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] | :[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0000036 Why PLoS Became a Publisher] | ||
;Sally Murray, Stephen Choi, John Hoey, Claire Kendall, James Maskalyk, and Anita Palepu | ;Sally Murray, Stephen Choi, John Hoey, Claire Kendall, James Maskalyk, and Anita Palepu | ||
:[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://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''] | ||
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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 | ||
:[http://www.plosmedicine.org/article/info%3Adoi%2F10.1371%2Fjournal.pmed.0020047 Free Community Science and the Free Development of Science] | :[http://www.plosmedicine.org/article/info%3Adoi%2F10.1371%2Fjournal.pmed.0020047 Free Community Science and the Free Development of Science] | ||
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;[http://biogang.openwetware.org/ Biogang] | ;[http://biogang.openwetware.org/ Biogang] | ||
;Bill Hooker | ;Bill Hooker | ||
:[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://3quarksdaily.blogs.com/3quarksdaily/2007/01/the_future_of_s.html The Future of Science is Open, Part 3: An Open Science World] | ||
;Chris Patil and Vivian Siegel | ;Chris Patil and Vivian Siegel | ||
:[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2675795/ This Revolution Will Be Digitized: Online Tools for Radical Collaboration] | :[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2675795/ This Revolution Will Be Digitized: Online Tools for Radical Collaboration] | ||
=== Open Science Publishing === | === Open Science Publishing === | ||
;Philip E. Bourne | ;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?] | :[http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2877727/?tool=pmcentrez#pcbi.1000787-Hey1 What Do I Want from the Publisher of the Future?] | ||
;Cameron Neylon | ;Cameron Neylon | ||
:[http://pirsa.org/08090038/ Science in the Open/or/How I Learned to Stop Worrying and Love My Blog] | :[http://pirsa.org/08090038/ Science in the Open/or/How I Learned to Stop Worrying and Love My Blog] | ||
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;[http://okfn.org/ Open Knowledge Foundation] | ;[http://okfn.org/ Open Knowledge Foundation] | ||
;Gaelle Krikorian and Amy Kapczynski, eds | ;Gaelle Krikorian and Amy Kapczynski, eds | ||
:[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''] | :[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''] | ||
=== New Models for Open Sharing and Open Research === | === New Models for Open Sharing and Open Research === | ||
;Anne H. Margulies | ;Anne H. Margulies | ||
:[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0020200 A New Model for Open Sharing] | :[http://www.plosbiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.0020200 A New Model for Open Sharing] | ||
;Thomas B. Kepler, Marc A. Marti-Renom, Stephen M. Maurer, Arti K. Rai, Ginger Taylor, Matthew H. Todd | ;Thomas B. Kepler, Marc A. Marti-Renom, Stephen M. Maurer, Arti K. Rai, Ginger Taylor, Matthew H. Todd | ||
:[http://www.publish.csiro.au/nid/51/paper/CH06095.htm Open Source Research - The Power of Us] | :[http://www.publish.csiro.au/nid/51/paper/CH06095.htm Open Source Research - The Power of Us] | ||
=== Open Knowledge and its Discontents === | === Open Knowledge and its Discontents === | ||
;J.J. King | ;J.J. King | ||
:[http://www.metamute.org/proudtobeflesh The Packet Gang: Openness and its Discontents] | :[http://www.metamute.org/proudtobeflesh The Packet Gang: Openness and its Discontents] | ||
;Michael Gurstein | ;Michael Gurstein | ||
:[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://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] | ||
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=== Data-Intensive Science === | === Data-Intensive Science === | ||
;Vincent S. Smith | ;Vincent S. Smith | ||
:[http://www.biomedcentral.com/1756-0500/2/113 Data Publication: Towards a Database of Everything] | :[http://www.biomedcentral.com/1756-0500/2/113 Data Publication: Towards a Database of Everything] | ||
;Tony Hey, Stewart Tansley, Kristen Tolle, eds | ;Tony Hey, Stewart Tansley, Kristen Tolle, eds | ||
:[http://research.microsoft.com/en-us/collaboration/fourthparadigm/4th_paradigm_book_part4_complete.pdf Scholarly Communication, ''The Fourth Paradigm: Data-Intensive Scientific Discovery''] | :[http://research.microsoft.com/en-us/collaboration/fourthparadigm/4th_paradigm_book_part4_complete.pdf Scholarly Communication, ''The Fourth Paradigm: Data-Intensive Scientific Discovery''] | ||
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;[http://www.freeourdata.org.uk/ Free Our Data] | ;[http://www.freeourdata.org.uk/ Free Our Data] | ||
;Simon Rogers | ;Simon Rogers | ||
:[http://www.guardian.co.uk/news/datablog/2010/nov/09/canada-open-data How Canada Became an Open Data and Data Journalism Powerhouse] | :[http://www.guardian.co.uk/news/datablog/2010/nov/09/canada-open-data How Canada Became an Open Data and Data Journalism Powerhouse] | ||
=== We Can Know It For You === | === We Can Know It For You === | ||
;Omer Tene | ;Omer Tene | ||
:[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 | ||
:[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?] | :[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?] | ||
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;[http://www.ornl.gov/sci/techresources/Human_Genome/home.shtml Human Genome Project] | ;[http://www.ornl.gov/sci/techresources/Human_Genome/home.shtml Human Genome Project] | ||
;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) ] | :[http://pubmedcentralcanada.ca/picrender.cgi?accid=PMC3079585&blobtype=pdf&tool=pmcentrez A User's Guide to the Encyclopaedia of DNA Elements (ENCODE) ] | ||
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;[http://quantifiedself.com Quantified Self] | ;[http://quantifiedself.com Quantified Self] | ||
;Gary Wolf | ;Gary Wolf | ||
:[http://xrl.us/bh3d4g The Data-Driven Life] | :[http://xrl.us/bh3d4g The Data-Driven Life] | ||
;Aiden R. Doherty and Alan F. Smeaton | ;Aiden R. Doherty and Alan F. Smeaton | ||
:[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://doras.dcu.ie/15300/1/Sensors-03-154-Doherty-ie-edited.pdf Automatically Augmenting Lifelog Events Using Pervasively Generated Content from Millions of People] | ||
;Jennifer S. Beaudin, Stephen S. Intille, and Margaret E. Morris | ;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] | :[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] | ||
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<youtube>NhLnoZFCDBM</youtube> | <youtube>NhLnoZFCDBM</youtube> | ||
<br> | |||
;Adam Gopnik | ;Adam Gopnik | ||
:[http://www.newyorker.com/arts/critics/atlarge/2011/02/14/110214crat_atlarge_gopnik The Information: How the Internet Gets Inside Us] | :[http://www.newyorker.com/arts/critics/atlarge/2011/02/14/110214crat_atlarge_gopnik The Information: How the Internet Gets Inside Us] | ||
;N. Katherine Hayles | ;N. Katherine Hayles | ||
:[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.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] Anna Munster | ||
[http://computationalculture.net/article/nerves-of-data Nerves of Data: The Neuological Turn In/Against Networked Media] | |||
[http://computationalculture.net/article/nerves-of-data Nerves of Data: The Neuological Turn In/Against Networked Media] | |||
== '''Visualize Me''' == | == '''Visualize Me''' == | ||
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=== What is Visualization? === | === What is Visualization? === | ||
;Lev Manovich | ;Lev Manovich | ||
:[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?] | ||
;Nathan Yau | ;Nathan Yau | ||
:[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] | :[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] | ||
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=== Mood-mapping === | === Mood-mapping === | ||
;Celeste Biever | ;Celeste Biever | ||
:[http://www.newscientist.com/article/dn19200-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter Mood Maps Reveal Emotional States of America] | :[http://www.newscientist.com/article/dn19200-twitter-mood-maps-reveal-emotional-states-of-america.html Twitter Mood Maps Reveal Emotional States of America] | ||
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=== The Visualized Human (or, The Human As Spectacle) === | === The Visualized Human (or, The Human As Spectacle) === | ||
;Nicholas Felton | ;Nicholas Felton | ||
:[http://feltron.com/ The Annual Felton Report] | :[http://feltron.com/ The Annual Felton Report] | ||
<youtube>RE4ce4mexrU</youtube> | <youtube>RE4ce4mexrU</youtube> | ||
;Deb Roy | ;Deb Roy | ||
:[http://www.youtube.com/watch?v=RE4ce4mexrU&feature=youtu.be The Birth of a Word] | :[http://www.youtube.com/watch?v=RE4ce4mexrU&feature=youtu.be The Birth of a Word] | ||
{{#widget:Drucker Video}} | {{#widget:Drucker Video}} | ||
;Johanna Drucker | ;Johanna Drucker | ||
:[http://mitworld.mit.edu/video/796 Humanistic Approaches to the Graphical Expression of Interpretation] | :[http://mitworld.mit.edu/video/796 Humanistic Approaches to the Graphical Expression of Interpretation] | ||
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=== Search-Engine Science === | === Search-Engine Science === | ||
;Emily H. Chan, Vikram Sahai, Corrie Conrad, and John S. Brownstein | ;Emily H. Chan, Vikram Sahai, Corrie Conrad, and John S. Brownstein | ||
:[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 | ||
:[http://pubmedcentralcanada.ca/articlerender.cgi?accid=PMC2956236&tool=pmcentrez Clinician Search Behaviors May Be Influenced by Search Engine Design] | :[http://pubmedcentralcanada.ca/articlerender.cgi?accid=PMC2956236&tool=pmcentrez Clinician Search Behaviors May Be Influenced by Search Engine Design] | ||
=== The Science of Control === | === The Science of Control === | ||
;Alession Signorini Alberto Maria Segre, Philip M. Polgreen | ;Alession Signorini Alberto Maria Segre, Philip M. Polgreen | ||
:[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] | :[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] | ||
;David Parry | ;David Parry | ||
:[http://www.livingbooksaboutlife.org/books/Surveillance ''Surveillance'' ] | :[http://www.livingbooksaboutlife.org/books/Surveillance ''Surveillance'' ] | ||
;Felix Stalder and Christine Mayer | ;Felix Stalder and Christine Mayer | ||
:[http://felix.openflows.com/node/113 The Second Index: Search Engines, Personalization and Surveillance (Deep Search)] | :[http://felix.openflows.com/node/113 The Second Index: Search Engines, Personalization and Surveillance (Deep Search)] | ||
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{{#widget:Vimeo|id=13456992}} | {{#widget:Vimeo|id=13456992}} | ||
;Michael K. Bergman | ;Michael K. Bergman | ||
:[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 | ;Clare Birchall | ||
:[http://www.livingbooksaboutlife.org/books/The_in/visible The Invisible Web, ''The In/Visible''] | :[http://www.livingbooksaboutlife.org/books/The_in/visible The Invisible Web, ''The In/Visible''] | ||
Revision as of 12:48, 9 December 2011
Open Science and its Discontents 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
- 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
- Richard Stallman
- Free Community Science and the Free Development of Science
'This Revolution Will Be Digitized’: Online Tools for Open Science
- 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?
Open Knowledge
Access to Knowledge
- 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
- 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
We Can Know It For You
- 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
- The ENCODE Project Consortium
- A User's Guide to the Encyclopaedia of DNA Elements (ENCODE)
Life-Tracking
- 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?
Mood-mapping
- Celeste Biever
- Twitter Mood Maps Reveal Emotional States of America
The Visualized Human (or, The Human As Spectacle)
- Nicholas Felton
- The Annual Felton Report
- Deb Roy
- The Birth of a Word
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?
Appendix
- Karl Popper, The Open Society and its Enemies