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Open Source Science

         Ahmed Saeed
       Research Assistant
Egypt-Japan University for Science
    and Technology (E-JUST)
What if science was closed ...
Scientific Openness History

● Disputations

● Anagrams
  "The mother of love imitates shapes of Cynthia" Galileo Galilei
          ● The mother of love                 -> Venus
          ● Cynthia (goddess of the moon) -> Moon
● Journals (1600's)
  Peer Reviews and Citations
Scientific Endeavor

● Have an idea
● Collect data
● Develop the idea and get results
● Publish your work
400 YEARS LATER ...
Scientific Endeavor

● Have an idea
● Collect data
● Develop the idea and get results
● Publish your work
Open Scientific Endeavors

● Open Innovation
● Citizen Science
   ○ Using Your Brain(Gaming)
   ○ Using Your Computer (e.g. SETI@Home)
   ○ Online Collaboration Sites
● Open Source Scientific Software
● Open Access, Open Data, ...
Open Innovation

● InnoCentive (http://www.innocentive.com/)
    ○ Challenges the public to solve problems provided by
      large organizations for a reward
Open Innovation

● InnoCentive (http://www.innocentive.com/)
    ○ Challenges the public to solve problems provided by
      large organizations for a reward
    ○ A Simple detection of DNA sequences in unconventional
      field was thought impossible
    Solved after 4 weeks of being published at InnoCentive
Open Innovation

● PolyMath Project (http://polymathprojects.org/)
   ○ "Is Massively Collaborative Math Possible ?" Tim Gowers
Open Innovation

● PolyMath Project (http://polymathprojects.org/)
   ○ "Is Massively Collaborative Math Possible ?" Tim Gowers
   ○ 40 people collaborated in the course of 7 weeks and
     found a new proof for a mathematical problem and
     calculated bounds for the same problem
Citizen Science


A term used for projects or ongoing program of scientific work
in which individual volunteers or networks of volunteers, many
of whom may have no specific scientific training, perform or
manage research-related tasks such as observation,
measurement, or computation.
Citizen Science
Using Your Brain (Gaming)

 ● FoldIt, Solve Puzzles for Science (http://fold.it/portal/)
    ○ A computer game enabling you to contribute to important
      scientific research
    ○ It attempts to predict the structure of a protein by taking
      advantage of humans' puzzle-solving intuitions and
      having people play competitively to fold the best
      proteins.
Citizen Science
Using Your Computer

 ● SETI@Home, Search for Extra-Terrestrial Intelligence (http:
   //setiathome.berkeley.edu/)
     ○ Internet-based public volunteer computing project that is
       used to analyze radio signals, searching for signs of
       extra terrestrial intelligence.
Citizen Science
Online Collaboration Sites

 ● Science for Citizens (http://scienceforcitizens.net/)
    ○ Enable and encourage people to learn about, participate
      in, and contribute to science.
    ○ Inspire greater appreciation and promote a better
      understanding of science and technology among the
      general public.
    ○ Create a shared space where scientists can talk with
      citizens interested in working on or learning about their
      research projects.
Open Source Scientific Software



A lot of communities and research centers are producing such
                      software including
      (NASA, MIT, Bell Labs, Ubuntu Science, SciPy, ....)
Open Access, Open Data, ...

● Open Access refers to unrestricted online access to articles
  published in scholarly journals, and also increasingly to
  book chapters or monographs.
● Open Data is the idea that certain data should be freely
  available to everyone to use and republish as they wish,
  without restrictions from copyright, patents or other
  mechanisms of control.
● Other initiatives and movements are growing
Conclusion

● The current popular scientific methodology is OLD !
● Different initiatives are suggested to change that including
   ○ Open Innovation
   ○ Citizen Science
   ○ Open Source Scientific Software
   ○ Open Data
   ○ Open Access
● And most importantly there are ways for non-scientists to
  participate in advancing human knowledge thanks to
  openness concepts
References

● Wikipedia, 2011.
● Michael Nielsen's Blog.
● A Short History of Science Writing, http://www.scitext.com/history.php
● Open Source Science: A New Model for Innovation, http:
  //hbswk.hbs.edu/item/5544.html
● The Future of Science is Open,             http://3quarksdaily.blogs.
  com/3quarksdaily/2006/10/the_future_of_s_1.html

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Open source science

  • 1. Open Source Science Ahmed Saeed Research Assistant Egypt-Japan University for Science and Technology (E-JUST)
  • 2. What if science was closed ...
  • 3. Scientific Openness History ● Disputations ● Anagrams "The mother of love imitates shapes of Cynthia" Galileo Galilei ● The mother of love -> Venus ● Cynthia (goddess of the moon) -> Moon ● Journals (1600's) Peer Reviews and Citations
  • 4. Scientific Endeavor ● Have an idea ● Collect data ● Develop the idea and get results ● Publish your work
  • 6. Scientific Endeavor ● Have an idea ● Collect data ● Develop the idea and get results ● Publish your work
  • 7. Open Scientific Endeavors ● Open Innovation ● Citizen Science ○ Using Your Brain(Gaming) ○ Using Your Computer (e.g. SETI@Home) ○ Online Collaboration Sites ● Open Source Scientific Software ● Open Access, Open Data, ...
  • 8. Open Innovation ● InnoCentive (http://www.innocentive.com/) ○ Challenges the public to solve problems provided by large organizations for a reward
  • 9. Open Innovation ● InnoCentive (http://www.innocentive.com/) ○ Challenges the public to solve problems provided by large organizations for a reward ○ A Simple detection of DNA sequences in unconventional field was thought impossible Solved after 4 weeks of being published at InnoCentive
  • 10. Open Innovation ● PolyMath Project (http://polymathprojects.org/) ○ "Is Massively Collaborative Math Possible ?" Tim Gowers
  • 11. Open Innovation ● PolyMath Project (http://polymathprojects.org/) ○ "Is Massively Collaborative Math Possible ?" Tim Gowers ○ 40 people collaborated in the course of 7 weeks and found a new proof for a mathematical problem and calculated bounds for the same problem
  • 12. Citizen Science A term used for projects or ongoing program of scientific work in which individual volunteers or networks of volunteers, many of whom may have no specific scientific training, perform or manage research-related tasks such as observation, measurement, or computation.
  • 13. Citizen Science Using Your Brain (Gaming) ● FoldIt, Solve Puzzles for Science (http://fold.it/portal/) ○ A computer game enabling you to contribute to important scientific research ○ It attempts to predict the structure of a protein by taking advantage of humans' puzzle-solving intuitions and having people play competitively to fold the best proteins.
  • 14. Citizen Science Using Your Computer ● SETI@Home, Search for Extra-Terrestrial Intelligence (http: //setiathome.berkeley.edu/) ○ Internet-based public volunteer computing project that is used to analyze radio signals, searching for signs of extra terrestrial intelligence.
  • 15. Citizen Science Online Collaboration Sites ● Science for Citizens (http://scienceforcitizens.net/) ○ Enable and encourage people to learn about, participate in, and contribute to science. ○ Inspire greater appreciation and promote a better understanding of science and technology among the general public. ○ Create a shared space where scientists can talk with citizens interested in working on or learning about their research projects.
  • 16. Open Source Scientific Software A lot of communities and research centers are producing such software including (NASA, MIT, Bell Labs, Ubuntu Science, SciPy, ....)
  • 17. Open Access, Open Data, ... ● Open Access refers to unrestricted online access to articles published in scholarly journals, and also increasingly to book chapters or monographs. ● Open Data is the idea that certain data should be freely available to everyone to use and republish as they wish, without restrictions from copyright, patents or other mechanisms of control. ● Other initiatives and movements are growing
  • 18. Conclusion ● The current popular scientific methodology is OLD ! ● Different initiatives are suggested to change that including ○ Open Innovation ○ Citizen Science ○ Open Source Scientific Software ○ Open Data ○ Open Access ● And most importantly there are ways for non-scientists to participate in advancing human knowledge thanks to openness concepts
  • 19. References ● Wikipedia, 2011. ● Michael Nielsen's Blog. ● A Short History of Science Writing, http://www.scitext.com/history.php ● Open Source Science: A New Model for Innovation, http: //hbswk.hbs.edu/item/5544.html ● The Future of Science is Open, http://3quarksdaily.blogs. com/3quarksdaily/2006/10/the_future_of_s_1.html