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[[Image:LifetrackingCover1.jpg|right|318x450px|LifetrackingCover1.jpg]]  
[[Image:LifetrackingCover1.jpg|right|318x450px|LifetrackingCover1.jpg]] Open Science and its Discontents


= '''Digitize Me, Visualize Me, Search Me: Open Science and its Discontents'''<br>  =
[http://www.livingbooksaboutlife.org/books/ISBN_Numbers ISBN: 978-1-60785-267-4]


= edited by Gary Hall<br>  =
''edited by'' [http://www.livingbooksaboutlife.org/books/Digitize_Me,_Visualize_Me,_Search_Me/bio Gary Hall] __TOC__


__TOC__'''<br>'''  
== [http://www.livingbooksaboutlife.org/books/Open_science/Introduction '''Introduction: White Noise: On the Limits of Openness (Living Book Mix)''']  ==


== '''Introduction: White Noise (coming soon...)'''<br>  ==
One of the aims of the Living Books About Life series is to provide a 'bridge' or point of connection, translation, even interrogation and contestation, between the humanities and the sciences. Accordingly, this introduction to ''Digitize Me, Visualize Me, Search Me'' takes as its starting point the so-called ‘computational turn’ to data-intensive scholarship in the humanities.


<br>
The phrase ‘[http://www.thecomputationalturn.com/ the computational turn]’ has been adopted to refer to the process whereby techniques and methodologies drawn from computer science and related fields – including science visualization, interactive information visualization, image processing, network analysis, statistical data analysis, and the management, manipulation and mining of data – are being increasingly used to produce new ways of approaching and understanding texts in the humanities - what is sometimes thought of as 'the digital humanities'. [http://www.livingbooksaboutlife.org/books/Open_science/Introduction (more...)]  
 
== '''Open Science'''  ==
 
<br>
 
'''It’s An Open (Science), Open (Access), Open (Source), Open (Notebook) World'''<br>
 
[http://usefulchem.wikispaces.com/ Open Notebook Science ]  
 
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>
 
Sally Murray, Stephen Choi, John Hoey, Claire Kendall, James Maskalyk, and Anita Palepu<br>
 
[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3091592/pdf/OpenMed-02-e1.pdf??tool=pmcentrez Open Science, Open Access and Open Source Software at ''Open Medicine'']<br>
 
<br>
 
'''Community Science'''
 
[http://www.psfk.com/2010/09/biocurious-a-community-lab-for-biotechnology.html BioCurious: A Community Lab for Biotechnology]
 
Richard Stallman
 
[http://www.plosmedicine.org/article/info%3Adoi%2F10.1371%2Fjournal.pmed.0020047 Free Community Science and the Free Development of Science]<br>
 
<br>
 
'''‘This Revolution Will Be Digitized’: Online Tools for Open Science '''<br>
 
[http://biogang.openwetware.org/ Biogang]
 
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>
 
Chris Patil and Vivian Siegel<br>
 
[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2675795/ This Revolution Will Be Digitized: Online Tools for Radical Collaboration]<br>
 
<br>
 
'''Open Science Publishing'''
 
Philip E. Bourne
 
[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>


[http://pirsa.org/08090038/ Science in the Open/or/How I Learned to Stop Worrying and Love My Blog]
== Open Science ==


<br>
=== It’s An Open (Science), Open (Access), Open (Source), Open (Notebook) World  ===


== '''Open Knowledge'''<br>  ==
;[http://usefulchem.wikispaces.com/ Open Notebook Science ]


<br>
;Patrick O. Brown, Michael B. Eisen, Harold Varmus&nbsp;
:[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0000036 Why PLoS Became a Publisher]


'''Open Access to Knowledge'''<br>
;Sally Murray, Stephen Choi, John Hoey, Claire Kendall, James Maskalyk, and Anita Palepu&nbsp;
:[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3091592/pdf/OpenMed-02-e1.pdf??tool=pmcentrez Open Science, Open Access and Open Source Software at ''Open Medicine'']


[http://okfn.org/ Open Knowledge Foundation]<br>
=== Community Science  ===


Gaelle Krikorian and Amy Kapczynski, eds, <br>
{{#widget:Vimeo|id=12873908}}


[http://www.soros.org/initiatives/information/focus/access/articles_publications/publications/age-of-intellectual-property-20101110/age-of-intellectual-property-20101110.pdf ''Access to Knowledge In the Age of Intellectual Property'']<br>
;[http://www.psfk.com/2010/09/biocurious-a-community-lab-for-biotechnology.html BioCurious: A Community Lab for Biotechnology]


<br>
;Richard Stallman&nbsp;
:[http://www.plosmedicine.org/article/info%3Adoi%2F10.1371%2Fjournal.pmed.0020047 Free Community Science and the Free Development of Science]


'''New Models for Open Sharing and Open Research'''<br>Anne H. Margulies[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0020200 <br>]
=== 'This Revolution Will Be Digitized’: Online Tools for Open Science  ===


[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0020200 A New Model for Open Sharing]<br>
;[http://biogang.openwetware.org/ Biogang]


Thomas B. Kepler, Marc A. Marti-Renom, Stephen M. Maurer, Arti K. Rai, Ginger Taylor, Matthew H. Todd<br>
;Bill Hooker&nbsp;
:[http://3quarksdaily.blogs.com/3quarksdaily/2007/01/the_future_of_s.html The Future of Science is Open, Part 3: An Open Science World]


[http://www.publish.csiro.au/nid/51/paper/CH06095.htm Open Source Research - The Power of Us]<br>
;Chris Patil and Vivian Siegel&nbsp;
:[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2675795/ This Revolution Will Be Digitized: Online Tools for Radical Collaboration]


<br>
=== Open Science Publishing  ===


'''Open Knowledge and its Discontents'''
;Philip E. Bourne&nbsp;
:[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2877727/?tool=pmcentrez#pcbi.1000787-Hey1 What Do I Want from the Publisher of the Future?]


J.J. King<br>
;Cameron Neylon&nbsp;
:[http://pirsa.org/08090038/ Science in the Open/or/How I Learned to Stop Worrying and Love My Blog]


[http://www.metamute.org/proudtobeflesh The Packet Gang: Openness and its Discontents]<br>
== Open Knowledge  ==


Michael Gurstein
=== Access to Knowledge  ===


[http://gurstein.wordpress.com/2011/07/03/are-the-open-data-warriors-fighting-for-robin-hood-or-the-sheriff-some-reflections-on-okcon-2011-and-the-emerging-data-divide/ Are the Open Data Warriors Fighting for Robin Hood or the Sheriff?: Some Reflections on OKCon 2011 and the Emerging Data Divide]  
;[http://okfn.org/ Open Knowledge Foundation]


<br>
;Gaelle Krikorian and Amy Kapczynski, eds&nbsp;
:[http://www.soros.org/initiatives/information/focus/access/articles_publications/publications/age-of-intellectual-property-20101110/age-of-intellectual-property-20101110.pdf ''Access to Knowledge In the Age of Intellectual Property'']


== '''Open Data''' ==
=== New Models for Open Sharing and Open Research ===


'''Data-Intensive Science'''<br>Vincent S. Smith<br>
;Anne H. Margulies&nbsp;
:[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0020200 A New Model for Open Sharing]


[http://www.biomedcentral.com/1756-0500/2/113 Data Publication: Towards a Database of Everything]<br>
;Thomas B. Kepler, Marc A. Marti-Renom, Stephen M. Maurer, Arti K. Rai, Ginger Taylor, Matthew H. Todd&nbsp;
:[http://www.publish.csiro.au/nid/51/paper/CH06095.htm Open Source Research - The Power of Us]


Tony Hey, Stewart Tansley, Kristen Tolle, eds<br>
=== Open Knowledge and its Discontents  ===


[http://research.microsoft.com/en-us/collaboration/fourthparadigm/4th_paradigm_book_part4_complete.pdf Scholarly Communication, ''The Fourth Paradigm: Data-Intensive Scientific Discovery'']<br>
;J.J. King&nbsp;
:[http://www.metamute.org/proudtobeflesh The Packet Gang: Openness and its Discontents]


<br>
;Michael Gurstein&nbsp;
:[http://gurstein.wordpress.com/2011/07/03/are-the-open-data-warriors-fighting-for-robin-hood-or-the-sheriff-some-reflections-on-okcon-2011-and-the-emerging-data-divide/ Are the Open Data Warriors Fighting for Robin Hood or the Sheriff?: Some Reflections on OKCon 2011 and the Emerging Data Divide]


'''World of Data'''<br>
== Open Data ==


[http://www.freeourdata.org.uk/ Free Our Data]<br>
=== Data-Intensive Science  ===


Simon Rogers<br>
;Vincent S. Smith&nbsp;
:[http://www.biomedcentral.com/1756-0500/2/113 Data Publication: Towards a Database of Everything]


[http://www.guardian.co.uk/news/datablog/2010/nov/09/canada-open-data How Canada Became an Open Data and Data Journalism Powerhouse]<br>
;Tony Hey, Stewart Tansley, Kristen Tolle, eds&nbsp;
:[http://research.microsoft.com/en-us/collaboration/fourthparadigm/4th_paradigm_book_part4_complete.pdf Scholarly Communication, ''The Fourth Paradigm: Data-Intensive Scientific Discovery'']


<br> '''We Can Know It For You'''
=== World of Data  ===


Daniel Chandramohan, Kenji Shibuya, Philip Setel, Sandy Cairncross, Alan D. Lopez, Christopher J. L. Murray, Basia Żaba, Robert W. Snow, Fred Binka
;[http://www.freeourdata.org.uk/ Free Our Data]


[http://www.plosmedicine.org/article/info%3Adoi%2F10.1371%2Fjournal.pmed.0050057 Should Data from Demographic Surveillance Systems Be Made More Widely Available to Researchers?]<br>
;Simon Rogers&nbsp;
:[http://www.guardian.co.uk/news/datablog/2010/nov/09/canada-open-data How Canada Became an Open Data and Data Journalism Powerhouse]


Gary Hall<br>
=== We Can Know It For You  ===


[http://scm-rime.tees.ac.uk/VLE/DATA/CSEARCH/MODULES/CS/2010/05/0757/_.doc We Can Know It For You: The Secret Life of Metadata]<br>
;Omer Tene&nbsp;
:[http://epubs.utah.edu/index.php/ulr/article/viewArticle/136 What Google Knows: Privacy and Internet Search Engines]


<br>
;Daniel Chandramohan, Kenji Shibuya, Philip Setel, Sandy Cairncross, Alan D. Lopez, Christopher J. L. Murray, Basia Żaba, Robert W. Snow, Fred Binka&nbsp;
:[http://www.plosmedicine.org/article/info%3Adoi%2F10.1371%2Fjournal.pmed.0050057 Should Data from Demographic Surveillance Systems Be Made More Widely Available to Researchers?]


== '''Digitize Me'''  ==
== '''Digitize Me'''  ==


'''Encode Me/Decode Me'''<br>[http://www.ornl.gov/sci/techresources/Human_Genome/home.shtml Human Genome Project]<br>
=== Encode Me/Decode Me ===


The ENCODE Project Consortium
;[http://www.ornl.gov/sci/techresources/Human_Genome/home.shtml Human Genome Project]


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


[http://www.decodeme.com/about-decodeme deCODEme]<br><br>
;[http://www.decodeme.com/about-decodeme deCODEme]


'''Life-Tracking'''<br>[http://quantifiedself.com Quantified Self]
=== Life-Tracking ===


Gary Wolf<br>
{{#widget:Vimeo|id=27381297}}


[http://xrl.us/bh3d4g The Data-Driven Life]<br>
;[http://quantifiedself.com Quantified Self]


Aiden R. Doherty and Alan F. Smeaton<br>
;Gary Wolf&nbsp;
:[http://xrl.us/bh3d4g The Data-Driven Life]


[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
;Aiden R. Doherty and Alan F. Smeaton&nbsp;
:[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]


[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>
;Jennifer S. Beaudin, Stephen S. Intille, and Margaret E. Morris&nbsp;
:[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>
=== The Neurological Turn: or, ‘How the Internet Gets Inside Us' ===
 
'''The Neurological Turn: or, ‘How the Internet Gets Inside Us’'''  


<youtube>NhLnoZFCDBM</youtube>  
<youtube>NhLnoZFCDBM</youtube>  


N. Katherine Hayles<br>  
<br>  


[http://www.sciy.org/2010/11/24/hyper-and-deep-attention-the-generational-divide-in-cognitive-modes-by-n-katherine-hayles/ Hyper and Deep Attention: The Generation Divide in Cognitive Modes]<br>
;Adam Gopnik&nbsp;
:[http://www.newyorker.com/arts/critics/atlarge/2011/02/14/110214crat_atlarge_gopnik The Information: How the Internet Gets Inside Us]


Adam Gopnik<br>
;N. Katherine Hayles&nbsp;
:[http://www.sciy.org/2010/11/24/hyper-and-deep-attention-the-generational-divide-in-cognitive-modes-by-n-katherine-hayles/ Hyper and Deep Attention: The Generation Divide in Cognitive Modes]


[http://www.newyorker.com/arts/critics/atlarge/2011/02/14/110214crat_atlarge_gopnik The Information: How the Internet Gets Inside Us]<br>
;Anna Munster&nbsp;
 
:[http://computationalculture.net/article/nerves-of-data Nerves of Data: The Neuological Turn In/Against Networked Media]
<br>


== '''Visualize Me'''  ==
== '''Visualize Me'''  ==


<br>
=== What is Visualization?  ===


'''What is Visualization?'''<br>Lev Manovich<br>
;Lev Manovich&nbsp;
:[http://manovich.net/blog/wp-content/uploads/2010/10/manovich_visualization_2010.doc What is Visualization?]


[http://manovich.net/blog/wp-content/uploads/2010/10/manovich_visualization_2010.doc What is Visualization?]<br>
;Nathan Yau&nbsp;
:[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]


Nathan Yau<br>
;[http://bloom.io/ Bloom]


[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>
{{#widget:Vimeo|id=8569187}}


[http://bloom.io/ Bloom]<br>
;Keiichi Matsuda
:[http://www.keiichimatsuda.com/augmented.php Augmented (hyper)Reality: Domestic Robocop]


<br>
=== Mood-mapping  ===


'''Mood-mapping'''
;Celeste Biever&nbsp;
:[http://www.newscientist.com/article/dn19200-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter Mood Maps Reveal Emotional States of America]


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


[http://www.newscientist.com/article/dn19200-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter Mood Maps Reveal Emotional States of America]<br>
<youtube>ZglPWYb8X2o</youtube> [http://www.moodscope.com/]  


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


<youtube>ZglPWYb8X2o</youtube>
;[http://www.mappiness.org.uk Mappiness]


[http://www.moodscope.com/ Moodscope]<br>
=== The Visualized Human (or, The Human As Spectacle)  ===


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


<br>  
<youtube>RE4ce4mexrU</youtube>  


'''The Visualized Human&nbsp;'''
;Deb Roy&nbsp;  
:[http://www.youtube.com/watch?v=RE4ce4mexrU&feature=youtu.be The Birth of a Word]


Nicholas Felton
;Johanna Drucker&nbsp;
:[http://mit.tv/y7OwFq Humanistic Approaches to the Graphical Expression of Interpretation]


[http://feltron.com/ The Annual Felton Report]<br>
== Search Me  ==


Anya Kamenetz
=== Search-Engine Science  ===


[http://www.fastcompany.com/1733627/mit-scientist-captures-his-sons-first-90000-hours-on-video MIT Scientist Captures 90,000 Hours of Video of His Son’s First Words, Graphs It]  
;Emily H. Chan, Vikram Sahai, Corrie Conrad, and John S. Brownstein&nbsp;
:[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]


Johanna Drucker
;Annie Y.S. Lau, Enrico Coiera, Tatjana Zrimec, and Paul Compton&nbsp;
:[http://pubmedcentralcanada.ca/articlerender.cgi?accid=PMC2956236&tool=pmcentrez Clinician Search Behaviors May Be Influenced by Search Engine Design]


[http://mitworld.mit.edu/video/796 Humanistic Approaches to the Graphical Expression of Interpretation]<br>
:[https://brandyourself.com/ BrandYourself]


<br>
=== The Science of Control  ===


== '''Search Me'''  ==
;Alession Signorini, Alberto Maria Segre, Philip M. Polgreen&nbsp;
:[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&nbsp;
:[http://www.livingbooksaboutlife.org/books/Surveillance ''Surveillance'' ]


'''Search-Engine Science'''
;Felix Stalder and Christine Mayer&nbsp;
:[http://felix.openflows.com/node/113 The Second Index: Search Engines, Personalization and Surveillance (Deep Search)]


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


[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]
{{#widget:Vimeo|id=13456992}}


Annie Y.S. Lau, Enrico Coiera, Tatjana Zrimec, and Paul Compton
;Michael K. Bergman&nbsp;
:[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://pubmedcentralcanada.ca/articlerender.cgi?accid=PMC2956236&tool=pmcentrez Clinician Search Behaviors May Be Influenced by Search Engine Design]<br>
;Clare Birchall&nbsp;
:[http://www.livingbooksaboutlife.org/books/The_in/visible The Invisible Web, ''The In/Visible'']


<br>
== Media Gifts?  ==


'''The Science of Control'''<br>
{{#widget:Vimeo|id=8223187}} [http://www.suicidemachine.org/]


Alession Signorini Alberto Maria Segre, Philip M. Polgreen
;[http://www.suicidemachine.org/ Web 2.0 Suicide Machine]


[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://transparencygrenade.com/ Transparency Grenade]


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


[http://www.livingbooksaboutlife.org/books/Surveillance Surveilling Health, ''Surveillance'' ]<br>
;[http://yacy.net/en/index.html/ YaCy]


Felix Stalder and Christine Mayer<br>
;[http://navasse.net/traceblog/about.html Traceblog]


[http://felix.openflows.com/node/113 The Second Index: Search Engines, Personalization and Surveillance (Deep Search)]<br><br>
;[http://turbulence.org/Works/JJPS/extension The JJPS Firefox Extension]


'''Deep Search'''
;[http://www.weavrs.com/find/ Weavers]


Michael K. Bergman<br>
;[http://bengrosser.com/projects/facebook-demetricator/ Facebook Demetricator]


[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://prisom.me/ #PRISOM]


Clare Birchall<br>
;[http://givememydata.com/ Give Me My Data]


[http://www.livingbooksaboutlife.org/books/The_in/visible The Invisible Web, ''The In/Visible'']  
;[http://commodify.us/ commodify.us]


<br> '''White Noise?'''
== Appendix  ==


[http://www.suicidemachine.org/ Web 2.0 Suicide Machine]
<youtube>ukNkx45Ua0Y</youtube>  
 
[http://www.freedomboxfoundation.org/ Freedom Box Foundation]
 
[http://navasse.net/traceblog/about.html Traceblog]
 
[http://turbulence.org/Works/JJPS/extension The JJPS Firefox Extension]
 
<br>  


==
;Karl Popper, The Open Society and its Enemies


== '''Appendix''' ==
== [http://www.livingbooksaboutlife.org/books/Open_science/Attributions Attributions] ==


<br>Karl Popper, The Open Society and its Enemies
== A 'Frozen' PDF Version of this Living Book  ==
 
<youtube>ukNkx45Ua0Y</youtube>
 
<br>


<br><br>
;[http://livingbooksaboutlife.org/pdfs/bookarchive/DigitizeMe.pdf Download a 'frozen' PDF version of this book as it appeared on 7th October 2011]

Latest revision as of 08:57, 12 November 2013

LifetrackingCover1.jpg
LifetrackingCover1.jpg

Open Science and its Discontents

ISBN: 978-1-60785-267-4

edited by Gary Hall

Introduction: White Noise: On the Limits of Openness (Living Book Mix)

One of the aims of the Living Books About Life series is to provide a 'bridge' or point of connection, translation, even interrogation and contestation, between the humanities and the sciences. Accordingly, this introduction to Digitize Me, Visualize Me, Search Me takes as its starting point the so-called ‘computational turn’ to data-intensive scholarship in the humanities.

The phrase ‘the computational turn’ has been adopted to refer to the process whereby techniques and methodologies drawn from computer science and related fields – including science visualization, interactive information visualization, image processing, network analysis, statistical data analysis, and the management, manipulation and mining of data – are being increasingly used to produce new ways of approaching and understanding texts in the humanities - what is sometimes thought of as 'the digital humanities'. (more...)

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

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
Anna Munster 
Nerves of Data: The Neuological Turn In/Against Networked Media

Visualize Me

What is Visualization?

Lev Manovich 
What is Visualization?
Nathan Yau 
Data Visualization Meets Game Design to Explore your Digital Life
Bloom

Keiichi Matsuda
Augmented (hyper)Reality: Domestic Robocop

Mood-mapping

Celeste Biever 
Twitter Mood Maps Reveal Emotional States of America
Twitter mood video

[1]

Moodscope
Mappiness

The Visualized Human (or, The Human As Spectacle)

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
BrandYourself

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?

[2]

Web 2.0 Suicide Machine
Transparency Grenade
Freedom Box Foundation
YaCy
Traceblog
The JJPS Firefox Extension
Weavers
Facebook Demetricator
#PRISOM
Give Me My Data
commodify.us

Appendix

Karl Popper, The Open Society and its Enemies

Attributions

A 'Frozen' PDF Version of this Living Book

Download a 'frozen' PDF version of this book as it appeared on 7th October 2011
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