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Helping Haiti - a semantic
  web approach to crisis
information management
 a different translational informatics project
...
Questions of interest
                Has anyone done any expression
                studies using congenic rats?
        ...
Data hidden in plain sight
GEO + GMiner + OBA
GEO + GMiner + OBA
GEO Records


               Create Annotation
               Jobs & Queue Up

                        ...
Browse/Review Results
Browse/Review Results
Browse/Review Results
http://chicagofree.info/2010/01/public-service-haiti-pictures-via-twitter/
http://www.nytimes.com/interactive/2010/01/18/world/americas/0118-haiti-assess-maps.html
URGENT Christopher Frecynet is still alive under
his house. 64 Rue Nord Alexis.(RUELLE NAZON,
AVENUE POUPELARD
Mirna Nazaire lives in P-A-P at Bizoton 6#12.
Entire neighborhood without food. People are
dying.
French hospital is now open and ready to receive
the wounded at the french lycee in rue
marcadieux bourdon
Questions of interest
 Which hospitals are open?
          Who is in trouble
Does anyone have any tents?
       Where are ...
Who needs this info?
• Aid Agencies, Non-Governmental Organizations
   Red Cross, UN, etc.
• Military & other relief suppl...
Structured data in biology
http://epic.cs.colorado.edu/helping_haiti_tweak_the_twe.html
Main Hashtags
Data Tags
Keywords
Mirna Nazaire lives in P-A-P at Bizoton 6#12.
Entire neighborhood without food. People are
dying.



#haiti #need food #na...
French hospital is now open and ready to receive
the wounded at the french lycee in rue
marcadieux bourdon



#haiti #offe...
GMiner Ontologies
OWL Ontologies

 Classes - categories of things you care
 about


 Properties - attributes of the things
 you care about
‘Triples’ of data
  c1         p2       “Value”

subject   predicate   object
‘Triples’ of data
  c1            p2        “Value”

subject      predicate    object


simont     hasHairColor   brown
si...
TtT Classes
TtT Properties
TtT Properties
TtT Properties
Inference
trapped

           domain

          has_trapped
Inference
trapped                 The ontology asserts
                        that any thing that has
           domain  ...
Inference
trapped                    The ontology asserts
                           that any thing that has
           do...
Inference
trapped                     The ontology asserts
                            that any thing that has
           ...
Inference
trapped                     The ontology asserts
                            that any thing that has
           ...
tweetneed.org
RDF Graph
maison des anges                            Insulin

                                 has need
          has con...
RDF Graph
7953197721
                                           Delmas

              twitter id
                         ...
7953197721
                                                                                                        Delmas
...
7953197721
                                                                                         Delmas

              ...
Duplication
              1.21pm
Duplication
              1.21pm




                   31x




              9.29pm
Using MD5 Hashes

         simon twigger


f6f12de7192d1a5d903c016ecb5b3a0c
Using MD5 Hashes

          simon twigger


f6f12de7192d1a5d903c016ecb5b3a0c

          haiti loc info


26e7c844f0c80a886...
Using MD5 Hashes

          simon twigger


f6f12de7192d1a5d903c016ecb5b3a0c

          haiti loc info


26e7c844f0c80a886...
Using MD5 Hashes
          rt @baybe_doll: #haiti #need help #name mr. bernard jean
          louis #loc lumiere evangelic...
Who is using tweet data?



  http://haiti.ushahidi.com
                                 http://haiti.sahanafoundation.org...
How to integrate?
How to integrate?
                               Topi
                                                    Topi
           ...
How to integrate?
                               Topi
                                                                    ...
How to integrate?
                               Topi
                                                                    ...
Timeline of incident reports at haiti.ushahidi.com
       January 12th - February 4th 2010
Timeline of incident reports at haiti.ushahidi.com
       January 12th - February 4th 2010
Crisis Commons
Helping Haiti - a semantic web approach to crisis information management
Helping Haiti - a semantic web approach to crisis information management
Helping Haiti - a semantic web approach to crisis information management
Helping Haiti - a semantic web approach to crisis information management
Helping Haiti - a semantic web approach to crisis information management
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Helping Haiti - a semantic web approach to crisis information management

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Slides & Notes (which can be shown below slides) from a recent presentation I gave outlining some ideas on how we could utilize some of the tools and approaches being developed in bio/clinical informatics to assist in data analysis and integration in crises such as the Haiti earthquake. This is a 'straw man', I can see reasons for and against this approach so I thought I'd throw it out for comment in the hope that others can help me refine it to the point where it could be useful.

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Helping Haiti - a semantic web approach to crisis information management

  1. 1. Helping Haiti - a semantic web approach to crisis information management a different translational informatics project Simon Twigger, Ph.D.
  2. 2. Questions of interest Has anyone done any expression studies using congenic rats? What tissue is this gene expressed in? What expression data is Are any of these genes known for SD (aka SD/NHsd, Harlan Sprague Dawley, associated with my Sprague Dawley) rats? phenotype? Has this gene been seen in the brain? What rat expression studies have been done on Mammary Cancer(aka breast neoplasms/breast cancer/cancer of the breast, breast carcinoma...)?
  3. 3. Data hidden in plain sight
  4. 4. GEO + GMiner + OBA
  5. 5. GEO + GMiner + OBA GEO Records Create Annotation Jobs & Queue Up Q-Out 1..n Annot. Workers RabbitMQ Index text at OBA Parse Q-In Results Results saved to Put results in to GMiner database queue for save
  6. 6. Browse/Review Results
  7. 7. Browse/Review Results
  8. 8. Browse/Review Results
  9. 9. http://chicagofree.info/2010/01/public-service-haiti-pictures-via-twitter/
  10. 10. http://www.nytimes.com/interactive/2010/01/18/world/americas/0118-haiti-assess-maps.html
  11. 11. URGENT Christopher Frecynet is still alive under his house. 64 Rue Nord Alexis.(RUELLE NAZON, AVENUE POUPELARD
  12. 12. Mirna Nazaire lives in P-A-P at Bizoton 6#12. Entire neighborhood without food. People are dying.
  13. 13. French hospital is now open and ready to receive the wounded at the french lycee in rue marcadieux bourdon
  14. 14. Questions of interest Which hospitals are open? Who is in trouble Does anyone have any tents? Where are the open roads? Any information on Person ABC? What help is needed?
  15. 15. Who needs this info? • Aid Agencies, Non-Governmental Organizations Red Cross, UN, etc. • Military & other relief suppliers • Individuals in Haiti • Donors - matching needs to offers • etc.
  16. 16. Structured data in biology
  17. 17. http://epic.cs.colorado.edu/helping_haiti_tweak_the_twe.html
  18. 18. Main Hashtags
  19. 19. Data Tags
  20. 20. Keywords
  21. 21. Mirna Nazaire lives in P-A-P at Bizoton 6#12. Entire neighborhood without food. People are dying. #haiti #need food #name Mirna Nazaire lives in #loc PAP at Bizoton 6 #12 #info neighborhood w/o food. People dying
  22. 22. French hospital is now open and ready to receive the wounded at the french lycee in rue marcadieux bourdon #haiti #offering hospital rooms #loc french lycee in rue marcadieux bourdon #num 30+ #info French hospital is open and ready 2 receive
  23. 23. GMiner Ontologies
  24. 24. OWL Ontologies Classes - categories of things you care about Properties - attributes of the things you care about
  25. 25. ‘Triples’ of data c1 p2 “Value” subject predicate object
  26. 26. ‘Triples’ of data c1 p2 “Value” subject predicate object simont hasHairColor brown simont inOfficeNumber H8808 simont hasPhoneNumber 456-1234
  27. 27. TtT Classes
  28. 28. TtT Properties
  29. 29. TtT Properties
  30. 30. TtT Properties
  31. 31. Inference trapped domain has_trapped
  32. 32. Inference trapped The ontology asserts that any thing that has domain a ‘has_trapped’ property is a member has_trapped of the ‘Trapped’class
  33. 33. Inference trapped The ontology asserts that any thing that has domain a ‘has_trapped’ property is a member has_trapped of the ‘Trapped’class Tweet:123 #haiti #trapped 5 people #loc Pap
  34. 34. Inference trapped The ontology asserts that any thing that has domain a ‘has_trapped’ property is a member has_trapped of the ‘Trapped’class Tweet 123 “5 people” Tweet:123 #haiti #trapped 5 people #loc Pap
  35. 35. Inference trapped The ontology asserts that any thing that has domain a ‘has_trapped’ property is a member has_trapped of the ‘Trapped’class Tweet 123 “5 people” Tweet:123 #haiti #trapped 5 people #loc Pap
  36. 36. tweetneed.org
  37. 37. RDF Graph maison des anges Insulin has need has contact tweet:8550350793 has location twitter id 18.588724,-72.275065 8550350793 has longitude has latitude 18.588724 -72.275065
  38. 38. RDF Graph 7953197721 Delmas twitter id has location tweet:7953197721 has need has need Insulin medication
  39. 39. 7953197721 Delmas twitter id has location tweet:7953197721 has need has need Insulin medication maison des anges Insulin has need has contact tweet:8550350793 has location twitter id 18.588724,-72.275065 8550350793 has longitude has latitude 18.588724 -72.275065
  40. 40. 7953197721 Delmas twitter id has location tweet:7953197721 has need has need maison des anges Insulin Insulin medication has need has contact tweet:8550350793 has location twitter id 18.588724,-72.275065 8550350793 has longitude has latitude 18.588724 -72.275065
  41. 41. Duplication 1.21pm
  42. 42. Duplication 1.21pm 31x 9.29pm
  43. 43. Using MD5 Hashes simon twigger f6f12de7192d1a5d903c016ecb5b3a0c
  44. 44. Using MD5 Hashes simon twigger f6f12de7192d1a5d903c016ecb5b3a0c haiti loc info 26e7c844f0c80a8860d6835591117639
  45. 45. Using MD5 Hashes simon twigger f6f12de7192d1a5d903c016ecb5b3a0c haiti loc info 26e7c844f0c80a8860d6835591117639
  46. 46. Using MD5 Hashes rt @baybe_doll: #haiti #need help #name mr. bernard jean louis #loc lumiere evangelical chapel at rue midway 22 in carrefour #contact phone # 3778-2506 3d609759195d03a059baca1e063be4eb [3] contact haiti loc name need b767eeb9c16e74bfb22ee6ec0998a670 [13] help bernard jean louis lumiere evangelical chapel rue midway carrefour ... d4dc5272669dee93721b4c005307cfc7 [4]
  47. 47. Who is using tweet data? http://haiti.ushahidi.com http://haiti.sahanafoundation.org/ http://swift.ushahidi.com/ http://haiti.managingnews.com/
  48. 48. How to integrate?
  49. 49. How to integrate? Topi Topi c Topi c c Topi c Topi c Topi c Topi c Topi c Topi c Topi c
  50. 50. How to integrate? Topi Topi c Topi c c Topi c Topi c Top c i Topi Top c c Topi i c Topi Topi c Top c c i Topi Topi c c To Topi p c i Topi c To p c c i Topi Topi c c
  51. 51. How to integrate? Topi Topi c Topi c c Topi c Topi c Top c i Topi Top c c Topi i c Topi Topi c Top c c i Topi Topi c c To Topi p c i Topi c To p c c i Topi c Topi Topi c c
  52. 52. Timeline of incident reports at haiti.ushahidi.com January 12th - February 4th 2010
  53. 53. Timeline of incident reports at haiti.ushahidi.com January 12th - February 4th 2010
  54. 54. Crisis Commons

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