usefulchem: an open notebook science project
DESCRIPTION
UsefulChem: An Open Notebook Science Project. ASIS&T Panel : Opening Science to All: Implications of Blogs and Wikis for Social and Scholarly Scientific Communication. Jean-Claude Bradley. E-Learning Coordinator College of Arts and Sciences Associate Professor of Chemistry - PowerPoint PPT PresentationTRANSCRIPT
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UsefulChem:An Open Notebook Science Project
Jean-Claude Bradley
E-Learning Coordinator College of Arts and Sciences
Associate Professor of ChemistryDrexel University
Oct 23, 2007
ASIS&T Panel :Opening Science to All: Implications of Blogs and Wikis
for Social and Scholarly Scientific Communication
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Open and Closed ScienceOpen and Closed Science
TraditionalLab Notebook(unpublished)
TraditionalJournal Article
Open Access Journal Article
Open Notebook Science (full transparency)
CLOSED
OPEN
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Where is Science headed?Where is Science headed?
WE ARE HEREWE ARE HERE
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How will this happen?How will this happen?
Self-organizing redundant processesSelf-organizing redundant processes Agents can Read/Write with zero cost Agents can Read/Write with zero cost
(free hosted services – e.g. Google)(free hosted services – e.g. Google) Publication of all aspects of the Publication of all aspects of the
scientific process: scientific process: Open Notebook Open Notebook ScienceScience
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How can machines know what How can machines know what is important?is important?
Ask the humansAsk the humans
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UsefulChem BlogUsefulChem Blog
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What chemists think is What chemists think is important in 2005important in 2005
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Malaria is a Logical Application Malaria is a Logical Application of Open Scienceof Open Science
•Very large problem: 300-500 million cases per year with one million deaths
•Not a lucrative market: IP control less important
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Find-A-DrugFind-A-Drug
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Diketopiperazine LibraryDiketopiperazine LibraryEvolves to: on pot Evolves to: on pot
Ugi Ugi reaction/cyclizationreaction/cyclization
First iteration: First iteration: Solid Support Solid Support
SynthesisSynthesis
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The Molecules BlogThe Molecules Blog
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The Experiments BlogThe Experiments Blog
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Comments from peersComments from peers
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The UsefulChem WikiThe UsefulChem Wiki
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Telling the story of the failuresTelling the story of the failures
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Experiments moved to wikiExperiments moved to wiki
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Experiment HistoryExperiment History
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Experiment EditsExperiment Edits
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Third Party Time-Stamp on Third Party Time-Stamp on Experiment VersionsExperiment Versions
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Monitoring experimental Monitoring experimental progressprogress
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How are people finding our How are people finding our experiments?experiments?
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Molecules found by InChIMolecules found by InChI
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Graphical Mining of Data with Graphical Mining of Data with JSpecViewJSpecView
usefulchem.wikispaces.com/Exp070 (48h 7 min)usefulchem.wikispaces.com/Exp070 (48h 7 min)
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usefulchem.blogspot.comusefulchem.blogspot.com
The blog as an integrative The blog as an integrative tooltool
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Processing Molecules on Processing Molecules on ChemSpiderChemSpider
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Open Primary Research in Drug Design Open Primary Research in Drug Design using Web2.0 toolsusing Web2.0 tools
(blogs, wikis, Second Life, mailing (blogs, wikis, Second Life, mailing lists)lists)
Docking
Synthesis
Testing
Rajarshi GuhaIndiana U
JC BradleyDrexel U
Phil RosenthalUCSF
(malaria)
Dan ZaharevitzNCI
(tumors)
Tsu-Soo TanNanyang Inst.
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Mailing List Facilitates inter-Mailing List Facilitates inter-group collaborationgroup collaboration
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UsefulChem and Open UsefulChem and Open Science in Second LifeScience in Second Life
scifooliveson.wikispaces.com
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QuestionQuestion: Is it really a good thing to let anyone who thinks : Is it really a good thing to let anyone who thinks they have a scientific breakthrough have access to free, they have a scientific breakthrough have access to free, open, public, Googleable media? open, public, Googleable media?
YESYES QuestionQuestion: What if I make a mistake in my data, never fix it, : What if I make a mistake in my data, never fix it,
no one catches it, and then someone dies because a no one catches it, and then someone dies because a medical decision was based on my "findings"? Isn't this medical decision was based on my "findings"? Isn't this exactly why we have formal peer review in formal exactly why we have formal peer review in formal publications? publications?
Peer review is not designed to catch errors from the Peer review is not designed to catch errors from the analysis of raw dataanalysis of raw data
Open Notebook Science is more difficult where Open Notebook Science is more difficult where human subjects are involvedhuman subjects are involved
QuestionQuestion: Who is the audience for science blogs and wikis : Who is the audience for science blogs and wikis anyway? Scientists or laypeople? anyway? Scientists or laypeople?
For UsefulChem, wiki is for chemists, blog for wider For UsefulChem, wiki is for chemists, blog for wider audienceaudience
QuestionQuestion: Can you get published if you've already posted : Can you get published if you've already posted your results to your blog/wiki? your results to your blog/wiki?
We’ll find out….We’ll find out…. QuestionQuestion: Can scientists establish their : Can scientists establish their
credibilities/reputation by writing blogs and wikis? credibilities/reputation by writing blogs and wikis? Certainly we’ve found collaborators this wayCertainly we’ve found collaborators this way