Text mining
Text mining the PCD literature
PCD validity
Uses and Validity of Primary Care Database studies
May 2013
David ...
Text mining
Text mining the PCD literature
PCD validity
Outline
1 Use of text-mining to explore the scientific literature
M...
Text mining
Text mining the PCD literature
PCD validity
Outline
1 Use of text-mining to explore the scientific literature
2...
Text mining
Text mining the PCD literature
PCD validity
Outline
1 Use of text-mining to explore the scientific literature
2...
Text mining
Text mining the PCD literature
PCD validity
Outline
1 Use of text-mining to explore the scientific literature
2...
Text mining
Text mining the PCD literature
PCD validity
Outline
1 Use of text-mining to explore the scientific literature
2...
Text mining
Text mining the PCD literature
PCD validity
Outline
1 Use of text-mining to explore the scientific literature
2...
Text mining
Text mining the PCD literature
PCD validity
Text mining
May 2013 Uses and Validity of Primary Care Database st...
Text mining
Text mining the PCD literature
PCD validity
What is it?
The process of extracting high-quality structured info...
Text mining
Text mining the PCD literature
PCD validity
What is it?
The process of extracting high-quality structured info...
Text mining
Text mining the PCD literature
PCD validity
What is it?
The process of extracting high-quality structured info...
Text mining
Text mining the PCD literature
PCD validity
What is it?
The process of extracting high-quality structured info...
Text mining
Text mining the PCD literature
PCD validity
What is it?
The process of extracting high-quality structured info...
Text mining
Text mining the PCD literature
PCD validity
What is it?
The process of extracting high-quality structured info...
Text mining
Text mining the PCD literature
PCD validity
Why do we need it?
The scientific literature is rapidly
increasing ...
Text mining
Text mining the PCD literature
PCD validity
Why do we need it?
The scientific literature is rapidly
increasing ...
Text mining
Text mining the PCD literature
PCD validity
Why do we need it?
The scientific literature is rapidly
increasing ...
Text mining
Text mining the PCD literature
PCD validity
Why do we need it?
The scientific literature is rapidly
increasing ...
Text mining
Text mining the PCD literature
PCD validity
Why do we need it?
The scientific literature is rapidly
increasing ...
Text mining
Text mining the PCD literature
PCD validity
Why do we need it?
The scientific literature is rapidly
increasing ...
Text mining
Text mining the PCD literature
PCD validity
Text-mining is not a magic bullet
Many publications are not open
a...
Text mining
Text mining the PCD literature
PCD validity
Text-mining is not a magic bullet
Many publications are not open
a...
Text mining
Text mining the PCD literature
PCD validity
Text mining the PCD literature
May 2013 Uses and Validity of Prima...
Text mining
Text mining the PCD literature
PCD validity
UK Primary Care Databases
GPRD / CPRD
The General Practice Researc...
Text mining
Text mining the PCD literature
PCD validity
The Dataset
All articles reported by CPRD, THIN, QResearch in Pubm...
Text mining
Text mining the PCD literature
PCD validity
The Dataset
All articles reported by CPRD, THIN, QResearch in Pubm...
Text mining
Text mining the PCD literature
PCD validity
The Dataset
All articles reported by CPRD, THIN, QResearch in Pubm...
Text mining
Text mining the PCD literature
PCD validity
The Dataset
All articles reported by CPRD, THIN, QResearch in Pubm...
Text mining
Text mining the PCD literature
PCD validity
The Dataset
All articles reported by CPRD, THIN, QResearch in Pubm...
Text mining
Text mining the PCD literature
PCD validity
PCD studies are a growth area!
Number of publications is rapidly i...
Text mining
Text mining the PCD literature
PCD validity
PCD studies are a growth area!
. . . and there is global interest ...
Text mining
Text mining the PCD literature
PCD validity
Broad scope of topics in PCD studies
A network graph of PCD topics...
Text mining
Text mining the PCD literature
PCD validity
Study types are changing. . .
q q q q q q q
q
q
q q
q
q
q
q q q
q
...
Text mining
Text mining the PCD literature
PCD validity
. . . as are analysis methods
q q q q
q
q q q q
q q q
q
q
q q
q
q
...
Text mining
Text mining the PCD literature
PCD validity
PCD validity
May 2013 Uses and Validity of Primary Care Database s...
Text mining
Text mining the PCD literature
PCD validity
Threats to validity
Unmeasured confounding
May 2013 Uses and Valid...
Text mining
Text mining the PCD literature
PCD validity
Threats to validity
Unmeasured confounding
Correlation does not eq...
Text mining
Text mining the PCD literature
PCD validity
Threats to validity
Unmeasured confounding
Correlation does not eq...
Text mining
Text mining the PCD literature
PCD validity
Threats to validity
Unmeasured confounding
Correlation does not eq...
Text mining
Text mining the PCD literature
PCD validity
Clinical Coding in PCD’s
All clinical events are entered by GP’s a...
Text mining
Text mining the PCD literature
PCD validity
Clinical Coding in PCD’s
All clinical events are entered by GP’s a...
Text mining
Text mining the PCD literature
PCD validity
Clinical Coding in PCD’s
All clinical events are entered by GP’s a...
Text mining
Text mining the PCD literature
PCD validity
Clinical Coding in PCD’s
All clinical events are entered by GP’s a...
Text mining
Text mining the PCD literature
PCD validity
Clinical codes in PCD studies
Diagnoses are made by reference to a...
Text mining
Text mining the PCD literature
PCD validity
Code list? What code list?
Currently no obligation to publish code...
Text mining
Text mining the PCD literature
PCD validity
Code list? What code list?
Currently no obligation to publish code...
Text mining
Text mining the PCD literature
PCD validity
Code list? What code list?
Currently no obligation to publish code...
Text mining
Text mining the PCD literature
PCD validity
Code list? What code list?
Currently no obligation to publish code...
Text mining
Text mining the PCD literature
PCD validity
Validity of Clinical coding
Clinical codes should be held to scrut...
Text mining
Text mining the PCD literature
PCD validity
Validity of Clinical coding
Clinical codes should be held to scrut...
Text mining
Text mining the PCD literature
PCD validity
Validity of Clinical coding
Clinical codes should be held to scrut...
Text mining
Text mining the PCD literature
PCD validity
ClinicalCodes.org
. . . Is an online repository for PCD researcher...
Text mining
Text mining the PCD literature
PCD validity
ClinicalCodes.org
Allows for validation /
replication of PCD studi...
Text mining
Text mining the PCD literature
PCD validity
Summary
Publish open access!
May 2013 Uses and Validity of Primary...
Text mining
Text mining the PCD literature
PCD validity
Summary
Publish open access!
Upload your codes!
May 2013 Uses and ...
Text mining
Text mining the PCD literature
PCD validity
Summary
Publish open access!
Upload your codes!
Thank you
May 2013...
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  1. 1. Text mining Text mining the PCD literature PCD validity Uses and Validity of Primary Care Database studies May 2013 David Springate, Evan Kontopantelis, Ivan Olier, David Reeves May 2013 Uses and Validity of Primary Care Database studies
  2. 2. Text mining Text mining the PCD literature PCD validity Outline 1 Use of text-mining to explore the scientific literature May 2013 Uses and Validity of Primary Care Database studies
  3. 3. Text mining Text mining the PCD literature PCD validity Outline 1 Use of text-mining to explore the scientific literature 2 Text-mining the PCD literature May 2013 Uses and Validity of Primary Care Database studies
  4. 4. Text mining Text mining the PCD literature PCD validity Outline 1 Use of text-mining to explore the scientific literature 2 Text-mining the PCD literature What is being studied using PCD’s? May 2013 Uses and Validity of Primary Care Database studies
  5. 5. Text mining Text mining the PCD literature PCD validity Outline 1 Use of text-mining to explore the scientific literature 2 Text-mining the PCD literature What is being studied using PCD’s? Changes in topics of investigation over time May 2013 Uses and Validity of Primary Care Database studies
  6. 6. Text mining Text mining the PCD literature PCD validity Outline 1 Use of text-mining to explore the scientific literature 2 Text-mining the PCD literature What is being studied using PCD’s? Changes in topics of investigation over time 3 Validity of Clinical coding May 2013 Uses and Validity of Primary Care Database studies
  7. 7. Text mining Text mining the PCD literature PCD validity Outline 1 Use of text-mining to explore the scientific literature 2 Text-mining the PCD literature What is being studied using PCD’s? Changes in topics of investigation over time 3 Validity of Clinical coding 4 ClinicalCodes.org : A new repository for clinical code lists May 2013 Uses and Validity of Primary Care Database studies
  8. 8. Text mining Text mining the PCD literature PCD validity Text mining May 2013 Uses and Validity of Primary Care Database studies
  9. 9. Text mining Text mining the PCD literature PCD validity What is it? The process of extracting high-quality structured information from unstructured text (e.g. Scientific literature). Uses a variety of computational and statistical methods to find patterns and trends in text Text mining consists of: 1 Information extraction May 2013 Uses and Validity of Primary Care Database studies
  10. 10. Text mining Text mining the PCD literature PCD validity What is it? The process of extracting high-quality structured information from unstructured text (e.g. Scientific literature). Uses a variety of computational and statistical methods to find patterns and trends in text Text mining consists of: 1 Information extraction Automatically extracting structured information from unstructured text May 2013 Uses and Validity of Primary Care Database studies
  11. 11. Text mining Text mining the PCD literature PCD validity What is it? The process of extracting high-quality structured information from unstructured text (e.g. Scientific literature). Uses a variety of computational and statistical methods to find patterns and trends in text Text mining consists of: 1 Information extraction Automatically extracting structured information from unstructured text 2 Semantic searching May 2013 Uses and Validity of Primary Care Database studies
  12. 12. Text mining Text mining the PCD literature PCD validity What is it? The process of extracting high-quality structured information from unstructured text (e.g. Scientific literature). Uses a variety of computational and statistical methods to find patterns and trends in text Text mining consists of: 1 Information extraction Automatically extracting structured information from unstructured text 2 Semantic searching Improves search accuracy by including context into a search May 2013 Uses and Validity of Primary Care Database studies
  13. 13. Text mining Text mining the PCD literature PCD validity What is it? The process of extracting high-quality structured information from unstructured text (e.g. Scientific literature). Uses a variety of computational and statistical methods to find patterns and trends in text Text mining consists of: 1 Information extraction Automatically extracting structured information from unstructured text 2 Semantic searching Improves search accuracy by including context into a search 3 Knowledge discovery May 2013 Uses and Validity of Primary Care Database studies
  14. 14. Text mining Text mining the PCD literature PCD validity What is it? The process of extracting high-quality structured information from unstructured text (e.g. Scientific literature). Uses a variety of computational and statistical methods to find patterns and trends in text Text mining consists of: 1 Information extraction Automatically extracting structured information from unstructured text 2 Semantic searching Improves search accuracy by including context into a search 3 Knowledge discovery Identifying relationships in extracted data May 2013 Uses and Validity of Primary Care Database studies
  15. 15. Text mining Text mining the PCD literature PCD validity Why do we need it? The scientific literature is rapidly increasing in size May 2013 Uses and Validity of Primary Care Database studies
  16. 16. Text mining Text mining the PCD literature PCD validity Why do we need it? The scientific literature is rapidly increasing in size Humans can’t keep up to date with the literature May 2013 Uses and Validity of Primary Care Database studies
  17. 17. Text mining Text mining the PCD literature PCD validity Why do we need it? The scientific literature is rapidly increasing in size Humans can’t keep up to date with the literature 75 trials and 11 Systematic reviews published per day! Bastian et al. (2010) PLoS Medicine May 2013 Uses and Validity of Primary Care Database studies
  18. 18. Text mining Text mining the PCD literature PCD validity Why do we need it? The scientific literature is rapidly increasing in size Humans can’t keep up to date with the literature 75 trials and 11 Systematic reviews published per day! Bastian et al. (2010) PLoS Medicine It is increasingly difficult to hone in on relevant papers May 2013 Uses and Validity of Primary Care Database studies
  19. 19. Text mining Text mining the PCD literature PCD validity Why do we need it? The scientific literature is rapidly increasing in size Humans can’t keep up to date with the literature 75 trials and 11 Systematic reviews published per day! Bastian et al. (2010) PLoS Medicine It is increasingly difficult to hone in on relevant papers More of the literature is being held online in machine-readable archives May 2013 Uses and Validity of Primary Care Database studies
  20. 20. Text mining Text mining the PCD literature PCD validity Why do we need it? The scientific literature is rapidly increasing in size Humans can’t keep up to date with the literature 75 trials and 11 Systematic reviews published per day! Bastian et al. (2010) PLoS Medicine It is increasingly difficult to hone in on relevant papers More of the literature is being held online in machine-readable archives TM can reduce processing time for systematic reviews by 80% (NCTM) May 2013 Uses and Validity of Primary Care Database studies
  21. 21. Text mining Text mining the PCD literature PCD validity Text-mining is not a magic bullet Many publications are not open access Often need to rely on abstracts Grey literature is often inaccessable May 2013 Uses and Validity of Primary Care Database studies
  22. 22. Text mining Text mining the PCD literature PCD validity Text-mining is not a magic bullet Many publications are not open access Often need to rely on abstracts Grey literature is often inaccessable Still need plenty of human input! TM algorithms can be very complex Breadth at the expense of depth May 2013 Uses and Validity of Primary Care Database studies
  23. 23. Text mining Text mining the PCD literature PCD validity Text mining the PCD literature May 2013 Uses and Validity of Primary Care Database studies
  24. 24. Text mining Text mining the PCD literature PCD validity UK Primary Care Databases GPRD / CPRD The General Practice Research Database / The Clinical Practice Research Datalink ˜ 900 papers THIN The Health Improvement Network ˜ 360 papers QResearch ˜ 75 papers May 2013 Uses and Validity of Primary Care Database studies
  25. 25. Text mining Text mining the PCD literature PCD validity The Dataset All articles reported by CPRD, THIN, QResearch in Pubmed May 2013 Uses and Validity of Primary Care Database studies
  26. 26. Text mining Text mining the PCD literature PCD validity The Dataset All articles reported by CPRD, THIN, QResearch in Pubmed 1185 Abstracts with metadata May 2013 Uses and Validity of Primary Care Database studies
  27. 27. Text mining Text mining the PCD literature PCD validity The Dataset All articles reported by CPRD, THIN, QResearch in Pubmed 1185 Abstracts with metadata 141 full-text articles for validation May 2013 Uses and Validity of Primary Care Database studies
  28. 28. Text mining Text mining the PCD literature PCD validity The Dataset All articles reported by CPRD, THIN, QResearch in Pubmed 1185 Abstracts with metadata 141 full-text articles for validation May 2013 Uses and Validity of Primary Care Database studies
  29. 29. Text mining Text mining the PCD literature PCD validity The Dataset All articles reported by CPRD, THIN, QResearch in Pubmed 1185 Abstracts with metadata 141 full-text articles for validation How are PCD’s being used by researchers? May 2013 Uses and Validity of Primary Care Database studies
  30. 30. Text mining Text mining the PCD literature PCD validity PCD studies are a growth area! Number of publications is rapidly increasing. . . 1990 1995 2000 2005 2010 050100150 PCD articles in pubmed year Numberofarticles May 2013 Uses and Validity of Primary Care Database studies
  31. 31. Text mining Text mining the PCD literature PCD validity PCD studies are a growth area! . . . and there is global interest in UK PCD research Institutions affiliated with UK PCD publications xx x x x xxxxxx x x x x xx x x x xx x xx x xxx xx xxx x xx xxxxxx xx xx x xx x x x xx x x x xx x x xxxxxx x x x x x x xx x xxx x xxxxx xxx xxx x x x x xx xxx xx x xx x x xxx xx x x x x x x x x x x xx xx x xxx x x x x x x x x xx xx x xx xxxx x x x x xx x xx x xxx x xx xx xx x x xx x xxxxxx x x x xx x xxx x x xxx x x x x xxxxx x xx x xx xxxxxx xx xx x x x x xx x xxx x x xx xx x xxxxx x xxxxx x xx xxx x x x xx xx xxx x x x x xx x xx xx x x x x xx xx xxxxxx x x x xx x x x x x x x xx x x x x x xx x x x xxx x xxxxx x x x xxxx x x xxxxx xx xx x x xxxxxxxx xxx x xxxxx x x xx xxx x x xx xxxx x x xxx xx x xx xxxxx x xx x x xx x x x xx x x x xxx x xx x xxxx xx xxx xx x xx x xx x xxxx xxx x x xxx x x xxxx x x x x x x x x x x x x x x xxxxxx xxxx xx x xxx x x x x x x x x xx x x x x x xxx x x x xx x xxx x x x x x x x xx x x x x x x xx xx xxxx x x x x xxx x x xx xxx x x xxx x x x xx xxxxxxxxx xx xx x xxxx xx x xxxx x x xx x x x x xx x xxx x xx xxxxxx xx x xx x x x xxx x x x xxxxx xx xx x x x x x x x x x x x xxxxx x xx xxx x xxx x x x x x x x xx x x x x x xxx xx x xxxxx x x xx xx x x x xxxxxxx xx x x xxxx xx xx x x x x xxxx xx xx xxx xxx x xx xx x xxx x x x x x xxx x x x x xxxx x x x x xxxx xxx xxxxxxxx x xx xx xx x xxxx x x x xxxx x x x xx xxxx xx x xx xxx xxx x x x xxx xxxx xxxx x xx x x x x xx x x x x xx xxx x x x x x x x x xxxxxxxx x xxx xx x xxx x xx xxxx xx x xxxxxxxx xxxxx x xx xx x xxxxxxx x x xx xxx x x xx x xx xx x x xx x x x xxx x x x xxx x x xx xx xx xxx x x x xx x x xxx x x x x xx x x xxx x xx xxxxxxxx x x x x x x xx x xxxxxx x x xxxx xxx x xxx x x x x xx x x xx x x x x x x x x x x x x x x xx x xx xx x x x xx x x x xxx x xxx x xx xx x x x x x xx xx xx x x xx x xxxxxxx x xxxxxxxxxxx xxxxxxxxxxx xxx x x x xxxx x xxxx xxxxxxxxxxxxxxxxxx xxxxx May 2013 Uses and Validity of Primary Care Database studies
  32. 32. Text mining Text mining the PCD literature PCD validity Broad scope of topics in PCD studies A network graph of PCD topics of investigation q q q q q q q q q q q q q q q q q q q qq q q q q q q q q q q Cancer1 Fractures/osteo VTE antipsychotics/smi Diabetes Asthma NSAID's HRT Flu vaccination Pregnancy CHD/antihypertensives Stroke Pneumonia Statins Psoriasis Antibiotics Steroids Atrial/warfarin Epilepsy AntidepressantsParacetamol Heart attack IBS BMI/obesity Kidney disease Cancer2 Seizures Auto−immune COPD Healthcare costs Beta blockers May 2013 Uses and Validity of Primary Care Database studies
  33. 33. Text mining Text mining the PCD literature PCD validity Study types are changing. . . q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q Associations Benefits Effectiveness Epidemiology Harms and risks Healthcare costs Misc Predictions Validity 0 40 80 120 0 40 80 120 0 40 80 120 1990 1995 2000 2005 2010 1990 1995 2000 2005 2010 1990 1995 2000 2005 2010 year records May 2013 Uses and Validity of Primary Care Database studies
  34. 34. Text mining Text mining the PCD literature PCD validity . . . as are analysis methods q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q q Bayesian etc. Descriptives only Misc Mixed−effects RCT comparisons Regression models Simulations Survival analysis 0 20 40 60 0 20 40 60 0 20 40 60 1990 1995 2000 2005 2010 1990 1995 2000 2005 2010 year records May 2013 Uses and Validity of Primary Care Database studies
  35. 35. Text mining Text mining the PCD literature PCD validity PCD validity May 2013 Uses and Validity of Primary Care Database studies
  36. 36. Text mining Text mining the PCD literature PCD validity Threats to validity Unmeasured confounding May 2013 Uses and Validity of Primary Care Database studies
  37. 37. Text mining Text mining the PCD literature PCD validity Threats to validity Unmeasured confounding Correlation does not equal causation May 2013 Uses and Validity of Primary Care Database studies
  38. 38. Text mining Text mining the PCD literature PCD validity Threats to validity Unmeasured confounding Correlation does not equal causation GP recording May 2013 Uses and Validity of Primary Care Database studies
  39. 39. Text mining Text mining the PCD literature PCD validity Threats to validity Unmeasured confounding Correlation does not equal causation GP recording Clinical coding May 2013 Uses and Validity of Primary Care Database studies
  40. 40. Text mining Text mining the PCD literature PCD validity Clinical Coding in PCD’s All clinical events are entered by GP’s as clinical codes: May 2013 Uses and Validity of Primary Care Database studies
  41. 41. Text mining Text mining the PCD literature PCD validity Clinical Coding in PCD’s All clinical events are entered by GP’s as clinical codes: Symptoms, signs & diagnoses (READ codes) Referrals to external care centres Immunisation records Prescription information Diagnostic test records and results May 2013 Uses and Validity of Primary Care Database studies
  42. 42. Text mining Text mining the PCD literature PCD validity Clinical Coding in PCD’s All clinical events are entered by GP’s as clinical codes: Symptoms, signs & diagnoses (READ codes) Referrals to external care centres Immunisation records Prescription information Diagnostic test records and results Everything recorded by a GP can be identified (if you know which codes to look for and where to look for them!) May 2013 Uses and Validity of Primary Care Database studies
  43. 43. Text mining Text mining the PCD literature PCD validity Clinical Coding in PCD’s All clinical events are entered by GP’s as clinical codes: Symptoms, signs & diagnoses (READ codes) Referrals to external care centres Immunisation records Prescription information Diagnostic test records and results Everything recorded by a GP can be identified (if you know which codes to look for and where to look for them!) e.g. H331.00 - Asthma diagnosis H33z011 - Severe asthma attack 33G1 - Spirometry testing May 2013 Uses and Validity of Primary Care Database studies
  44. 44. Text mining Text mining the PCD literature PCD validity Clinical codes in PCD studies Diagnoses are made by reference to a set of clinical codes Workflow 1 Researchers decide on a rough set of codes for a condition By searching lookup tables for matching terms By reference to an external source (e.g. QOF) 2 Clinicians go through this draft list by hand and select the relevant codes 3 The database is searched for events matching the finalised code list 4 The correct combination of events in the timeframe of interest gives a diagnosis e.g. For Asthma: Need at least 1+ clinical event 1+ drug event in the last year to qualify May 2013 Uses and Validity of Primary Care Database studies
  45. 45. Text mining Text mining the PCD literature PCD validity Code list? What code list? Currently no obligation to publish code lists No centralised repository for clinical codes The vast majority of PCD studies do not publish their codes No way of knowing if a condition diagnosis is valid No way to replicate the research For example. . . In 45 UK case-control PCD studies (diabetes): May 2013 Uses and Validity of Primary Care Database studies
  46. 46. Text mining Text mining the PCD literature PCD validity Code list? What code list? Currently no obligation to publish code lists No centralised repository for clinical codes The vast majority of PCD studies do not publish their codes No way of knowing if a condition diagnosis is valid No way to replicate the research For example. . . In 45 UK case-control PCD studies (diabetes): Only 5 reported ANY clinical codes. . . May 2013 Uses and Validity of Primary Care Database studies
  47. 47. Text mining Text mining the PCD literature PCD validity Code list? What code list? Currently no obligation to publish code lists No centralised repository for clinical codes The vast majority of PCD studies do not publish their codes No way of knowing if a condition diagnosis is valid No way to replicate the research For example. . . In 45 UK case-control PCD studies (diabetes): Only 5 reported ANY clinical codes. . . Only 2 of these published codes in appendix May 2013 Uses and Validity of Primary Care Database studies
  48. 48. Text mining Text mining the PCD literature PCD validity Code list? What code list? Currently no obligation to publish code lists No centralised repository for clinical codes The vast majority of PCD studies do not publish their codes No way of knowing if a condition diagnosis is valid No way to replicate the research For example. . . In 45 UK case-control PCD studies (diabetes): Only 5 reported ANY clinical codes. . . Only 2 of these published codes in appendix Only 1 provided full set of code lists May 2013 Uses and Validity of Primary Care Database studies
  49. 49. Text mining Text mining the PCD literature PCD validity Validity of Clinical coding Clinical codes should be held to scrutiny and peer-review (either pre- or post-publication) This would allow for: replication of studies May 2013 Uses and Validity of Primary Care Database studies
  50. 50. Text mining Text mining the PCD literature PCD validity Validity of Clinical coding Clinical codes should be held to scrutiny and peer-review (either pre- or post-publication) This would allow for: replication of studies validation of diagnoses May 2013 Uses and Validity of Primary Care Database studies
  51. 51. Text mining Text mining the PCD literature PCD validity Validity of Clinical coding Clinical codes should be held to scrutiny and peer-review (either pre- or post-publication) This would allow for: replication of studies validation of diagnoses incremental improvements to clinical definitions May 2013 Uses and Validity of Primary Care Database studies
  52. 52. Text mining Text mining the PCD literature PCD validity ClinicalCodes.org . . . Is an online repository for PCD researchers to upload their codes upon publication. Deposit code-lists for published studies Download historical code-lists Archive for all Quality and Outcomes Framework business rules (2004 - current) Database-specific information (e.g. consultation types) May 2013 Uses and Validity of Primary Care Database studies
  53. 53. Text mining Text mining the PCD literature PCD validity ClinicalCodes.org Allows for validation / replication of PCD studies Tracking of disease definitions through time Comparitive studies of clinical codes Don’t reinvent the wheel! Currently in development on campus: medcodes.ls.manchester.ac.uk:8080/codesdb May 2013 Uses and Validity of Primary Care Database studies
  54. 54. Text mining Text mining the PCD literature PCD validity Summary Publish open access! May 2013 Uses and Validity of Primary Care Database studies
  55. 55. Text mining Text mining the PCD literature PCD validity Summary Publish open access! Upload your codes! May 2013 Uses and Validity of Primary Care Database studies
  56. 56. Text mining Text mining the PCD literature PCD validity Summary Publish open access! Upload your codes! Thank you May 2013 Uses and Validity of Primary Care Database studies
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