I need to publish more and read less Cameron Neylon - Munin Conference Tromsø - 22 November 2011 Wednesday, 14 December 11
May 09, 2015
I need to publish more and read less
Cameron Neylon - Munin ConferenceTromsø - 22 November 2011
Wednesday, 14 December 11
http://www.flickr.com/photos/cappellmeister/39508741 CC-BY
technologies...
Wednesday, 14 December 11
conceptual changes...
http://www.flickr.com/photos/ivanwalsh/4509575889 CC-BYWednesday, 14 December 11
...central principle.
http://www.flickr.com/photos/mkumm/2709555496 CC-BY
Wednesday, 14 December 11
But first.
Wednesday, 14 December 11
Helen BermanLorie LeJeune
Iain Emsley
Neil Saunders
Brian Kelly
Harry Collins
Michael Nielsen
Jen Dodd
Greg Wilson
Timo Hannay
Maxine Clarke
Jenny RohnRicardo Vidal Paulo Nuin
Jenny HalePeter Murray-Rust
Deepak Singh
Jon Udell
Tim O’Reilly
David Crotty
Rafael Sidi
Richard Akerman
Jean-Claude Bradley
Mike Ellis
Liz Lyons
Andy Powell
Gavin Baker Peter Suber
Victor Henning
Sabine HossenfelderFlickr
Steve Wilson
Andrew Milsted
Frank Norman
Dave de RoureJeremy Frey
John Cumbers
Bill Flanagan
ISIS LSS Group
Lakshmi Shastry
Catherine Jones
ISIS Computing GroupSTFC
Plausible AccuracyJohn
Dupuis
Chad Orzel
Ken Shankland
Martyn Bull
Jonathan Gray
Rufus Pollock
Clay Shirky
Kevin Kelly
Gavin Bell
Shirley Wu
Euan Adie
Richard Curry Ian Mulvany
Jamie McQuay
Atilla Csordas
Pawel Szcsesny Gabriel Cavalli
Matt Wood
TIM HUBBARD
DUNCAN HULL
Richard Grant Branwen Hide
PLoS
Friendfeed
Bora Zivkovic
Peter Binfield
John Wilbanks
Kaitlin ThaneyThe BioGang
Tony WilliamsEgon Willighagen
Martin FennerYaroslav Nikolaev
Jon EisenMichael Eisen
Richard Akerman
Jeremiah FaithMichael Barton
Lee Smolin
Garret Lisi
Victoria Stodden
Simon ColesTony Hey
Noel Gorelick
Jon Tansley
Benjamin Good Dorothea Salo
Paul Walk
Mitch Waldrop
Björn Brembs
Rich Apodaca
Bill Hooker
Pedro Beltrao
Mat Todd
SciFoo 2008/9
campers
Stephen Brenner
Brian Matthews
Allyson Lister
Phil Lord
Steve Koch
Koch Lab
Carole Goble
Stephen FriendEva Amsen
JOHN WILLINSKY
TIM HUBBARDTIM HUBBARDTIM HUBBARD
Steph Hannon
Rebecca Goulding
Leigh Dodds
Paul Miller
Mark BorkumDan Hagon
Jim Downing
Nico Adams
@gnatFabiana Kubke
Hope LemanLisa Green
Ariel Waldmann
@tGrace Baynes
Simon Philips
Matt Johnson
Lee Dirks
Microsoft
NPG Ben Goldacre
Arfon Smith
Nicholas Cole
Chris Leonard
PIERRE LINDENBAUM
ALAN CANN
Jo Badge
Mummi Thorissson
Andrew Kasarskis
Glyn Moody
@communicating
PT Sefton
Andrew Farke
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Who am I?
Wednesday, 14 December 11
http://www.flickr.com/photos/andypowe11/3915450391
I live in Bath
Wednesday, 14 December 11
I work at RAL
Wednesday, 14 December 11
Wikimedia Commons Succinate_Dehydrogenase_1YQ3_and_Membrane.png
Wikimedia CommonsMGMT BDNA_1T38.png
I work on...
Wednesday, 14 December 11
I work on...
Wednesday, 14 December 11
I work on...
Wednesday, 14 December 11
http://www.flickr.com/photos/59937401@N07/5929622407 CC-BY
I write grants...
Wednesday, 14 December 11
http://flickr.com/photos/nicmcphee/2756494307/ CC-BY
...and papers...
Wednesday, 14 December 11
Wednesday, 14 December 11
Slideshare - http://slideshare.net/CameronNeylon/presentations
39 Presentations~100,000 views
Wednesday, 14 December 11
http://cameronneylon.net
Wednesday, 14 December 11
Papers are not enough...
Wednesday, 14 December 11
...software...
Wednesday, 14 December 11
...data...
Wednesday, 14 December 11
Need to communicate...
Wednesday, 14 December 11
http://www.flickr.com/photos/jurvetson/3184362622 CC-BY
all the pieces...
Wednesday, 14 December 11
Need to maximise “impact”...
http://www.flickr.com/photos/babasteve/3140688308 CC-BYWednesday, 14 December 11
But that’s ok...
Wednesday, 14 December 11
We have new tools...
http://www.flickr.com/photos/kylemay/1430449350 CC-BY
Wednesday, 14 December 11
Many new ways and places to publish...
Wednesday, 14 December 11
So...
Wednesday, 14 December 11
group, and finally attachment to the solid support. In addition theuse of intein based methods as well as the preparation of the solidsupport for Staudinger ligation often require reagents such asphosphines or thiophenols that are toxic and difficult to handle.Therefore there remains a significant need for robust and simple
methodologies for protein immobilization that can be applied towide range of proteins and solid supports. The identification of theSortase transpeptidase [19] provided an alternative approach toprotein ligation. Sortases recognise a specific peptide sequence(LPETG for SrtA of S. aureus used in this work) in proteins targetedfor covalent attachment to the cell wall peptidoglycan. The peptidetag sequence is cleaved and then ligated to the pentaglycine moietyon the peptidoglycan precursor Lipid II. Proteins expressed with theC-terminal recognition sequence can be covalently attached to a widerange of constructs with an N-terminal glycine amidemotif includingpeptides [20], PNA [21], full length proteins [22] and small moleculesubstrates [23]. Another group has independently described anexample of Sortase mediated ligation to a beaded solid support [22].These reactions proceed under aqueous conditions without theaddition of any further reagents beyond the protein, ligationsubstrate, and Sortase. Thus Sortase has the potential to providea means of linking expressed proteins to a wide range of solidsupports which is mild, selective, and can be carried out in a singlestep. Here we investigate the ability of S. aureus SrtA to ligate proteinsto a range of solid supports.
RESULTSPlasmid vectors were constructed for the expression of Bluefluorescent protein (BFP, Q-Biogene), Enhanced Green Fluores-cent Protein (EGFP), a red fluorescent protein (DsRed), and thesequence specific DNA binding protein Tus [24] with a C-terminal LPETGG sequence followed by a hexahistidine tag. Theproteins were expressed in BL21(DE3) and purified beforeattachment to solid supports.Our first target was the immobilization of proteins onto cross-
linked polymer beads. Glycidyl methacrylate (GMA) beads weremodified with a spacer followed by one, two, or four glycineresidues. Mono-glycine, di-glycine, and tetra-glycine beads wereincubated with EGFP-LPETGG-His6 (85 mM) and His6-Sortase A(40 nM) in Sortase buffer (50 mM Tris-HCl, 150 mM NaCl,5 mM CaCl2, pH 7.5). As a control, beads with no glycinecoupled were incubated with Sortase and EGFP-LPETGG-His6,and tetraglycine beads were incubated with EGFP-LPETGG-His6in the absence of Sortase. Samples were taken at various timepoints and beads analysed by FACS (Figure 1) and fluorescencemicroscopy (Figure 2). The labeled beads were clearly visible byfluorescence microscopy while beads from control reactionsshowed no increase in fluorescence. Tetra-glycine beads showedthe most rapid fluorescence increase and the highest finalfluorescence. Di-glycine beads were nearly as effective as tetra-glycine with mono-glycine beads showing slower increase andsignificantly reduced final fluorescence.EGFP and the other fluorescent proteins are extremely robust.
While the fluorescence analysis of the ligation of these proteinsdemonstrates maintenance of function it is therefore of interest todemonstrate that more fragile proteins can be ligated to solidsupports while maintaining function. This is crucial for applica-tions in supported catalysis or bead-based protein arrays. Todemonstrate that ligated protein was functional and accessible toother molecules in solution Tus-LPETGG-His6 was immobilizedon tetraglycine GMA beads. Tus is a sequence specific DNA-binding protein that recognizes 21 bp Ter sites [24]. The Tus-labeled GMA beads were incubated with different proportions offluorescein labeled TerB DNA and a 21 bp Cy5-labeled DNA
sequence unrelated to TerB in binding buffer (50 mM Tris-HCl,250 mM KCl, 0.1 mM EDTA, 0.1 mM DTT, pH 9). The totalDNA concentration (Ter plus nonspecific DNA) was 100 nM forall samples. The fluorescein and Cy5 fluorescence of the beads wasdetermined by FACS analysis. Non-specific DNA binding wasvery low in all cases, consistent with the low affinity of Tus for non-specific DNA in 250 mM KCl [25]. Ter binding showeda concentration dependence that was consistent with anequilibrium dissociation constant of 2968 nM (Figure 3), whichcompares well with values of KD measured by fluorescenceanisotropy (,15 nM at 37uC) or Biacore (,1 nM at 25uC) [25].To demonstrate attachment to other solid supports a beaded
agarose affinity support (Affi-Gel 102 resin, Bio-Rad) was modifiedwith oligoglycine by incubating the amino-resin with diglycine(0.5 M) and EDC (2.5 mM) for three hours at 50uC. BFP-, EGFP-,and DsRed-LPETGG-His6 were then ligated to the resinovernight at room temperature. After washing the resin columnscould be seen to be clearly labeled with fluorescent protein(Figure 4a,b) whereas a control (EGFP without Sortase) showed nofluorescence. The labeled Affi-Gel beads were clearly visible byfluorescence microscopy (Figure 2).
Figure 1. Ligation of fluorescent proteins to polymer beads. (a) GMAbeads modified with one, two, or four glycine residues were incubatedwith EGFP-LPETGG-His6 and Sortase. Samples were taken at specifictime points and analyzed on a BD FACSAria. Controls contained beadswith no glycine or diglycine beads without Sortase. Error bars showingthe standard error in the mean fluorescence are omitted as they aregenerally smaller than the data symbols. Errors are given inSupplementary Data S2.doi:10.1371/journal.pone.0001164.g001
Figure 2. Fluorescence micrographs of labeled solid supports. (a)Diglycine GMA beads and (b) oligoglycine modified Affigel resin wereseparately labeled with EGFP and DsRed and then mixed. Fluorescenceimages were recorded as separate gray scale images (see Supplemen-tary Figure S2) with FITC and Cy3 filter sets and then combined andfalse coloured.doi:10.1371/journal.pone.0001164.g002
Sortase-Mediated Ligation
PLoS ONE | www.plosone.org 2 November 2007 | Issue 11 | e1164
...when we publish...Wednesday, 14 December 11
...publish the data...
Wednesday, 14 December 11
...in the right places...
Wednesday, 14 December 11
...the software...Wednesday, 14 December 11
...and all the rest?Wednesday, 14 December 11
Wednesday, 14 December 11
Flickr tag: UC207
http://usefulchem.wikispaces.com/Exp207
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
http://www.flickr.com/photos/stuartpilbrow/3345896050 CC-BY-SAWednesday, 14 December 11
This is not sustainable...
Wednesday, 14 December 11
“I need to publish more”
Wednesday, 14 December 11
...not work more...
Wednesday, 14 December 11
We have...
http://www.flickr.com/photos/schnurrbart/43568532 CC-BY-SA
Wednesday, 14 December 11
A resource problem...
http://www.flickr.com/photos/mukumbura/4052671706 CC-BY-SAWednesday, 14 December 11
Whether it’s money...
Wednesday, 14 December 11
...or time...
http://www.flickr.com/photos/robbie73/3387189144 CC-BY-SAWednesday, 14 December 11
Technical capacity is not enough
Wednesday, 14 December 11
...either need to resource it
Wednesday, 14 December 11
...or make it cheaper.
Wednesday, 14 December 11
Wednesday, 14 December 11
Publication as a side effect of recording....
Wednesday, 14 December 11
“Publish@Source”Jeremy Frey,Southampton
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
http://usefulchem.wikispaces.com/Exp258Wednesday, 14 December 11
http://www.carlboettiger.info/Wednesday, 14 December 11
http://www.myexperiment.org/workflows/204.htmlWednesday, 14 December 11
Wednesday, 14 December 11
http://www.flickr.com/photos/psychemedia/Wednesday, 14 December 11
Easy to publish pieces...
http://www.flickr.com/photos/horiavarlan/4514164700 CC-BYWednesday, 14 December 11
...and then collect
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
So we capture and collect...
http://www.flickr.com/photos/furtwangl/3851841424
Wednesday, 14 December 11
...then tell the story
Dionaea muscipula Musca domesticachomped on
Wednesday, 14 December 11
http://www.flickr.com/photos/lizadaly/2944376209 CC-BY
...aggregate existing pieces
Wednesday, 14 December 11
http://www.flickr.com/photos/bladeflyer/442496389 CC-BY
...we can open the floodgates...
Wednesday, 14 December 11
...all the way...http://www.flickr.com/photos/fraz5356/4754482759 CC-BYWednesday, 14 December 11
It’ll be great...right?http://www.flickr.com/photos/62337512@N00/3958637561 CC-BY
Wednesday, 14 December 11
group, and finally attachment to the solid support. In addition theuse of intein based methods as well as the preparation of the solidsupport for Staudinger ligation often require reagents such asphosphines or thiophenols that are toxic and difficult to handle.Therefore there remains a significant need for robust and simple
methodologies for protein immobilization that can be applied towide range of proteins and solid supports. The identification of theSortase transpeptidase [19] provided an alternative approach toprotein ligation. Sortases recognise a specific peptide sequence(LPETG for SrtA of S. aureus used in this work) in proteins targetedfor covalent attachment to the cell wall peptidoglycan. The peptidetag sequence is cleaved and then ligated to the pentaglycine moietyon the peptidoglycan precursor Lipid II. Proteins expressed with theC-terminal recognition sequence can be covalently attached to a widerange of constructs with an N-terminal glycine amidemotif includingpeptides [20], PNA [21], full length proteins [22] and small moleculesubstrates [23]. Another group has independently described anexample of Sortase mediated ligation to a beaded solid support [22].These reactions proceed under aqueous conditions without theaddition of any further reagents beyond the protein, ligationsubstrate, and Sortase. Thus Sortase has the potential to providea means of linking expressed proteins to a wide range of solidsupports which is mild, selective, and can be carried out in a singlestep. Here we investigate the ability of S. aureus SrtA to ligate proteinsto a range of solid supports.
Figure 1. Ligation of fluorescent proteins to polymer beads. (a) GMAbeads modified with one, two, or four glycine residues were incubatedwith EGFP-LPETGG-His6 and Sortase. Samples were taken at specifictime points and analyzed on a BD FACSAria. Controls contained beadswith no glycine or diglycine beads without Sortase. Error bars showingthe standard error in the mean fluorescence are omitted as they aregenerally smaller than the data symbols. Errors are given inSupplementary Data S2.doi:10.1371/journal.pone.0001164.g001
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
Flickr tag: UC207
http://usefulchem.wikispaces.com/Exp207
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
All of this information...data....
Wednesday, 14 December 11
Wednesday, 14 December 11
http://www.flickr.com/photos/waltstoneburner/3372746317 CC-BY
Wednesday, 14 December 11
Retractions per 100k papers30
25
20
15
10
5
0
Retr
actio
ns p
er 1
00k
publ
icat
ions
201020001990198019701960Year
Wednesday, 14 December 11
http://www.flickr.com/photos/oakleyoriginals/2879794262 CC-BYWednesday, 14 December 11
watercannon?
http://www.flickr.com/photos/7827294@N04/4621721577 CC-BYWednesday, 14 December 11
Information overload...
http://www.flickr.com/photos/dylanroscover/3450505729 CC-BY-SA
Wednesday, 14 December 11
“I need to read less”
Wednesday, 14 December 11
Filter failure?
http://www.flickr.com/photos/daveyll/332723930Wednesday, 14 December 11
http://www.flickr.com/photos/biscuitsmlp/2247299538 CC-BY
Wednesday, 14 December 11
Filters block.
http://www.flickr.com/photos/emperley3/4705354106 CC-BY-SAWednesday, 14 December 11
http://www.flickr.com/photos/robmcm/1671702203 CC-BY-SA
You think this is a good thing...
Wednesday, 14 December 11
http://www.flickr.com/photos/mrehan00/3700858676 CC-BY-SA
...we’re “protecting our community from a deluge”
Wednesday, 14 December 11
...staying on the straight and narrow...
http://www.flickr.com/photos/quinnanya/4813974125 CC-BYWednesday, 14 December 11
Or are we just limiting our ability to explore...?
http://www.flickr.com/photos/jurvetson/2174000357 CC-BYWednesday, 14 December 11
http://www.flickr.com/photos/joiseyshowaa/2374526016 CC-BY
...and discover...?
Wednesday, 14 December 11
Filters block.
http://www.flickr.com/photos/emperley3/4705354106 CC-BY-SAWednesday, 14 December 11
The right filter for me? Right filter for now?
http://www.flickr.com/photos/lotzman/3595748169 CC-BYWednesday, 14 December 11
Wednesday, 14 December 11
Remember this graph?30
25
20
15
10
5
0
Retr
actio
ns p
er 1
00k
publ
icat
ions
201020001990198019701960Year
Wednesday, 14 December 11
Remember this graph?30
25
20
15
10
5
0
Retr
actio
ns p
er 1
00k
publ
icat
ions
201020001990198019701960Year
Where is the data from?Wednesday, 14 December 11
Remember this graph?30
25
20
15
10
5
0
Retr
actio
ns p
er 1
00k
publ
icat
ions
201020001990198019701960Year
https://github.com/neilfws/PubMed/blob/master/data/retractions.txt
Where is the data from?Wednesday, 14 December 11
Remember this graph?30
25
20
15
10
5
0
Retr
actio
ns p
er 1
00k
publ
icat
ions
201020001990198019701960Year
https://github.com/neilfws/PubMed/blob/master/data/retractions.txt
Where is the data from?Wednesday, 14 December 11
But how did I discover it?
Wednesday, 14 December 11
http://friendfeed.com/gbilder/711e6278/so-how-many-retractions-are-there-every-year
Wednesday, 14 December 11
Wednesday, 14 December 11
http://friendfeed.com/gbilder/711e6278/so-how-many-retractions-are-there-every-year
Wednesday, 14 December 11
http://friendfeed.com/gbilder/711e6278/so-how-many-retractions-are-there-every-year
Wednesday, 14 December 11
Remember these people?
Wednesday, 14 December 11
Helen BermanLorie LeJeune
Iain Emsley
Neil Saunders
Brian Kelly
Harry Collins
Michael Nielsen
Jen Dodd
Greg Wilson
Timo Hannay
Maxine Clarke
Jenny RohnRicardo Vidal Paulo Nuin
Jenny HalePeter Murray-Rust
Deepak Singh
Jon Udell
Tim O’Reilly
David Crotty
Rafael Sidi
Richard Akerman
Jean-Claude Bradley
Mike Ellis
Liz Lyons
Andy Powell
Gavin Baker Peter Suber
Victor Henning
Sabine HossenfelderFlickr
Steve Wilson
Andrew Milsted
Frank Norman
Dave de RoureJeremy Frey
John Cumbers
Bill Flanagan
ISIS LSS Group
Lakshmi Shastry
Catherine Jones
ISIS Computing GroupSTFC
Plausible AccuracyJohn
Dupuis
Chad Orzel
Ken Shankland
Martyn Bull
Jonathan Gray
Rufus Pollock
Clay Shirky
Kevin Kelly
Gavin Bell
Shirley Wu
Euan Adie
Richard Curry Ian Mulvany
Jamie McQuay
Atilla Csordas
Pawel Szcsesny Gabriel Cavalli
Matt Wood
TIM HUBBARD
DUNCAN HULL
Richard Grant Branwen Hide
PLoS
Friendfeed
Bora Zivkovic
Peter Binfield
John Wilbanks
Kaitlin ThaneyThe BioGang
Tony WilliamsEgon Willighagen
Martin FennerYaroslav Nikolaev
Jon EisenMichael Eisen
Richard Akerman
Jeremiah FaithMichael Barton
Lee Smolin
Garret Lisi
Victoria Stodden
Simon ColesTony Hey
Noel Gorelick
Jon Tansley
Benjamin Good Dorothea Salo
Paul Walk
Mitch Waldrop
Björn Brembs
Rich Apodaca
Bill Hooker
Pedro Beltrao
Mat Todd
SciFoo 2008/9
campers
Stephen Brenner
Brian Matthews
Allyson Lister
Phil Lord
Steve Koch
Koch Lab
Carole Goble
Stephen FriendEva Amsen
JOHN WILLINSKY
TIM HUBBARDTIM HUBBARDTIM HUBBARD
Steph Hannon
Rebecca Goulding
Leigh Dodds
Paul Miller
Mark BorkumDan Hagon
Jim Downing
Nico Adams
@gnatFabiana Kubke
Hope LemanLisa Green
Ariel Waldmann
@tGrace Baynes
Simon Philips
Matt Johnson
Lee Dirks
Microsoft
NPG Ben Goldacre
Arfon Smith
Nicholas Cole
Chris Leonard
PIERRE LINDENBAUM
ALAN CANN
Jo Badge
Mummi Thorissson
Andrew Kasarskis
Glyn Moody
@communicating
PT Sefton
Andrew Farke
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Wednesday, 14 December 11
Social aggregation...
Wednesday, 14 December 11
...but also...
Wednesday, 14 December 11
Wednesday, 14 December 11
Social annotation
Wednesday, 14 December 11
...and quality assessment
http://www.flickr.com/photos/pinksherbet/3209939998 CC-BYWednesday, 14 December 11
...but also...
Wednesday, 14 December 11
http://nsaunders.wordpress.com/2010/11/30/analysis-of-retractions-in-pubmed/
Wednesday, 14 December 11
http://nsaunders.wordpress.com/2010/11/30/analysis-of-retractions-in-pubmed/
Wednesday, 14 December 11
A network of linked objects...
Wednesday, 14 December 11
...primed for discovery...
Wednesday, 14 December 11
Wednesday, 14 December 11
It’s not filter failure
http://www.flickr.com/photos/emperley3/4705354106 CC-BY-SAWednesday, 14 December 11
...it’s a discovery deficit...
http://www.flickr.com/photos/nationallibrarynz_commons/4078337883 Public Domain
Wednesday, 14 December 11
http://flickr.com/photos/stewart/461099066/
In the last year...?
Wednesday, 14 December 11
...in the past 24 hours?Wednesday, 14 December 11
Is search the answer?
http://www.flickr.com/photos/ezioman/2096469724 CC-BY
Wednesday, 14 December 11
http://www.flickr.com/photos/mangostrawberry/5490992826 CC-BY
...or something more...?
Wednesday, 14 December 11
Need the right instrument...
http://www.flickr.com/photos/conskeptical/269403030 CC-BY-SAWednesday, 14 December 11
...not every problem is a nailhttp://www.flickr.com/photos/bb_matt/207102083 CC-BYWednesday, 14 December 11
Wednesday, 14 December 11
Blog/Wiki!LIMS!
Data repository!Local file stores!
Online file stores!
RSS
/Ato
m F
eeds!
Upl
oadi
g ob
ject
s!
Map Reduce/!Hadoop!
Workflows!
Wednesday, 14 December 11
http://www.flickr.com/photos/striatic/125614 CC-BY
Some way away yet...
Wednesday, 14 December 11
Wednesday, 14 December 11
http://www.flickr.com/photos/cappellmeister/39508741 CC-BY
technologies...
Wednesday, 14 December 11
PublicationAggregationDiscovery
Wednesday, 14 December 11
PublicationAggregationDiscovery
Wednesday, 14 December 11
PublicationAggregationDiscovery
Wednesday, 14 December 11
PublicationAggregationDiscovery
Wednesday, 14 December 11
conceptual changes...
http://www.flickr.com/photos/ivanwalsh/4509575889 CC-BYWednesday, 14 December 11
Publish pieces...then aggregate
Wednesday, 14 December 11
Don’t filter...enable discovery
Wednesday, 14 December 11
...central principle.
http://www.flickr.com/photos/mkumm/2709555496 CC-BY
Wednesday, 14 December 11
Networks scale
Wednesday, 14 December 11
0
0.25
0.50
0.75
1.00
1982 1986 1990 1994 1998 2002 2006
Average Capacity of Human Researcher
Wednesday, 14 December 11
0
0.75
1.50
2.25
3.00
1982 1986 1990 1994 1998 2002 2006
Average Capacity of Norwegian Researcher
Wednesday, 14 December 11
People don’t scale...
Wednesday, 14 December 11
Neither do computers...
http://www.flickr.com/photos/argonne/3323018571 CC-BY-SA
Wednesday, 14 December 11
...at least not on their own
Wednesday, 14 December 11
Open networks scale
Wednesday, 14 December 11
...closed networks do not.http://www.flickr.com/photos/andypowe11/3759152528Wednesday, 14 December 11
We need...
Wednesday, 14 December 11
http://flickr.com/photos/virtualsugar/316200555/ CC-BYWednesday, 14 December 11
Wednesday, 14 December 11
Open data...
http://www.flickr.com/photos/jwyg/4528443760/ CC-BY-SAWednesday, 14 December 11
...but also...
Wednesday, 14 December 11
...open platforms for innovation
http://www.flickr.com/photos/37984062@N03/3495256118 CC-BY-SAWednesday, 14 December 11
http://www.flickr.com/photos/tomarthur/3593729997
Optimise for....
Wednesday, 14 December 11
....not this
http://www.flickr.com/photos/vrogy/514733529
Wednesday, 14 December 11
Wednesday, 14 December 11
http://www.flickr.com/photos/biscuitsmlp/2247299538 CC-BY-SA
Wednesday, 14 December 11
http://www.flickr.com/photos/tammra/283690669/
Wednesday, 14 December 11
Because every time a permanent job is advertised...
Wednesday, 14 December 11
http://www.flickr.com/photos/t3rmin4t0r/3947963283 CC-BY
Wednesday, 14 December 11
http://www.flickr.com/photos/t3rmin4t0r/3947963283 CC-BY
The one with the most Nature papers
gets to mate...
Wednesday, 14 December 11
We optimise for...
http://www.flickr.com/photos/klausnahr/4437823757 CC-BY-SA
Wednesday, 14 December 11
http://www.flickr.com/photos/frozenchipmunk/197591546 CC-BY
Rather than for use and re-use...
Wednesday, 14 December 11
...because of the incentives...http://www.flickr.com/photos/daquellamanera/3238300837 CC-BYWednesday, 14 December 11
http://www.flickr.com/photos/lifeontheedge/247473398 CC-BY-SAWednesday, 14 December 11
http://www.flickr.com/photos/turtlemom_nancy CC-BY-SA
Wednesday, 14 December 11
We are stuck with “impact”...
http://www.flickr.com/photos/babasteve/3140688308 CC-BYWednesday, 14 December 11
...but we can mould it.
http://www.flickr.com/photos/waltstoneburner/5745387762 CC-BYWednesday, 14 December 11
An assertion.
Wednesday, 14 December 11
We want to see research used.
Wednesday, 14 December 11
In the right places...
http://www.flickr.com/photos/ol1/6048544977 CC-BY-SA
Wednesday, 14 December 11
In the right places...
http://www.flickr.com/photos/velkr0/3472576304 CC-BY
In the right places...
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http://www.flickr.com/photos/argonne/3465398655 CC-BY
In the right places...
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...at the right time.
http://www.flickr.com/photos/robbie73/3387189144 CC-BY-SAWednesday, 14 December 11
We want research to be re-used and re-usable
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Wednesday, 14 December 11
Impact = Re-use
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Application = Re-use
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Commercialised = Re-use
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Education = Re-use
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Engagement = Re-use
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...but also...
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Citation = Re-use
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http://www.flickr.com/photos/sterlic/4299631538 CC-BY-SA
Can we measure re-use?
Wednesday, 14 December 11
Bollen et al., PLoS ONE 4(6): e6022 doi:10.1371/journal.pone.0006022.g002
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The web changes everything...
http://www.flickr.com/photos/jurvetson/916142 CC-BYWednesday, 14 December 11
New tracks to followhttp://www.flickr.com/photos/mikebaird/2985066755 CC-BY
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ScienceCard by Martin Fenner - http://sciencecard.org/CameronNeylon
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Altmetric.com by Euan Adie - http://altmetric.com/interface/explorer.html
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Bookmarks = Re-use
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Discussion = Re-use
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...and we can track them all
http://www.flickr.com/photos/paul_white/5831407787 CC-BY
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...on an open network.
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But what about...?
http://www.flickr.com/photos/11247304@N06/1340979055 CC-BYWednesday, 14 December 11
Maximise potential...
http://www.flickr.com/photos/pinksherbet/3370498053 CC-BY
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...for discovery and re-use...
http://www.flickr.com/photos/pagedooley/3797236989 CC-BYWednesday, 14 December 11
Measure re-use and re-usability...
http://www.flickr.com/photos/18670024@N06/2164790747 CC-BYWednesday, 14 December 11
Optimise for impact
http://www.flickr.com/photos/gsfc/6147894106 CC-BY
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...and the easiest way...
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http://www.flickr.com/photos/virtualsugar/316200555 CC-BYWednesday, 14 December 11
Not the only way.
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...but the easiest and most common
http://www.flickr.com/photos/ehamiter/4607728796 CC-BY-SA
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The solutions won’t come from where we expect...
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Open networks scale
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...enable solutions to discover problems...
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...at all levelshttp://www.flickr.com/photos/37850028@N05/5111113034 CC-BY
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..from the research
http://www.flickr.com/photos/30369883@N03/5097547405 CC-BY
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...to the technology...
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...to the architecture
http://www.flickr.com/photos/yakobusan/2436481628 CC-BYWednesday, 14 December 11
Build open networks...
http://www.flickr.com/photos/22746515@N02/4468871811 CC-BY
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Enable discovery...
http://www.flickr.com/photos/pagedooley/2836337974 CC-BY
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The rest will follow...
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Wednesday, 14 December 11