Digitize Me, Visualize Me, Search Me: Difference between revisions

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[http://usefulchem.wikispaces.com/ Open Notebook Science ]  
[http://usefulchem.wikispaces.com/ Open Notebook Science ]  


Patrick O. Brown, Michael B. Eisen, Harold Varmus  
Patrick O. Brown, Michael B. Eisen, Harold Varmus  


[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0000036 Why PLoS Became a Publisher]<br>  
[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0000036 Why PLoS Became a Publisher]<br>  


Sally Murray, Stephen Choi, John Hoey, Claire Kendall, James Maskalyk, and Anita Palepu<br>  
Sally Murray, Stephen Choi, John Hoey, Claire Kendall, James Maskalyk, and Anita Palepu<br>  
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[http://www.psfk.com/2010/09/biocurious-a-community-lab-for-biotechnology.html BioCurious: A Community Lab for Biotechnology]  
[http://www.psfk.com/2010/09/biocurious-a-community-lab-for-biotechnology.html BioCurious: A Community Lab for Biotechnology]  


Richard Stallman  
Richard Stallman  
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[http://biogang.openwetware.org/ Biogang]  
[http://biogang.openwetware.org/ Biogang]  


Bill Hooker<br>  
Bill Hooker<br>  


[http://3quarksdaily.blogs.com/3quarksdaily/2007/01/the_future_of_s.html The Future of Science is Open, Part 3: An Open Science World]<br>  
[http://3quarksdaily.blogs.com/3quarksdaily/2007/01/the_future_of_s.html The Future of Science is Open, Part 3: An Open Science World]<br>  


Chris Patil and Vivian Siegel<br>  
Chris Patil and Vivian Siegel<br>  
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[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2877727/?tool=pmcentrez#pcbi.1000787-Hey1 What Do I Want from the Publisher of the Future?]<br>  
[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2877727/?tool=pmcentrez#pcbi.1000787-Hey1 What Do I Want from the Publisher of the Future?]<br>  


Cameron Neylon<br>  
Cameron Neylon<br>  
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[http://okfn.org/ Open Knowledge Foundation]<br>  
[http://okfn.org/ Open Knowledge Foundation]<br>  


Gaelle Krikorian and Amy Kapczynski, eds, <br>  
Gaelle Krikorian and Amy Kapczynski, eds, <br>  
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[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0020200 A New Model for Open Sharing]<br>  
[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0020200 A New Model for Open Sharing]<br>  


Thomas B. Kepler, Marc A. Marti-Renom, Stephen M. Maurer, Arti K. Rai, Ginger Taylor, Matthew H. Todd<br>  
Thomas B. Kepler, Marc A. Marti-Renom, Stephen M. Maurer, Arti K. Rai, Ginger Taylor, Matthew H. Todd<br>  
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[http://www.metamute.org/proudtobeflesh The Packet Gang: Openness and its Discontents]<br>  
[http://www.metamute.org/proudtobeflesh The Packet Gang: Openness and its Discontents]<br>  


Michael Gurstein  
Michael Gurstein  
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[http://www.biomedcentral.com/1756-0500/2/113 Data Publication: Towards a Database of Everything]<br>  
[http://www.biomedcentral.com/1756-0500/2/113 Data Publication: Towards a Database of Everything]<br>  


Tony Hey, Stewart Tansley, Kristen Tolle, eds<br>  
Tony Hey, Stewart Tansley, Kristen Tolle, eds<br>  
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[http://www.freeourdata.org.uk/ Free Our Data]<br>  
[http://www.freeourdata.org.uk/ Free Our Data]<br>  


Simon Rogers<br>  
Simon Rogers<br>  
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[http://epubs.utah.edu/index.php/ulr/article/viewArticle/136 What Google Knows: Privacy and Internet Search Engines]  
[http://epubs.utah.edu/index.php/ulr/article/viewArticle/136 What Google Knows: Privacy and Internet Search Engines]  


Daniel Chandramohan, Kenji Shibuya, Philip Setel, Sandy Cairncross, Alan D. Lopez, Christopher J. L. Murray, Basia Żaba, Robert W. Snow, Fred Binka  
Daniel Chandramohan, Kenji Shibuya, Philip Setel, Sandy Cairncross, Alan D. Lopez, Christopher J. L. Murray, Basia Żaba, Robert W. Snow, Fred Binka  
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'''Encode Me/Decode Me'''<br>[http://www.ornl.gov/sci/techresources/Human_Genome/home.shtml Human Genome Project]<br>  
'''Encode Me/Decode Me'''<br>[http://www.ornl.gov/sci/techresources/Human_Genome/home.shtml Human Genome Project]<br>  


The ENCODE Project Consortium  
The ENCODE Project Consortium  


[http://pubmedcentralcanada.ca/picrender.cgi?accid=PMC3079585&blobtype=pdf&tool=pmcentrez A User's Guide to the Encyclopaedia of DNA Elements (ENCODE) ]<br>  
[http://pubmedcentralcanada.ca/picrender.cgi?accid=PMC3079585&blobtype=pdf&tool=pmcentrez A User's Guide to the Encyclopaedia of DNA Elements (ENCODE) ]<br>  


[http://www.decodeme.com/about-decodeme deCODEme]<br><br>  
[http://www.decodeme.com/about-decodeme deCODEme]<br><br>  
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[http://quantifiedself.com Quantified Self]<br>  
[http://quantifiedself.com Quantified Self]<br>  


Gary Wolf<br>  
Gary Wolf<br>  


[http://xrl.us/bh3d4g The Data-Driven Life]<br>  
[http://xrl.us/bh3d4g The Data-Driven Life]<br>  


Aiden R. Doherty and Alan F. Smeaton<br>  
Aiden R. Doherty and Alan F. Smeaton<br>  


[http://doras.dcu.ie/15300/1/Sensors-03-154-Doherty-ie-edited.pdf Automatically Augmenting Lifelog Events Using Pervasively Generated Content from Millions of People<br>]Jennifer S. Beaudin, Stephen S. Intille, and Margaret E. Morris  
[http://doras.dcu.ie/15300/1/Sensors-03-154-Doherty-ie-edited.pdf Automatically Augmenting Lifelog Events Using Pervasively Generated Content from Millions of People<br>]
 
Jennifer S. Beaudin, Stephen S. Intille, and Margaret E. Morris  


[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1794006/?tool=pmcentrez#ref1 To Track or Not to Track: User Reactions to Concepts in Longitudinal Health Monitoring]<br>  
[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1794006/?tool=pmcentrez#ref1 To Track or Not to Track: User Reactions to Concepts in Longitudinal Health Monitoring]<br>  
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[http://www.newyorker.com/arts/critics/atlarge/2011/02/14/110214crat_atlarge_gopnik The Information: How the Internet Gets Inside Us]<br>  
[http://www.newyorker.com/arts/critics/atlarge/2011/02/14/110214crat_atlarge_gopnik The Information: How the Internet Gets Inside Us]<br>  


N. Katherine Hayles<br>  
N. Katherine Hayles<br>  
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[http://manovich.net/blog/wp-content/uploads/2010/10/manovich_visualization_2010.doc What is Visualization?]<br>  
[http://manovich.net/blog/wp-content/uploads/2010/10/manovich_visualization_2010.doc What is Visualization?]<br>  


Nathan Yau<br>  
Nathan Yau<br>  


[http://flowingdata.com/2011/02/23/data-visualization-meets-game-design-to-explore-your-digital-life/ Data Visualization Meets Game Design to Explore your Digital Life]<br>  
[http://flowingdata.com/2011/02/23/data-visualization-meets-game-design-to-explore-your-digital-life/ Data Visualization Meets Game Design to Explore your Digital Life]<br>  


[http://bloom.io/ Bloom]<br>  
[http://bloom.io/ Bloom]<br>  
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[http://www.newscientist.com/article/dn19200-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter Mood Maps Reveal Emotional States of America]<br>  
[http://www.newscientist.com/article/dn19200-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter Mood Maps Reveal Emotional States of America]<br>  


[http://www.newscientist.com/articlevideo/dn19200/221111468001-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter mood video]<br>  
[http://www.newscientist.com/articlevideo/dn19200/221111468001-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter mood video]<br>  


<youtube>ZglPWYb8X2o</youtube>  
<youtube>ZglPWYb8X2o</youtube>  


[http://www.moodscope.com/ Moodscope]<br>  
[http://www.moodscope.com/ Moodscope]<br>  


[http://www.mappiness.org.uk Mappiness]<br>  
[http://www.mappiness.org.uk Mappiness]<br>  
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[http://feltron.com/ The Annual Felton Report]<br>  
[http://feltron.com/ The Annual Felton Report]<br>  


Deb Roy  
Deb Roy  
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<youtube>RE4ce4mexrU</youtube>  
<youtube>RE4ce4mexrU</youtube>  


Johanna Drucker  
Johanna Drucker  
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[http://mitworld.mit.edu/video/796 Humanistic Approaches to the Graphical Expression of Interpretation]<br>  
[http://mitworld.mit.edu/video/796 Humanistic Approaches to the Graphical Expression of Interpretation]<br>  


{{#widget:Drucker Video}}
{{#widget:Drucker Video}}  


<br>
<br>  


== '''Search Me'''  ==
== '''Search Me'''  ==
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[http://pubmedcentralcanada.ca/articlerender.cgi?accid=PMC3104029&tool=pmcentrez Using Web Search Query Data to Monitor Dengue Epidemics: A New Model for Neglected Tropical Disease Surveillance]  
[http://pubmedcentralcanada.ca/articlerender.cgi?accid=PMC3104029&tool=pmcentrez Using Web Search Query Data to Monitor Dengue Epidemics: A New Model for Neglected Tropical Disease Surveillance]  


Annie Y.S. Lau, Enrico Coiera, Tatjana Zrimec, and Paul Compton  
Annie Y.S. Lau, Enrico Coiera, Tatjana Zrimec, and Paul Compton  
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[http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0019467 The Use of Twitter to Track Levels of Disease Activity and Public Concern in the U.S. During the Influenza A H1N1 Pandemic]<br>  
[http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0019467 The Use of Twitter to Track Levels of Disease Activity and Public Concern in the U.S. During the Influenza A H1N1 Pandemic]<br>  


David Parry  
David Parry  


[http://www.livingbooksaboutlife.org/books/Surveillance ''Surveillance'' ]<br>  
[http://www.livingbooksaboutlife.org/books/Surveillance ''Surveillance'' ]<br>  


Felix Stalder and Christine Mayer<br>  
Felix Stalder and Christine Mayer<br>  
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[http://quod.lib.umich.edu/cgi/t/text/text-idx?c=jep;view=text;rgn=main;idno=3336451.0007.104 The Deep Web: Surfacing Hidden Value]  
[http://quod.lib.umich.edu/cgi/t/text/text-idx?c=jep;view=text;rgn=main;idno=3336451.0007.104 The Deep Web: Surfacing Hidden Value]  


Clare Birchall<br>  
Clare Birchall<br>  
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[http://www.suicidemachine.org/ Web 2.0 Suicide Machine]  
[http://www.suicidemachine.org/ Web 2.0 Suicide Machine]  


[http://www.freedomboxfoundation.org/ Freedom Box Foundation]  
[http://www.freedomboxfoundation.org/ Freedom Box Foundation]  


[http://navasse.net/traceblog/about.html Traceblog]  
[http://navasse.net/traceblog/about.html Traceblog]  


[http://turbulence.org/Works/JJPS/extension The JJPS Firefox Extension]  
[http://turbulence.org/Works/JJPS/extension The JJPS Firefox Extension]  

Revision as of 11:29, 4 September 2011

LifetrackingCover1.jpg
LifetrackingCover1.jpg

Digitize Me, Visualize Me, Search Me: Open Science and its Discontents

edited by Gary Hall


Introduction: On the Limits of Openness (Living Books Mix)


Open Science


It’s An Open (Science), Open (Access), Open (Source), Open (Notebook) World

Open Notebook Science


Patrick O. Brown, Michael B. Eisen, Harold Varmus

Why PLoS Became a Publisher


Sally Murray, Stephen Choi, John Hoey, Claire Kendall, James Maskalyk, and Anita Palepu

Open Science, Open Access and Open Source Software at Open Medicine


Community Science

BioCurious: A Community Lab for Biotechnology


Richard Stallman

Free Community Science and the Free Development of Science


‘This Revolution Will Be Digitized’: Online Tools for Open Science

Biogang


Bill Hooker

The Future of Science is Open, Part 3: An Open Science World


Chris Patil and Vivian Siegel

This Revolution Will Be Digitized: Online Tools for Radical Collaboration


Open Science Publishing

Philip E. Bourne

What Do I Want from the Publisher of the Future?


Cameron Neylon

Science in the Open/or/How I Learned to Stop Worrying and Love My Blog


Open Knowledge


Open Access to Knowledge

Open Knowledge Foundation


Gaelle Krikorian and Amy Kapczynski, eds,

Access to Knowledge In the Age of Intellectual Property


New Models for Open Sharing and Open Research
Anne H. Margulies

A New Model for Open Sharing


Thomas B. Kepler, Marc A. Marti-Renom, Stephen M. Maurer, Arti K. Rai, Ginger Taylor, Matthew H. Todd

Open Source Research - The Power of Us


Open Knowledge and its Discontents

J.J. King

The Packet Gang: Openness and its Discontents


Michael Gurstein

Are the Open Data Warriors Fighting for Robin Hood or the Sheriff?: Some Reflections on OKCon 2011 and the Emerging Data Divide


Open Data

Data-Intensive Science
Vincent S. Smith

Data Publication: Towards a Database of Everything


Tony Hey, Stewart Tansley, Kristen Tolle, eds

Scholarly Communication, The Fourth Paradigm: Data-Intensive Scientific Discovery


World of Data

Free Our Data


Simon Rogers

How Canada Became an Open Data and Data Journalism Powerhouse


We Can Know It For You

Omer Tene

What Google Knows: Privacy and Internet Search Engines


Daniel Chandramohan, Kenji Shibuya, Philip Setel, Sandy Cairncross, Alan D. Lopez, Christopher J. L. Murray, Basia Żaba, Robert W. Snow, Fred Binka

Should Data from Demographic Surveillance Systems Be Made More Widely Available to Researchers?


Digitize Me

Encode Me/Decode Me
Human Genome Project


The ENCODE Project Consortium

A User's Guide to the Encyclopaedia of DNA Elements (ENCODE)


deCODEme

Life-Tracking

Quantified Self


Gary Wolf

The Data-Driven Life


Aiden R. Doherty and Alan F. Smeaton

Automatically Augmenting Lifelog Events Using Pervasively Generated Content from Millions of People

Jennifer S. Beaudin, Stephen S. Intille, and Margaret E. Morris

To Track or Not to Track: User Reactions to Concepts in Longitudinal Health Monitoring


The Neurological Turn: or, ‘How the Internet Gets Inside Us’

Adam Gopnik

The Information: How the Internet Gets Inside Us


N. Katherine Hayles

Hyper and Deep Attention: The Generation Divide in Cognitive Modes


Visualize Me


What is Visualization?
Lev Manovich

What is Visualization?


Nathan Yau

Data Visualization Meets Game Design to Explore your Digital Life


Bloom


Mood-mapping

Celeste Biever

Twitter Mood Maps Reveal Emotional States of America


Twitter mood video


Moodscope


Mappiness


The Visualized Human 

Nicholas Felton

The Annual Felton Report


Deb Roy

The Birth of a Word


Johanna Drucker

Humanistic Approaches to the Graphical Expression of Interpretation


Search Me


Search-Engine Science

Emily H. Chan, Vikram Sahai, Corrie Conrad, and John S. Brownstein

Using Web Search Query Data to Monitor Dengue Epidemics: A New Model for Neglected Tropical Disease Surveillance


Annie Y.S. Lau, Enrico Coiera, Tatjana Zrimec, and Paul Compton

Clinician Search Behaviors May Be Influenced by Search Engine Design


The Science of Control

Alession Signorini Alberto Maria Segre, Philip M. Polgreen

The Use of Twitter to Track Levels of Disease Activity and Public Concern in the U.S. During the Influenza A H1N1 Pandemic


David Parry

Surveillance


Felix Stalder and Christine Mayer

The Second Index: Search Engines, Personalization and Surveillance (Deep Search)

Deep Search

Michael K. Bergman

The Deep Web: Surfacing Hidden Value


Clare Birchall

The Invisible Web, The In/Visible


Media Gifts?

Web 2.0 Suicide Machine


Freedom Box Foundation


Traceblog


The JJPS Firefox Extension


==

Appendix

Karl Popper, The Open Society and its Enemies