence Applied to Human Gene Annotation by Jon W. Huss III et al.

Started with “just” an innocent question

Several of them never met in person.

Yet another article Microblogging the ISMB: A New Approach to Conference Reporting by Neil Saunders et al. ISMB is the larges bioinformatics/comp.biol. conference Lots of parallel sessions, talks, huge audience, etc The authors used a microblogging platform ( http://friendfeed.com ) to cover presentations Multiple parallel notes cover presentations much better Allows participation of non-attendees Generates an archive of the conference

Microblogging the ISMB: A New Approach to Conference Reporting by Neil Saunders et al.

ISMB is the larges bioinformatics/comp.biol. conference

Lots of parallel sessions, talks, huge audience, etc

The authors used a microblogging platform ( http://friendfeed.com ) to cover presentations

Multiple parallel notes cover presentations much better

Allows participation of non-attendees

Generates an archive of the conference