Open Notebook Science And the Library British Columbia Library Association Open Access Conference Jean-Claude Bradley E-Learning Coordinator College of Arts and Sciences Drexel University April 19, 2007

Open and Closed Science Open Notebook Science (full transparency) Traditional Lab Notebook (unpublished) Traditional Journal Article Open Access Journal Article RESEARCH OPEN CLOSED TEACHING Archived Lectures Public and free online textbooks Lectures Notes public Traditional Paper Textbook F2F lectures Assigned problems public

Agenda This session will cover the dissemination of primary scientific information via blogs, wikis and other non-traditional vehicles 1. Types of information raw experimental data (Open Notebook Science) analyzed data hypotheses “failed” experiments generalized protocols traditional article format

2. Issues Intellectual Property Referencing and claims to priority Academic Validation Peer Review – mandatory and elective

3. Opportunities Increasing productivity in terms of universally usable knowledge units Making explicit the nature and quantity of work in collaborations Using semantically rich formats and automation at zero publication cost – is this the way to the technological singularity?

Where is Science headed? WE ARE HERE

The Robot Scientist

How will this happen? Self-organizing reduntant processes Agents can participate with zero or near-zero cost (free hosted services) Fully Open Access (Read and Write) Publication of all aspects of the scientific process: Open Source Science / Open Notebook Science

How can machines know what is important? Ask the humans

UsefulChem Blog

What chemists think is important in 2005

Find-A-Drug

Diketopiperazine Library First iteration: Solid Support Synthesis Evolves to: on pot Ugi reaction/cyclization

The Molecules Blog

The Experiments Blog

Comments from peers

The UsefulChem Wiki

Telling the story of the failures

Experiments moved to wiki

Experiment History

Experiment Edits

Third Party Time-Stamp on Experiment Versions

Monitoring experimental progress

How are people finding our experiments?

Molecules found by InChI

Automation in UsefulChem

CMLRSS feed on Bioclipse

Open science connectivity More info on open source science here http://usefulchem.wikispaces.com

The blog as an integrative tool usefulchem.blogspot.com

The wiki as the laboratory notebook usefulchem.wikispaces.com/Exp049

Graphical Mining of Data with JSpecView usefulchem.wikispaces.com/Exp049 (2 min)

Raw Experimental Data neurodatabase.org

Selected Experiments (some failed) Orgprepdaily.wordpress.com

Vendor Reliability Orgprepdaily.wordpress.com

Generalized Protocols Openwetware.org

Lab Notebook for intra-group communication Openwetware.org

Discussing Hypotheses RRResearch.blogspot.com

Writing Code for the Automation Component Also – Rich Apodaca, Christoph Steinbeck, Peter Murray-Rust