Citizen Scientists
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Citizen Scientists: harnessing communityintelligence to solve biological problems with
computer games
Paul Gardner
July 17, 2013
Paul Gardner Citizen Scientists: Biolive 2013
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Today I will be presenting...
I How to waste a huge amount of time in (possibly) productiveand potentially educational ways.
Paul Gardner Citizen Scientists: Biolive 2013
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The Intertubes in 2013...
I NZ’s top websites &ranks∗:
1. Facebook3. YouTube5. Trade Me9. Wikipedia
13. LinkedIn15. Blogspot18. Twitter19. Tumblr22. WordPress27. Pinterest33. PirateBay
User generated content is now the most popular sources ofinformation and entertainment.
*Alexa, July 11th , 2013
Paul Gardner Citizen Scientists: Biolive 2013
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Crowdsourcing, citizen science & games with purpose
I CrowdsourcingI E.g. SETI@home & Folding@home
I Citizen scienceI E.g. NZ Garden Bird Survey, Katoa Metagenomics & Galaxy
ZooI Games with purpose
I “We spend 3 billion hours a week as a planet playingvideogames.” – Jane McGonigal
I E.g. Fold.it, Phylo & EteRNA
Paul Gardner Citizen Scientists: Biolive 2013
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Phylo: comparative genomics
# STOCKHOLM 1.0#33 unique RNA sequences, 1 peptide sequence#=GR PR1 G..A..D..V..T..H..P..P..A..G..D..#=GR PR3 GlyAlaAspValThrHisProProAlaGlyAspplatypus GGAGCAGACGTCACTCACCCCCCAGCCGGAGATopossum GGAGCAGATGTTACTCACCCTCCTGCTGGAGATsloth GGAGCAGACGTCACACACCCTCCCGCGGGGGATarmadillo GGAGCAGACGTCACGCACCCTCCGGCAGGGGATtenrec GGGGCCGACGTCACGCACCCCCCTGCGGGCGATelephant GGAGCGGATGTCACACACCCGCCTGCGGGGGATshrew GGCGCAGATGTCACGCATCCTCCAGCAGGGGAChedgehog GGAGCAGATGTCACACACCCCCCAGCAGGAGATmegabat GGAGCAGATGTCACACACCCTCCTGCAGGAGATmicrobat GGAGCAGATGTCACCCACCCCCCTGCAGGGGACdog GGAGCGGATGTCACACACCCCCCAGCCGGGGACcat GGAGCCGATGTCACGCACCCCCCAGCAGGGGAThorse GGAGCGGATGTCACACACCCTCCGGCAGGGGATpika GGAGCAGATGTCACTCACCCTCCAGCTGGGGATrabbit GGTGCAGATGTCACACACCCCCCAGCTGGAGATsquirrel GGAGCAGATGTCACTCACCCTCCAGCGGGAGATguinea_pig GGAGCAGATGTCACACACCCACCAGCGGGAGATmouse GGAGCAGATGTCACTCATCCGCCTGCTGGGGACrat GGAGCAGATGTCACTCATCCACCTGCTGGGGATkangaroo_rat GGAGCAGATGTTACACACCCTCCAGCAGGGGATtree_shrew GGCGCAGACGTCACGCACCCCCCGGCCGGGGAThuman GGAGCGGATGTCACACACCCCCCAGCAGGGGATtarsier GGTGCTGATGTCACACACCCCCCTGCAGGGGATmarmoset GGAGCAGATGTCACACACCCACCAGCAGGGGATzebrafinch GGAGCAGATGTCACTCACCCTCCCGCCGGGGATgreen_anole GGGGCAGACGTCACTCACCCGCCAGCCGGGGACxenopus GGAGCAGATGTTACACACCCACCTGCTGGTGATpufferfish GGTGCGGATGTTACTCATCCTCCTGCTGGTGATfugu GGGGCTGATGTTACTCACCCTCCAGCTGGTGATstickleback GGTGCAGACGTCACACATCCTCCAGCGGGTGATmedaka GGTGCCGATGTCACTCATCCTCCTGCCGGGGACzebrafish GGGGCAGATGTTACACACCCGCCGGCTGGTGATlamprey GGTGCCGATGTGACACACCCTCCAGCGGGAGAC//
Zhan et al. (2013) Peregrine and saker falcon genome sequences provide
insights into evolution of a predatory lifestyle. Nature Genetics.
Paul Gardner Citizen Scientists: Biolive 2013
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Phylo: re-align human promoters associated with diseaseI http://phylo.cs.mcgill.caI Nucleotides are coloured blocksI Create same coloured columns, minimize gaps & mismatches
Kawrykow et al. (2012) Phylo: A Citizen Science Approach forImproving Multiple Sequence Alignment. PLoS ONE
Paul Gardner Citizen Scientists: Biolive 2013
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Play!
I http://phylo.cs.mcgill.ca
Paul Gardner Citizen Scientists: Biolive 2013
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Phylo: teaching resource
I http://phylo.cs.mcgill.ca/teaching/
Paul Gardner Citizen Scientists: Biolive 2013
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EteRNA: synthetic biology
I http://eterna.cmu.edu
I Energy model: stacked basepairs are favoured, loops aredisfavoured
Paul Gardner Citizen Scientists: Biolive 2013
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Thanks!
I Jerome Waldispuhl
PPG is supported by a Rutherford Discovery Fellowship from Government funding, administered by the RoyalSociety of New Zealand.
Paul Gardner Citizen Scientists: Biolive 2013