NCAR Open Access Week

Friday, October 23, 2009

pick the most likely scenario circa 1990:

(apologies to Jamie Boyle)Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

“...we don’t ask what the incentive is for the electrons to leave home. we say that the current results from an emergent property of the system, which we call induction.”

eben moglen

Friday, October 23, 2009

“...we don’t ask what the incentive is for the electrons to leave home. we say that the current results from an emergent property of the system, which we call induction.”

The question we ask is ‘what’s the resistance of the wire?’

eben moglen

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

less likely in reality than the theoretical impossibilities of free software and wikipedia.

Friday, October 23, 2009

1. Happy Open Access Week!

Friday, October 23, 2009

1. Happy Open Access Week!

(we’re a long, long, long way from being done)

Friday, October 23, 2009

8 years after Budapest...

Friday, October 23, 2009

why is this still so hard?

Friday, October 23, 2009

“Innovation makes enemies of all those who prospered under the old regime, and only lukewarm support is forthcoming from those who would prosper under the new. Their support is indifferent partly from fear and partly because they are generally incredulous, never really trusting new things unless they have tested them by experience.”

Friday, October 23, 2009

“Innovation makes enemies of all those who prospered under the old regime, and only lukewarm support is forthcoming from those who would prosper under the new. Their support is indifferent partly from fear and partly because they are generally incredulous, never really trusting new things unless they have tested them by experience.”

(machiavelli)

Friday, October 23, 2009

the balance of power is shifting to the user of content.

Friday, October 23, 2009

Friday, October 23, 2009

media company response:adjust the physical media.

force the cd format.disable new digital formats.

protect the business model.

Friday, October 23, 2009

Friday, October 23, 2009

after all, it’s your music.

Friday, October 23, 2009

now a computer company dominates the music industry.

Friday, October 23, 2009

rip. mix. burn.

after all, it’s your knowledge.

Friday, October 23, 2009

self archivingFriday, October 23, 2009

OA publishing

Friday, October 23, 2009

both roads are too concernedwith the publishing, not the user...

Friday, October 23, 2009

after all, it’s her knowledge.

Friday, October 23, 2009

2. the users are changing the system for us.

Friday, October 23, 2009

registrationcertification

disseminationpreservation

Friday, October 23, 2009

registrationcertification

disseminationpreservation

Friday, October 23, 2009

Friday, October 23, 2009

registrationcertification

disseminationpreservation

Friday, October 23, 2009

Friday, October 23, 2009

someone’s going to crackdistributed peer review.

Friday, October 23, 2009

Friday, October 23, 2009

3. there is plenty of opportunity out there for

scholarly societies and publishers...

Friday, October 23, 2009

Friday, October 23, 2009

integrationannotationfederation

Friday, October 23, 2009

103 databases - just molecular biology

Friday, October 23, 2009

select ?gene_name ?process_namewhere{ PropertyValue(?pubmed_record, ?p, mesh:D017966) PropertyValue(?article, sc:identified_by_pmid , ?pubmed_record) PropertyValue(?gene_record, sc:describes_gene_or_gene_product_mentioned_by, ?article) SubClassOf(?protein, some(ro:has_function, some(ro:realized_as, ?process))) SubClassOf(?process, or(go:GO_0007166, some(ro:part_of, go:GO_0007166)) SubClassOf(?protein, some(sc:is_protein_gene_product_of_dna_described_by,?gene_record)) Annotation(?gene_record,rdfs:label,{?gene_name}) Annotation(?process,rdfs:label,?process_name)}

mesh: pyramidal neurons

pubmed: journal articles

entrez gene: genes

go: signal transduction

better answers through better formats:

Friday, October 23, 2009

DRD1, 1812 adenylate cyclase activationADRB2, 154 adenylate cyclase activationADRB2, 154 arrestin mediated desensitization of G-protein coupled receptor protein signaling pathwayDRD1IP, 50632 dopamine receptor signaling pathwayDRD1, 1812 dopamine receptor, adenylate cyclase activating pathwayDRD2, 1813 dopamine receptor, adenylate cyclase inhibiting pathwayGRM7, 2917 G-protein coupled receptor protein signaling pathwayGNG3, 2785 G-protein coupled receptor protein signaling pathwayGNG12, 55970 G-protein coupled receptor protein signaling pathwayDRD2, 1813 G-protein coupled receptor protein signaling pathwayADRB2, 154 G-protein coupled receptor protein signaling pathwayCALM3, 808 G-protein coupled receptor protein signaling pathwayHTR2A, 3356 G-protein coupled receptor protein signaling pathwayDRD1, 1812 G-protein signaling, coupled to cyclic nucleotide second messengerSSTR5, 6755 G-protein signaling, coupled to cyclic nucleotide second messengerMTNR1A, 4543 G-protein signaling, coupled to cyclic nucleotide second messengerCNR2, 1269 G-protein signaling, coupled to cyclic nucleotide second messengerHTR6, 3362 G-protein signaling, coupled to cyclic nucleotide second messengerGRIK2, 2898 glutamate signaling pathwayGRIN1, 2902 glutamate signaling pathwayGRIN2A, 2903 glutamate signaling pathwayGRIN2B, 2904 glutamate signaling pathwayADAM10, 102 integrin-mediated signaling pathwayGRM7, 2917 negative regulation of adenylate cyclase activityLRP1, 4035 negative regulation of Wnt receptor signaling pathwayADAM10, 102 Notch receptor processingASCL1, 429 Notch signaling pathwayHTR2A, 3356 serotonin receptor signaling pathwayADRB2, 154 transmembrane receptor protein tyrosine kinase activation (dimerization)PTPRG, 5793 transmembrane receptor protein tyrosine kinase signaling pathwayEPHA4, 2043 transmembrane receptor protein tyrosine kinase signaling pathwayNRTN, 4902 transmembrane receptor protein tyrosine kinase signaling pathwayCTNND1, 1500 Wnt receptor signaling pathway`

Friday, October 23, 2009

http://hcls1.csail.mit.edu:8890/sparql/?query=prefix%20go%3A%20%3Chttp%3A%2F%2Fpurl.org%2Fobo%2Fowl%2FGO%23%3E%0Aprefix%20rdfs%3A%20%3Chttp%3A%2F%2Fwww.w3.org%2F2000%2F01%2Frdf-schema%23%3E%0Aprefix%20owl%3A%20%3Chttp%3A%2F%2Fwww.w3.org%2F2002%2F07%2Fowl%23%3E%0Aprefix%20mesh%3A%20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Frecord%2Fmesh%2F%3E%0Aprefix%20sc%3A%20%3Chttp%3A%2F%2Fpurl.org%2Fscience%2Fowl%2Fsciencecommons%2F%3E%0Aprefix%20ro%3A%20%3Chttp%3A%2F%2Fwww.obofoundry.org%2Fro%2Fro.owl%23%3E%0A%0Aselect%20%3Fgenename%20%3Fprocessname%0Awhere%0A%7B%20%20graph%20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Fhcls%2Fpubmesh%3E%0A%20%20%20%20%20%7B%20%3Fpaper%20%3Fp%20mesh%3AD017966%20.%0A%20%20%20%20%20%20%20%3Farticle%20sc%3Aidentified_by_pmid%20%3Fpaper.%0A%20%20%20%20%20%20%20%3Fgene%20sc%3Adescribes_gene_or_gene_product_mentioned_by%20%3Farticle.%0A%20%20%20%20%20%7D%0A%20%20%20graph%20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Fhcls%2Fgoa%3E%0A%20%20%20%20%20%7B%20%3Fprotein%20rdfs%3AsubClassOf%20%3Fres.%0A%20%20%20%20%20%20%20%3Fres%20owl%3AonProperty%20ro%3Ahas_function.%0A%20%20%20%20%20%20%20%3Fres%20owl%3AsomeValuesFrom%20%3Fres2.%0A%20%20%20%20%20%20%20%3Fres2%20owl%3AonProperty%20ro%3Arealized_as.%0A%20%20%20%20%20%20%20%3Fres2%20owl%3AsomeValuesFrom%20%3Fprocess.%0A%20%20%20graph%20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Fhcls%2F20070416%2Fclassrelations%3E%0A%20%20%20%20%20%7B%7B%3Fprocess%20%3Chttp%3A%2F%2Fpurl.org%2Fobo%2Fowl%2Fobo%23part_of%3E%20go%3AGO_0007166%7D%0A%20%20%20%20%20%20%20union%0A%20%20%20%20%20%20%7B%3Fprocess%20rdfs%3AsubClassOf%20go%3AGO_0007166%20%7D%7D%0A%20%20%20%20%20%20%20%3Fprotein%20rdfs%3AsubClassOf%20%3Fparent.%0A%20%20%20%20%20%20%20%3Fparent%20owl%3AequivalentClass%20%3Fres3.%0A%20%20%20%20%20%20%20%3Fres3%20owl%3AhasValue%20%3Fgene.%0A%20%20%20%20%20%20%7D%0A%20%20%20graph%20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Fhcls%2Fgene%3E%0A%20%20%20%20%20%7B%20%3Fgene%20rdfs%3Alabel%20%3Fgenename%20%7D%0A%20%20%20graph%20%3Chttp%3A%2F%2Fpurl.org%2Fcommons%2Fhcls%2F20070416%3E%0A%20%20%20%20%20%7B%20%3Fprocess%20rdfs%3Alabel%20%3Fprocessname%7D%0A%7D&format=&maxrows=50

turn ugly query code into a link

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

what’s in a name?

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

integrationannotationfederation

Friday, October 23, 2009

Friday, October 23, 2009

coffeecafe

kopicafezinho

koffee

espresso

latte

mocha americano

Friday, October 23, 2009

“coffee”

“cafe”

“kopi”

http://ontology.foo.org/1234567

converge on common names.

Friday, October 23, 2009

Shakespeare: not a semantics guy.

Friday, October 23, 2009

Friday, October 23, 2009

integrationannotationfederation

Friday, October 23, 2009

Friday, October 23, 2009

translation from people, who tell stories, to the web of data and search engines

Friday, October 23, 2009

4. lots of legal resistance in the wire.

Friday, October 23, 2009

©in relation to data...

Friday, October 23, 2009

category errors

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

what can you do?

1. lead the way (again).2. solve locally, share globally.

3. fund the library as infrastructure.

Friday, October 23, 2009

Friday, October 23, 2009

incrementalism in information is powerful.

but it can always be disrupted.

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

Friday, October 23, 2009

“i propose the seeming paradox that in science, private property is established by

having its substance freely given to others…”

Merton

Friday, October 23, 2009

thank you

john d. and catherine t. macarthur foundationewing marion kauffman foundationchdi foundationomidyar networknike, inc.best buy, inc.yahoo!, inc.mountain equipment corporationsergey brin and anne wojcicki

Friday, October 23, 2009

22 october 2009

Friday, October 23, 2009