Skip to main content
Top
Published in: Pediatric Rheumatology 1/2013

Open Access 01-12-2013 | Research

Profiling risk factors for chronic uveitis in juvenile idiopathic arthritis: a new model for EHR-based research

Authors: Tyler S Cole, Jennifer Frankovich, Srinivasan Iyer, Paea LePendu, Anna Bauer-Mehren, Nigam H Shah

Published in: Pediatric Rheumatology | Issue 1/2013

Login to get access

Abstract

Background

Juvenile idiopathic arthritis is the most common rheumatic disease in children. Chronic uveitis is a common and serious comorbid condition of juvenile idiopathic arthritis, with insidious presentation and potential to cause blindness. Knowledge of clinical associations will improve risk stratification. Based on clinical observation, we hypothesized that allergic conditions are associated with chronic uveitis in juvenile idiopathic arthritis patients.

Methods

This study is a retrospective cohort study using Stanford’s clinical data warehouse containing data from Lucile Packard Children’s Hospital from 2000–2011 to analyze patient characteristics associated with chronic uveitis in a large juvenile idiopathic arthritis cohort. Clinical notes in patients under 16 years of age were processed via a validated text analytics pipeline. Bivariate-associated variables were used in a multivariate logistic regression adjusted for age, gender, and race. Previously reported associations were evaluated to validate our methods. The main outcome measure was presence of terms indicating allergy or allergy medications use overrepresented in juvenile idiopathic arthritis patients with chronic uveitis. Residual text features were then used in unsupervised hierarchical clustering to compare clinical text similarity between patients with and without uveitis.

Results

Previously reported associations with uveitis in juvenile idiopathic arthritis patients (earlier age at arthritis diagnosis, oligoarticular-onset disease, antinuclear antibody status, history of psoriasis) were reproduced in our study. Use of allergy medications and terms describing allergic conditions were independently associated with chronic uveitis. The association with allergy drugs when adjusted for known associations remained significant (OR 2.54, 95% CI 1.22–5.4).

Conclusions

This study shows the potential of using a validated text analytics pipeline on clinical data warehouses to examine practice-based evidence for evaluating hypotheses formed during patient care. Our study reproduces four known associations with uveitis development in juvenile idiopathic arthritis patients, and reports a new association between allergic conditions and chronic uveitis in juvenile idiopathic arthritis patients.
Appendix
Available only for authorised users
Literature
1.
go back to reference Gowdie PJ, Tse SM: Juvenile idiopathic arthritis. Pediatr Clin North Am. 2012, 59 (2): 301-327. 10.1016/j.pcl.2012.03.014.CrossRefPubMed Gowdie PJ, Tse SM: Juvenile idiopathic arthritis. Pediatr Clin North Am. 2012, 59 (2): 301-327. 10.1016/j.pcl.2012.03.014.CrossRefPubMed
2.
go back to reference Cassidy J, Kivlin J, Lindsley C, Nocton J, Section on R, Section on O: Ophthalmologic examinations in children with juvenile rheumatoid arthritis. Pediatrics. 2006, 117 (5): 1843-1845. 10.1542/peds.2006-0421.CrossRefPubMed Cassidy J, Kivlin J, Lindsley C, Nocton J, Section on R, Section on O: Ophthalmologic examinations in children with juvenile rheumatoid arthritis. Pediatrics. 2006, 117 (5): 1843-1845. 10.1542/peds.2006-0421.CrossRefPubMed
3.
go back to reference BenEzra D, Cohen E, Behar-Cohen F: Uveitis and juvenile idiopathic arthritis: a cohort study. Clin Ophthalmol. 2007, 1 (4): 513-518.PubMedCentralPubMed BenEzra D, Cohen E, Behar-Cohen F: Uveitis and juvenile idiopathic arthritis: a cohort study. Clin Ophthalmol. 2007, 1 (4): 513-518.PubMedCentralPubMed
4.
go back to reference Anesi SD, Foster CS: The importance of recognizing juvenile idiopathic arthritis-associated uveitis and preventing blindness from it. Arthritis Care Res (Hoboken). 2012, 64 (5): 653-657. 10.1002/acr.21599. doi:10.1002/acr.21599CrossRef Anesi SD, Foster CS: The importance of recognizing juvenile idiopathic arthritis-associated uveitis and preventing blindness from it. Arthritis Care Res (Hoboken). 2012, 64 (5): 653-657. 10.1002/acr.21599. doi:10.1002/acr.21599CrossRef
6.
go back to reference Frankovich J, Longhurst CA, Sutherland SM: Evidence-based medicine in the EMR era. N Engl J Med. 2011, 365 (19): 1758-1759. 10.1056/NEJMp1108726.CrossRefPubMed Frankovich J, Longhurst CA, Sutherland SM: Evidence-based medicine in the EMR era. N Engl J Med. 2011, 365 (19): 1758-1759. 10.1056/NEJMp1108726.CrossRefPubMed
7.
go back to reference Lependu P, Iyer SV, Bauer-Mehren A, Harpaz R, Mortensen JM, Podchiyska T: Pharmacovigilance using clinical notes. Clin Pharmacol Ther. 2013, 93 (6): 547-555. 10.1038/clpt.2013.47.CrossRefPubMed Lependu P, Iyer SV, Bauer-Mehren A, Harpaz R, Mortensen JM, Podchiyska T: Pharmacovigilance using clinical notes. Clin Pharmacol Ther. 2013, 93 (6): 547-555. 10.1038/clpt.2013.47.CrossRefPubMed
8.
go back to reference Newton KM, Peissig PL, Kho AN, Bielinski SJ, Berg RL, Choudhary V: Validation of electronic medical record-based phenotyping algorithms: results and lessons learned from the eMERGE network. J Am Med Inform Assoc. 2013, 20 (e1): e147-154. 10.1136/amiajnl-2012-000896.PubMedCentralCrossRefPubMed Newton KM, Peissig PL, Kho AN, Bielinski SJ, Berg RL, Choudhary V: Validation of electronic medical record-based phenotyping algorithms: results and lessons learned from the eMERGE network. J Am Med Inform Assoc. 2013, 20 (e1): e147-154. 10.1136/amiajnl-2012-000896.PubMedCentralCrossRefPubMed
9.
go back to reference Leeper NJ, Bauer-Mehren A, Iyer SV, Lependu P, Olson C, Shah NH: Practice-based evidence: profiling the safety of cilostazol by text-mining of clinical notes. PloS One. 2013, 8 (5): e63499-10.1371/journal.pone.0063499.PubMedCentralCrossRefPubMed Leeper NJ, Bauer-Mehren A, Iyer SV, Lependu P, Olson C, Shah NH: Practice-based evidence: profiling the safety of cilostazol by text-mining of clinical notes. PloS One. 2013, 8 (5): e63499-10.1371/journal.pone.0063499.PubMedCentralCrossRefPubMed
10.
go back to reference Classen DC, Resar R, Griffin F, Federico F, Frankel T, Kimmel N: 'Global trigger tool’ shows that adverse events in hospitals may be ten times greater than previously measured. Health Aff. 2011, 30 (4): 581-589. 10.1377/hlthaff.2011.0190.CrossRef Classen DC, Resar R, Griffin F, Federico F, Frankel T, Kimmel N: 'Global trigger tool’ shows that adverse events in hospitals may be ten times greater than previously measured. Health Aff. 2011, 30 (4): 581-589. 10.1377/hlthaff.2011.0190.CrossRef
11.
go back to reference Kohane IS, Drazen JM, Campion EW: A glimpse of the next 100 years in medicine. N Engl J Med. 2012, 367 (26): 2538-2539. 10.1056/NEJMe1213371.CrossRefPubMed Kohane IS, Drazen JM, Campion EW: A glimpse of the next 100 years in medicine. N Engl J Med. 2012, 367 (26): 2538-2539. 10.1056/NEJMe1213371.CrossRefPubMed
12.
go back to reference Tricoci P, Allen JM, Kramer JM, Califf RM, Smith SC: Scientific evidence underlying the ACC/AHA clinical practice guidelines. JAMA. 2009, 301 (8): 831-841. 10.1001/jama.2009.205.CrossRefPubMed Tricoci P, Allen JM, Kramer JM, Califf RM, Smith SC: Scientific evidence underlying the ACC/AHA clinical practice guidelines. JAMA. 2009, 301 (8): 831-841. 10.1001/jama.2009.205.CrossRefPubMed
13.
go back to reference Fineberg HV: Shattuck Lecture. A successful and sustainable health system–how to get there from here. N Engl J Med. 2012, 366 (11): 1020-1027. 10.1056/NEJMsa1114777.CrossRefPubMed Fineberg HV: Shattuck Lecture. A successful and sustainable health system–how to get there from here. N Engl J Med. 2012, 366 (11): 1020-1027. 10.1056/NEJMsa1114777.CrossRefPubMed
14.
15.
go back to reference Roelofs E, Persoon L, Nijsten S, Wiessler W, Dekker A, Lambin P: Benefits of a clinical data warehouse with data mining tools to collect data for a radiotherapy trial. Radiother Oncol. 2013, 108 (1): 174-179. 10.1016/j.radonc.2012.09.019. doi:10.1016/j.radonc.2012.09.019CrossRefPubMed Roelofs E, Persoon L, Nijsten S, Wiessler W, Dekker A, Lambin P: Benefits of a clinical data warehouse with data mining tools to collect data for a radiotherapy trial. Radiother Oncol. 2013, 108 (1): 174-179. 10.1016/j.radonc.2012.09.019. doi:10.1016/j.radonc.2012.09.019CrossRefPubMed
16.
go back to reference Jensen PB, Jensen LJ, Brunak S: Mining electronic health records: towards better research applications and clinical care. Nat Rev Gen. 2012, 13 (6): 395-405.CrossRef Jensen PB, Jensen LJ, Brunak S: Mining electronic health records: towards better research applications and clinical care. Nat Rev Gen. 2012, 13 (6): 395-405.CrossRef
17.
18.
go back to reference Liu Y, Lependu P, Iyer S, Shah NH: Using temporal patterns in medical records to discern adverse drug events from indications. AMIA Summ Translat Sci Proce. 2012, 2012: 47-56. Liu Y, Lependu P, Iyer S, Shah NH: Using temporal patterns in medical records to discern adverse drug events from indications. AMIA Summ Translat Sci Proce. 2012, 2012: 47-56.
19.
go back to reference Lependu P, Iyer SV, Fairon C, Shah NH: Annotation analysis for testing drug safety signals using unstructured clinical notes. J Biomed Seman. 2012, 3 (Suppl 1): S5- Lependu P, Iyer SV, Fairon C, Shah NH: Annotation analysis for testing drug safety signals using unstructured clinical notes. J Biomed Seman. 2012, 3 (Suppl 1): S5-
20.
go back to reference Jonquet C, Shah NH, Musen MA: The open biomedical annotator. Summ Translat Bioinform. 2009, 2009: 56-60. Jonquet C, Shah NH, Musen MA: The open biomedical annotator. Summ Translat Bioinform. 2009, 2009: 56-60.
21.
go back to reference Shah NH, Bhatia N, Jonquet C, Rubin D, Chiang AP, Musen MA: Comparison of concept recognizers for building the Open Biomedical Annotator. BMC Bioinformatics. 2009, 10 (Suppl 9): S14-10.1186/1471-2105-10-S9-S14.PubMedCentralCrossRefPubMed Shah NH, Bhatia N, Jonquet C, Rubin D, Chiang AP, Musen MA: Comparison of concept recognizers for building the Open Biomedical Annotator. BMC Bioinformatics. 2009, 10 (Suppl 9): S14-10.1186/1471-2105-10-S9-S14.PubMedCentralCrossRefPubMed
22.
go back to reference Cassidy JT, Sullivan DB, Petty RE: Clinical patterns of chronic iridocyclitis in children with juvenile rheumatoid arthritis. Arthritis Rheum. 1977, 20 (2 Suppl): 224-227.PubMed Cassidy JT, Sullivan DB, Petty RE: Clinical patterns of chronic iridocyclitis in children with juvenile rheumatoid arthritis. Arthritis Rheum. 1977, 20 (2 Suppl): 224-227.PubMed
23.
go back to reference Kurrle R, Kanzy EJ, Racenberg J, Lang W, Seiler FR: BMA 031–a TCR-specific monoclonal antibody for clinical application. Transplant Proc. 1989, 21 (1 Pt 1): 1017-1019.PubMed Kurrle R, Kanzy EJ, Racenberg J, Lang W, Seiler FR: BMA 031–a TCR-specific monoclonal antibody for clinical application. Transplant Proc. 1989, 21 (1 Pt 1): 1017-1019.PubMed
24.
go back to reference Saurenmann RK, Levin AV, Feldman BM, Rose JB, Laxer RM, Schneider R: Prevalence, risk factors, and outcome of uveitis in juvenile idiopathic arthritis: a long-term followup study. Arthritis Rheum. 2007, 56 (2): 647-657. 10.1002/art.22381.CrossRefPubMed Saurenmann RK, Levin AV, Feldman BM, Rose JB, Laxer RM, Schneider R: Prevalence, risk factors, and outcome of uveitis in juvenile idiopathic arthritis: a long-term followup study. Arthritis Rheum. 2007, 56 (2): 647-657. 10.1002/art.22381.CrossRefPubMed
25.
go back to reference Heinz C, Mingels A, Goebel C, Fuchsluger T, Heiligenhaus A: Chronic uveitis in children with and without juvenile idiopathic arthritis: differences in patient characteristics and clinical course. J Rheumatol. 2008, 35 (7): 1403-1407.PubMed Heinz C, Mingels A, Goebel C, Fuchsluger T, Heiligenhaus A: Chronic uveitis in children with and without juvenile idiopathic arthritis: differences in patient characteristics and clinical course. J Rheumatol. 2008, 35 (7): 1403-1407.PubMed
26.
go back to reference Nordal EB, Songstad NT, Berntson L, Moen T, Straume B, Rygg M: Biomarkers of chronic uveitis in juvenile idiopathic arthritis: predictive value of antihistone antibodies and antinuclear antibodies. J Rheumatol. 2009, 36 (8): 1737-1743. 10.3899/jrheum.081318.CrossRefPubMed Nordal EB, Songstad NT, Berntson L, Moen T, Straume B, Rygg M: Biomarkers of chronic uveitis in juvenile idiopathic arthritis: predictive value of antihistone antibodies and antinuclear antibodies. J Rheumatol. 2009, 36 (8): 1737-1743. 10.3899/jrheum.081318.CrossRefPubMed
27.
go back to reference Prieur AM, Chedeville G: Prognostic factors in juvenile idiopathic arthritis. Curr Rheumatol Rep. 2001, 3 (5): 371-378. 10.1007/s11926-996-0006-6.CrossRefPubMed Prieur AM, Chedeville G: Prognostic factors in juvenile idiopathic arthritis. Curr Rheumatol Rep. 2001, 3 (5): 371-378. 10.1007/s11926-996-0006-6.CrossRefPubMed
28.
go back to reference Saurenmann RK, Rose JB, Tyrrell P, Feldman BM, Laxer RM, Schneider R: Epidemiology of juvenile idiopathic arthritis in a multiethnic cohort: ethnicity as a risk factor. Arthritis Rheum. 2007, 56 (6): 1974-1984. 10.1002/art.22709.CrossRefPubMed Saurenmann RK, Rose JB, Tyrrell P, Feldman BM, Laxer RM, Schneider R: Epidemiology of juvenile idiopathic arthritis in a multiethnic cohort: ethnicity as a risk factor. Arthritis Rheum. 2007, 56 (6): 1974-1984. 10.1002/art.22709.CrossRefPubMed
29.
go back to reference Guillaume S, Prieur AM, Coste J, Job-Deslandre C: Long-term outcome and prognosis in oligoarticular-onset juvenile idiopathic arthritis. Arthritis Rheum. 2000, 43 (8): 1858-1865. 10.1002/1529-0131(200008)43:8<1858::AID-ANR23>3.0.CO;2-A.CrossRefPubMed Guillaume S, Prieur AM, Coste J, Job-Deslandre C: Long-term outcome and prognosis in oligoarticular-onset juvenile idiopathic arthritis. Arthritis Rheum. 2000, 43 (8): 1858-1865. 10.1002/1529-0131(200008)43:8<1858::AID-ANR23>3.0.CO;2-A.CrossRefPubMed
30.
go back to reference Pincus T, Sokka T: Evidence-based practice and practice-based evidence. Nat Clin Pract Rheum. 2006, 2 (3): 114-115. 10.1038/ncprheum0131.CrossRef Pincus T, Sokka T: Evidence-based practice and practice-based evidence. Nat Clin Pract Rheum. 2006, 2 (3): 114-115. 10.1038/ncprheum0131.CrossRef
31.
go back to reference MacIntyre CR, Ackland MJ, Chandraraj EJ, Pilla JE: Accuracy of ICD-9-CM codes in hospital morbidity data, Victoria: implications for public health research. Aust N Z J Public Health. 1997, 21 (5): 477-482. 10.1111/j.1467-842X.1997.tb01738.x.CrossRefPubMed MacIntyre CR, Ackland MJ, Chandraraj EJ, Pilla JE: Accuracy of ICD-9-CM codes in hospital morbidity data, Victoria: implications for public health research. Aust N Z J Public Health. 1997, 21 (5): 477-482. 10.1111/j.1467-842X.1997.tb01738.x.CrossRefPubMed
32.
go back to reference Zhan C, Miller MR: Administrative data based patient safety research: a critical review. Qual Saf Health Care. 2003, 12 (Suppl 2): ii58-63.PubMedCentralPubMed Zhan C, Miller MR: Administrative data based patient safety research: a critical review. Qual Saf Health Care. 2003, 12 (Suppl 2): ii58-63.PubMedCentralPubMed
33.
go back to reference O’Malley KJ, Cook KF, Price MD, Wildes KR, Hurdle JF, Ashton CM: Measuring diagnoses: ICD code accuracy. Health Serv Res. 2005, 40 (5 Pt 2): 1620-1639.PubMedCentralCrossRefPubMed O’Malley KJ, Cook KF, Price MD, Wildes KR, Hurdle JF, Ashton CM: Measuring diagnoses: ICD code accuracy. Health Serv Res. 2005, 40 (5 Pt 2): 1620-1639.PubMedCentralCrossRefPubMed
34.
go back to reference McCray AT, Burgun A, Bodenreider O: Aggregating UMLS semantic types for reducing conceptual complexity. Stud Health Technol Inform. 2001, 84 (Pt 1): 216-220.PubMedCentralPubMed McCray AT, Burgun A, Bodenreider O: Aggregating UMLS semantic types for reducing conceptual complexity. Stud Health Technol Inform. 2001, 84 (Pt 1): 216-220.PubMedCentralPubMed
35.
36.
go back to reference Parai GK, Jonquet C, Xu R, Musen MA, Shah NH: The lexicon builder Web service: building custom lexicons from two hundred biomedical ontologies. AMIA Annu Symp Proc. 2010, 2010: 587-591.PubMedCentralPubMed Parai GK, Jonquet C, Xu R, Musen MA, Shah NH: The lexicon builder Web service: building custom lexicons from two hundred biomedical ontologies. AMIA Annu Symp Proc. 2010, 2010: 587-591.PubMedCentralPubMed
37.
go back to reference Xu R, Musen MA, Shah NH: A comprehensive analysis of five million UMLS metathesaurus terms using eighteen million MEDLINE citations. AMIA Annu Symp Proc. 2010, 2010: 907-911.PubMedCentralPubMed Xu R, Musen MA, Shah NH: A comprehensive analysis of five million UMLS metathesaurus terms using eighteen million MEDLINE citations. AMIA Annu Symp Proc. 2010, 2010: 907-911.PubMedCentralPubMed
38.
go back to reference Wu ST, Liu H, Li D, Tao C, Musen MA, Chute CG: Unified medical language system term occurrences in clinical notes: a large-scale corpus analysis. J Am Med Inform Assoc. 2012, 19 (e1): e149-e156. 10.1136/amiajnl-2011-000744.PubMedCentralCrossRefPubMed Wu ST, Liu H, Li D, Tao C, Musen MA, Chute CG: Unified medical language system term occurrences in clinical notes: a large-scale corpus analysis. J Am Med Inform Assoc. 2012, 19 (e1): e149-e156. 10.1136/amiajnl-2011-000744.PubMedCentralCrossRefPubMed
39.
go back to reference Chapman WW, Bridewell W, Hanbury P, Cooper GF, Buchanan BG: A simple algorithm for identifying negated findings and diseases in discharge summaries. J Biomed Inform. 2001, 34 (5): 301-310. 10.1006/jbin.2001.1029.CrossRefPubMed Chapman WW, Bridewell W, Hanbury P, Cooper GF, Buchanan BG: A simple algorithm for identifying negated findings and diseases in discharge summaries. J Biomed Inform. 2001, 34 (5): 301-310. 10.1006/jbin.2001.1029.CrossRefPubMed
40.
go back to reference Uzuner O: Second i2b2 workshop on natural language processing challenges for clinical records. AMIA Annu Symp Proc. 2008, 6: 1252-1253. Uzuner O: Second i2b2 workshop on natural language processing challenges for clinical records. AMIA Annu Symp Proc. 2008, 6: 1252-1253.
41.
go back to reference Marshall MS, Boyce R, Deus HF, Zhao J, Willighagen EL, Samwald M: Emerging practices for mapping and linking life sciences data using RDF — a case series. Web Semant Sci Serv Agents World Wide Web. 2012, 14: 2-13.CrossRef Marshall MS, Boyce R, Deus HF, Zhao J, Willighagen EL, Samwald M: Emerging practices for mapping and linking life sciences data using RDF — a case series. Web Semant Sci Serv Agents World Wide Web. 2012, 14: 2-13.CrossRef
42.
go back to reference R Core Team: R: A Language and Environment for Statistical Computing. 2012, Vienna, Austria: R Foundation for Statistical Computing R Core Team: R: A Language and Environment for Statistical Computing. 2012, Vienna, Austria: R Foundation for Statistical Computing
43.
go back to reference Curnow SJ, Falciani F, Durrani OM, Cheung CM, Ross EJ, Wloka K: Multiplex bead immunoassay analysis of aqueous humor reveals distinct cytokine profiles in uveitis. Invest Ophthalmol Vis Sci. 2005, 46 (11): 4251-4259. 10.1167/iovs.05-0444.CrossRefPubMed Curnow SJ, Falciani F, Durrani OM, Cheung CM, Ross EJ, Wloka K: Multiplex bead immunoassay analysis of aqueous humor reveals distinct cytokine profiles in uveitis. Invest Ophthalmol Vis Sci. 2005, 46 (11): 4251-4259. 10.1167/iovs.05-0444.CrossRefPubMed
Metadata
Title
Profiling risk factors for chronic uveitis in juvenile idiopathic arthritis: a new model for EHR-based research
Authors
Tyler S Cole
Jennifer Frankovich
Srinivasan Iyer
Paea LePendu
Anna Bauer-Mehren
Nigam H Shah
Publication date
01-12-2013
Publisher
BioMed Central
Published in
Pediatric Rheumatology / Issue 1/2013
Electronic ISSN: 1546-0096
DOI
https://doi.org/10.1186/1546-0096-11-45

Other articles of this Issue 1/2013

Pediatric Rheumatology 1/2013 Go to the issue