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Welcome
Intro	
  Beyond	
  the	
  PDF:
– Annota2on	
  –	
  Ed	
  Hovy
– Data	
  –	
  Gully	
  Burns
– Provenance	
  –	
  Paul	
  Groth
– New	
  Models	
  –	
  Anita	
  de	
  Waard:	
  these	
  slides
– Wri2ng	
  –	
  Phil	
  Bourne	
  
– Reviewing	
  and	
  Impact	
  –	
  Cameron	
  Neylon
New	
  Models




                 Anita	
  de	
  Waard	
  
         Elsevier	
  Labs/UUtrecht
hFp://elsatglabs.com/labs/anita	
  
‘New’	
  Models




‘Plus	
  ça	
  change,	
  plus	
  c'est	
  la	
  même	
  chose?”
‘New’	
  Models
• New	
  in	
  1991:	
  ArXiV,	
  in	
  ‘93:
  Mosaic:	
  “Oh,	
  sh*&t!”
  “We’d	
  beFer	
  come	
  up	
  with	
  
  something	
  new!”




                          ‘Plus	
  ça	
  change,	
  plus	
  c'est	
  la	
  même	
  chose?”
‘New’	
  Models
• New	
  in	
  1991:	
  ArXiV,	
  in	
  ‘93:
  Mosaic:	
  “Oh,	
  sh*&t!”
  “We’d	
  beFer	
  come	
  up	
  with	
  
  something	
  new!”




                          ‘Plus	
  ça	
  change,	
  plus	
  c'est	
  la	
  même	
  chose?”
‘New’	
  Models
• New	
  in	
  1991:	
  ArXiV,	
  in	
  ‘93:
  Mosaic:	
  “Oh,	
  sh*&t!”
  “We’d	
  beFer	
  come	
  up	
  with	
  
  something	
  new!”




                          ‘Plus	
  ça	
  change,	
  plus	
  c'est	
  la	
  même	
  chose?”
‘New’	
  Models
• New	
  in	
  1991:	
  ArXiV,	
  in	
  ‘93:
  Mosaic:	
  “Oh,	
  sh*&t!”
  “We’d	
  beFer	
  come	
  up	
  with	
  
  something	
  new!”
• 2001:	
  ‘Change	
  and	
  con2nuity	
  
  in	
  Science	
  Communica2on’:
  “So	
  everything’s	
  “online”	
  now,	
  
  but	
  how	
  is	
  the	
  ar2cle	
  really	
  changing?”



                         ‘Plus	
  ça	
  change,	
  plus	
  c'est	
  la	
  même	
  chose?”
‘New’	
  Models
• New	
  in	
  1991:	
  ArXiV,	
  in	
  ‘93:
  Mosaic:	
  “Oh,	
  sh*&t!”
  “We’d	
  beFer	
  come	
  up	
  with	
  
  something	
  new!”
• 2001:	
  ‘Change	
  and	
  con2nuity	
  
  in	
  Science	
  Communica2on’:
  “So	
  everything’s	
  “online”	
  now,	
  
  but	
  how	
  is	
  the	
  ar2cle	
  really	
  changing?”
• 2011:	
  Beyond	
  the	
  PDF,	
  but	
  also:	
  Beyond
  Word,	
  Beyond	
  Databases,	
  Beyond	
  Google?	
  
                       ‘Plus	
  ça	
  change,	
  plus	
  c'est	
  la	
  même	
  chose?”
New	
  Models	
  –	
  Then	
  And	
  Now
Issue                   1991                            2001                                    2011

Ar+cle	
  Format        Modular	
  papers?              Seman4c	
  papers?                      Modular/seman4c?	
  W3C	
  
                                                                                                ORB;	
  	
  Nanopubs
Business	
  Models Everything	
  will	
  be	
  free? Author-­‐pays	
  model,	
  for	
   Author-­‐pays	
  model,	
  for	
  
                                                     some	
  journals                   some	
  journals
Research	
  Data	
      Almost	
  solved	
  in	
        Solved	
  in	
  astronomy               Solved	
  in	
  astronomy!
                        astronomy                                                               Data-­‐driven	
  papers?
Databases               Curators	
  need	
  help        Curators	
  need	
  help                Curators	
  need	
  more	
  help
Authoring	
  tools      Need	
  something	
             Need	
  something	
  besides	
   Need	
  something	
  besides	
  
                        besides	
  Word	
  +	
  WP      Word                             Word!
Annota+on	
  tools Coming	
  soon                       Coming	
  soon                          Errr…	
  PDF?
Reviewing	
  tools      Open	
  Peer	
  review	
        Open	
  Peer	
  review	
                Errr…	
  let’s	
  use	
  a	
  	
  Wiki?
                        coming	
  up                    experiments	
  galore
Search                  Personal	
  search	
            Seman4c	
  Desktop                      Errr…	
  Google?
                        environment
Interac+ve	
  Math LaTeX                                MathML	
  –	
  just	
  needs	
  to	
   MathML	
  –	
  just	
  needs	
  to	
  be	
  
                                                        be	
  implemented                      implemented…
Chemistry               Almost	
  solved	
  (PMR)       Solved	
  (PMR)                         S4ll	
  solved!
New	
  Models	
  –	
  Then	
  And	
  Now
Issue                   1991                            2001                                    2011

Ar+cle	
  Format        Modular	
  papers?              Seman4c	
  papers?                      Modular/seman4c?	
  W3C	
  
                                                                                                ORB;	
  	
  Nanopubs
Business	
  Models Everything	
  will	
  be	
  free? Author-­‐pays	
  model,	
  for	
   Author-­‐pays	
  model,	
  for	
  
                                                     some	
  journals                   some	
  journals
Research	
  Data	
      Almost	
  solved	
  in	
        Solved	
  in	
  astronomy               Solved	
  in	
  astronomy!
                        astronomy                                                               Data-­‐driven	
  papers?
Databases               Curators	
  need	
  help        Curators	
  need	
  help                Curators	
  need	
  more	
  help
Authoring	
  tools      Need	
  something	
             Need	
  something	
  besides	
   Need	
  something	
  besides	
  
                        besides	
  Word	
  +	
  WP      Word                             Word!
Annota+on	
  tools Coming	
  soon                       Coming	
  soon                          Errr…	
  PDF?
Reviewing	
  tools      Open	
  Peer	
  review	
        Open	
  Peer	
  review	
                Errr…	
  let’s	
  use	
  a	
  	
  Wiki?
                        coming	
  up                    experiments	
  galore
Search                  Personal	
  search	
            Seman4c	
  Desktop                      Errr…	
  Google?
                        environment
Interac+ve	
  Math LaTeX                                MathML	
  –	
  just	
  needs	
  to	
   MathML	
  –	
  just	
  needs	
  to	
  be	
  
                                                        be	
  implemented                      implemented…
Chemistry               Almost	
  solved	
  (PMR)       Solved	
  (PMR)                         S4ll	
  solved!
New	
  Models	
  –	
  Then	
  And	
  Now
Issue                   1991                            2001                                    2011

Ar+cle	
  Format        Modular	
  papers?              Seman4c	
  papers?                      Modular/seman4c?	
  W3C	
  
                                                                                                ORB;	
  	
  Nanopubs
Business	
  Models Everything	
  will	
  be	
  free? Author-­‐pays	
  model,	
  for	
   Author-­‐pays	
  model,	
  for	
  
                                                     some	
  journals                   some	
  journals
Research	
  Data	
      Almost	
  solved	
  in	
        Solved	
  in	
  astronomy               Solved	
  in	
  astronomy!
                        astronomy                                                               Data-­‐driven	
  papers?
Databases               Curators	
  need	
  help        Curators	
  need	
  help                Curators	
  need	
  more	
  help
Authoring	
  tools      Need	
  something	
             Need	
  something	
  besides	
   Need	
  something	
  besides	
  
                        besides	
  Word	
  +	
  WP      Word                             Word!
Annota+on	
  tools Coming	
  soon                       Coming	
  soon                          Errr…	
  PDF?
Reviewing	
  tools      Open	
  Peer	
  review	
        Open	
  Peer	
  review	
                Errr…	
  let’s	
  use	
  a	
  	
  Wiki?
                        coming	
  up                    experiments	
  galore
Search                  Personal	
  search	
            Seman4c	
  Desktop                      Errr…	
  Google?
                        environment
Interac+ve	
  Math LaTeX                                MathML	
  –	
  just	
  needs	
  to	
   MathML	
  –	
  just	
  needs	
  to	
  be	
  
                                                        be	
  implemented                      implemented…
Chemistry               Almost	
  solved	
  (PMR)       Solved	
  (PMR)                         S4ll	
  solved!
New	
  Models	
  At	
  BtPDF
New	
  Models	
  At	
  BtPDF
• Encompasses	
  the	
  workshop!	
  In	
  par2cular:
   – Data-­‐driven	
  papers
   – Improved	
  thoughts	
  about	
  and	
  tools	
  for	
  annota2on
   – Models	
  for	
  structuring	
  data,	
  experiments,	
  
   – Improved	
  visualisa2ons,	
  tool	
  integra2on
   – Interes2ng	
  collabora2ons	
  +	
  new	
  ideas!
New	
  Models	
  At	
  BtPDF
• Encompasses	
  the	
  workshop!	
  In	
  par2cular:
    – Data-­‐driven	
  papers
    – Improved	
  thoughts	
  about	
  and	
  tools	
  for	
  annota2on
    – Models	
  for	
  structuring	
  data,	
  experiments,	
  
    – Improved	
  visualisa2ons,	
  tool	
  integra2on
    – Interes2ng	
  collabora2ons	
  +	
  new	
  ideas!
• But	
  let’s	
  not	
  forget	
  about:
    – Reviewing
    – Authoring
    – Search
New	
  Models:	
  7	
  Considera2ons
New	
  Models:	
  7	
  Considera2ons
1. Main	
  ques4on:	
  ‘How	
  will	
  this	
  improve	
  science?’
New	
  Models:	
  7	
  Considera2ons
1. Main	
  ques4on:	
  ‘How	
  will	
  this	
  improve	
  science?’
2. Don’t	
  give	
  anything	
  away	
  just	
  yet!	
  (Search,	
  file	
  
    systems,	
  authoring,	
  cita4on)
New	
  Models:	
  7	
  Considera2ons
1. Main	
  ques4on:	
  ‘How	
  will	
  this	
  improve	
  science?’
2. Don’t	
  give	
  anything	
  away	
  just	
  yet!	
  (Search,	
  file	
  
   systems,	
  authoring,	
  cita4on)
3. Why	
  wasn’t	
  it	
  done	
  before?	
  
New	
  Models:	
  7	
  Considera2ons
1. Main	
  ques4on:	
  ‘How	
  will	
  this	
  improve	
  science?’
2. Don’t	
  give	
  anything	
  away	
  just	
  yet!	
  (Search,	
  file	
  
   systems,	
  authoring,	
  cita4on)
3. Why	
  wasn’t	
  it	
  done	
  before?	
  
4. What	
  are	
  major	
  hurdles	
  to	
  prevent	
  this	
  from	
  being	
  
   implemented?	
  
New	
  Models:	
  7	
  Considera2ons
1. Main	
  ques4on:	
  ‘How	
  will	
  this	
  improve	
  science?’
2. Don’t	
  give	
  anything	
  away	
  just	
  yet!	
  (Search,	
  file	
  
   systems,	
  authoring,	
  cita4on)
3. Why	
  wasn’t	
  it	
  done	
  before?	
  
4. What	
  are	
  major	
  hurdles	
  to	
  prevent	
  this	
  from	
  being	
  
   implemented?	
  
5. Who	
  can	
  take	
  away	
  these	
  impediments?
New	
  Models:	
  7	
  Considera2ons
1. Main	
  ques4on:	
  ‘How	
  will	
  this	
  improve	
  science?’
2. Don’t	
  give	
  anything	
  away	
  just	
  yet!	
  (Search,	
  file	
  
     systems,	
  authoring,	
  cita4on)
3.   Why	
  wasn’t	
  it	
  done	
  before?	
  
4.   What	
  are	
  major	
  hurdles	
  to	
  prevent	
  this	
  from	
  being	
  
     implemented?	
  
5.   Who	
  can	
  take	
  away	
  these	
  impediments?
6.   What	
  will	
  mo4vate	
  them	
  to	
  do	
  so?	
  
New	
  Models:	
  7	
  Considera2ons
1. Main	
  ques4on:	
  ‘How	
  will	
  this	
  improve	
  science?’
2. Don’t	
  give	
  anything	
  away	
  just	
  yet!	
  (Search,	
  file	
  
     systems,	
  authoring,	
  cita4on)
3.   Why	
  wasn’t	
  it	
  done	
  before?	
  
4.   What	
  are	
  major	
  hurdles	
  to	
  prevent	
  this	
  from	
  being	
  
     implemented?	
  
5.   Who	
  can	
  take	
  away	
  these	
  impediments?
6.   What	
  will	
  mo4vate	
  them	
  to	
  do	
  so?	
  
7.   When	
  will	
  they	
  do	
  so?	
  

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Beyond the PDF Intro de Waard

  • 2. Intro  Beyond  the  PDF: – Annota2on  –  Ed  Hovy – Data  –  Gully  Burns – Provenance  –  Paul  Groth – New  Models  –  Anita  de  Waard:  these  slides – Wri2ng  –  Phil  Bourne   – Reviewing  and  Impact  –  Cameron  Neylon
  • 3. New  Models Anita  de  Waard   Elsevier  Labs/UUtrecht hFp://elsatglabs.com/labs/anita  
  • 4. ‘New’  Models ‘Plus  ça  change,  plus  c'est  la  même  chose?”
  • 5. ‘New’  Models • New  in  1991:  ArXiV,  in  ‘93: Mosaic:  “Oh,  sh*&t!” “We’d  beFer  come  up  with   something  new!” ‘Plus  ça  change,  plus  c'est  la  même  chose?”
  • 6. ‘New’  Models • New  in  1991:  ArXiV,  in  ‘93: Mosaic:  “Oh,  sh*&t!” “We’d  beFer  come  up  with   something  new!” ‘Plus  ça  change,  plus  c'est  la  même  chose?”
  • 7. ‘New’  Models • New  in  1991:  ArXiV,  in  ‘93: Mosaic:  “Oh,  sh*&t!” “We’d  beFer  come  up  with   something  new!” ‘Plus  ça  change,  plus  c'est  la  même  chose?”
  • 8. ‘New’  Models • New  in  1991:  ArXiV,  in  ‘93: Mosaic:  “Oh,  sh*&t!” “We’d  beFer  come  up  with   something  new!” • 2001:  ‘Change  and  con2nuity   in  Science  Communica2on’: “So  everything’s  “online”  now,   but  how  is  the  ar2cle  really  changing?” ‘Plus  ça  change,  plus  c'est  la  même  chose?”
  • 9. ‘New’  Models • New  in  1991:  ArXiV,  in  ‘93: Mosaic:  “Oh,  sh*&t!” “We’d  beFer  come  up  with   something  new!” • 2001:  ‘Change  and  con2nuity   in  Science  Communica2on’: “So  everything’s  “online”  now,   but  how  is  the  ar2cle  really  changing?” • 2011:  Beyond  the  PDF,  but  also:  Beyond Word,  Beyond  Databases,  Beyond  Google?   ‘Plus  ça  change,  plus  c'est  la  même  chose?”
  • 10. New  Models  –  Then  And  Now Issue 1991 2001 2011 Ar+cle  Format Modular  papers? Seman4c  papers? Modular/seman4c?  W3C   ORB;    Nanopubs Business  Models Everything  will  be  free? Author-­‐pays  model,  for   Author-­‐pays  model,  for   some  journals some  journals Research  Data   Almost  solved  in   Solved  in  astronomy Solved  in  astronomy! astronomy Data-­‐driven  papers? Databases Curators  need  help Curators  need  help Curators  need  more  help Authoring  tools Need  something   Need  something  besides   Need  something  besides   besides  Word  +  WP Word Word! Annota+on  tools Coming  soon Coming  soon Errr…  PDF? Reviewing  tools Open  Peer  review   Open  Peer  review   Errr…  let’s  use  a    Wiki? coming  up experiments  galore Search Personal  search   Seman4c  Desktop Errr…  Google? environment Interac+ve  Math LaTeX MathML  –  just  needs  to   MathML  –  just  needs  to  be   be  implemented implemented… Chemistry Almost  solved  (PMR) Solved  (PMR) S4ll  solved!
  • 11. New  Models  –  Then  And  Now Issue 1991 2001 2011 Ar+cle  Format Modular  papers? Seman4c  papers? Modular/seman4c?  W3C   ORB;    Nanopubs Business  Models Everything  will  be  free? Author-­‐pays  model,  for   Author-­‐pays  model,  for   some  journals some  journals Research  Data   Almost  solved  in   Solved  in  astronomy Solved  in  astronomy! astronomy Data-­‐driven  papers? Databases Curators  need  help Curators  need  help Curators  need  more  help Authoring  tools Need  something   Need  something  besides   Need  something  besides   besides  Word  +  WP Word Word! Annota+on  tools Coming  soon Coming  soon Errr…  PDF? Reviewing  tools Open  Peer  review   Open  Peer  review   Errr…  let’s  use  a    Wiki? coming  up experiments  galore Search Personal  search   Seman4c  Desktop Errr…  Google? environment Interac+ve  Math LaTeX MathML  –  just  needs  to   MathML  –  just  needs  to  be   be  implemented implemented… Chemistry Almost  solved  (PMR) Solved  (PMR) S4ll  solved!
  • 12. New  Models  –  Then  And  Now Issue 1991 2001 2011 Ar+cle  Format Modular  papers? Seman4c  papers? Modular/seman4c?  W3C   ORB;    Nanopubs Business  Models Everything  will  be  free? Author-­‐pays  model,  for   Author-­‐pays  model,  for   some  journals some  journals Research  Data   Almost  solved  in   Solved  in  astronomy Solved  in  astronomy! astronomy Data-­‐driven  papers? Databases Curators  need  help Curators  need  help Curators  need  more  help Authoring  tools Need  something   Need  something  besides   Need  something  besides   besides  Word  +  WP Word Word! Annota+on  tools Coming  soon Coming  soon Errr…  PDF? Reviewing  tools Open  Peer  review   Open  Peer  review   Errr…  let’s  use  a    Wiki? coming  up experiments  galore Search Personal  search   Seman4c  Desktop Errr…  Google? environment Interac+ve  Math LaTeX MathML  –  just  needs  to   MathML  –  just  needs  to  be   be  implemented implemented… Chemistry Almost  solved  (PMR) Solved  (PMR) S4ll  solved!
  • 13. New  Models  At  BtPDF
  • 14. New  Models  At  BtPDF • Encompasses  the  workshop!  In  par2cular: – Data-­‐driven  papers – Improved  thoughts  about  and  tools  for  annota2on – Models  for  structuring  data,  experiments,   – Improved  visualisa2ons,  tool  integra2on – Interes2ng  collabora2ons  +  new  ideas!
  • 15. New  Models  At  BtPDF • Encompasses  the  workshop!  In  par2cular: – Data-­‐driven  papers – Improved  thoughts  about  and  tools  for  annota2on – Models  for  structuring  data,  experiments,   – Improved  visualisa2ons,  tool  integra2on – Interes2ng  collabora2ons  +  new  ideas! • But  let’s  not  forget  about: – Reviewing – Authoring – Search
  • 16. New  Models:  7  Considera2ons
  • 17. New  Models:  7  Considera2ons 1. Main  ques4on:  ‘How  will  this  improve  science?’
  • 18. New  Models:  7  Considera2ons 1. Main  ques4on:  ‘How  will  this  improve  science?’ 2. Don’t  give  anything  away  just  yet!  (Search,  file   systems,  authoring,  cita4on)
  • 19. New  Models:  7  Considera2ons 1. Main  ques4on:  ‘How  will  this  improve  science?’ 2. Don’t  give  anything  away  just  yet!  (Search,  file   systems,  authoring,  cita4on) 3. Why  wasn’t  it  done  before?  
  • 20. New  Models:  7  Considera2ons 1. Main  ques4on:  ‘How  will  this  improve  science?’ 2. Don’t  give  anything  away  just  yet!  (Search,  file   systems,  authoring,  cita4on) 3. Why  wasn’t  it  done  before?   4. What  are  major  hurdles  to  prevent  this  from  being   implemented?  
  • 21. New  Models:  7  Considera2ons 1. Main  ques4on:  ‘How  will  this  improve  science?’ 2. Don’t  give  anything  away  just  yet!  (Search,  file   systems,  authoring,  cita4on) 3. Why  wasn’t  it  done  before?   4. What  are  major  hurdles  to  prevent  this  from  being   implemented?   5. Who  can  take  away  these  impediments?
  • 22. New  Models:  7  Considera2ons 1. Main  ques4on:  ‘How  will  this  improve  science?’ 2. Don’t  give  anything  away  just  yet!  (Search,  file   systems,  authoring,  cita4on) 3. Why  wasn’t  it  done  before?   4. What  are  major  hurdles  to  prevent  this  from  being   implemented?   5. Who  can  take  away  these  impediments? 6. What  will  mo4vate  them  to  do  so?  
  • 23. New  Models:  7  Considera2ons 1. Main  ques4on:  ‘How  will  this  improve  science?’ 2. Don’t  give  anything  away  just  yet!  (Search,  file   systems,  authoring,  cita4on) 3. Why  wasn’t  it  done  before?   4. What  are  major  hurdles  to  prevent  this  from  being   implemented?   5. Who  can  take  away  these  impediments? 6. What  will  mo4vate  them  to  do  so?   7. When  will  they  do  so?