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Research & Software

Interests

Data Science in Medicine, Big Data, Deep Learning, Computational Biology, Statistical Computing and Graphics.

R Software

  1. DNAMR:  DNAMR1.2 (under R 4.0) and DNAMR (under R 3.0) R Package with code from 2014 book It includes quantile normlization, conditional T and many other functions.
  2. ARF R package , includes ARF  MARF and MPART
  3. fdaRNA package:  Includes Functional Data Normalization, Quantile normalization, Fisher-Yates Normalization,   functional RMA M-estimator Funtional RMA(more statistically efficient than regular RMA).
  4. ERF Enriched Random Forest R package.  This version has some bugs. A new better version will be uploaded in one week
  5. LoST  and JLE.   An R package called LoST containing the function JLE  will be available here shortly after it passes approval. The R package will also be available at CRAN shortly.

 

Recent Papers

      1. (2020) Beavers T, Cabrera J, Lubomirski M, Amaratunga J, Teigler J Data Nuggets: A Method for Reducing Large Datasets While Maintaining Data Structure.(submitted)
      2. (2020) Cabrera J Amaratunga, Kostis W, Kostis J.. Vaidya J, Personalized Disease Networks.
      3. (2020) Small E, Javier Cabrera, Kostis J, Kostis WJ Abstract Mining. arXiv:1804.10530
      4. (2020) Cabrera J, Emir B. On the Fisher-Yates normalization and its applications to medical outcomes data.
      5. (2020) B. Emir,a R. J.Willke,b C. R. Yu,c K. H. Zou,a M. A. Resad and J. Cabrera. A Comparison and Integration of Quantile Regression and Finite Mixture Modeling(submitted)
      6. (2020)Amaratunga D, Cabrera J, Sargsyan D, Kostis JB, Zinonos S. Uses and opportunities for machine learning in hypertension research. IJCHY, in press
      7. (2020) Wang J, Cabrera J, Tsui K, Guo, H, Bakker M, Kostis J. Clinical and Non-clinical Effects on Surgery Duration: Statistical Modeling and Analysis J arXiv:1801.04110J Healthc Eng. 2020 Feb 10.
      8. (2020) Kostis JB, Giakoumis M, Zinonos S, Cabrera J, Kostis WJ. Meta-Analysis of Usefulness of Treatment of Hypercholesterolemia With Statins for Primary Prevention in Patients Older Than 75 Years Am J Cardiol. 2020
      9. (2019) D Sargsyan, S Jagannatha, N Manyakov, A Skalkin, A Bangerter, S Ness, K Durham, D Amaratunga, J Cabrera, G Pandina. Feature selection with weighted importance index in an autism spectrum disorder study. Statistics in Pharm Research. 11-2 118-125
      10. (2019) Moreyra, A, Cosgrove N, Cabrera J, Kostis JB, Trends in Hospitalization for Infective Endocarditis as a Reason for Admission or a Secondary Diagnosis. Am J Cardiol Aug 2019.
      11. (2019) Barbayannis G, Chiu IM, Sargsyan D, Cabrera J, Beavers TE, Kostis JB, Cosgrove NM, Michel NE, Kostis WJ. Relation Between Statewide Hospital Performance Reports on Myocardial Infarction and Cardiovascular Outcomes. Am J Cardiol 123(10):1587-1594. An interview regarding this paper was posted on Rutgers Today (March 26, 2019).  It was also featured in the RWJUH Medical Staff Office online publication under the RWJ Academic Angle and the RWJMS Dean’s Weekly View.
      12. (2019) Kostis, W., Sargsyan, D., Mekkaoui, C., Moreyra, A., Cabrera, J., Cosgrove, N. M., Sedjro, J. E., Kostis, J., Cushman, W. C., Pantazopoulos, J. S., Pressel, S. L. & Davis, B. R., Association of orthostatic hypertension with mortality in the Systolic Hypertension in the Elderly Program. Journal of Human Hypertension.
      13. (2019) Cuccurullo SJ, Fleming TK, Kostis WJ, Greiss C, Gizzi MS, Eckert A, Ray AR, Scarpati R, Cosgrove NM, Beavers T, Cabrera J, Sargsyan D, Kostis JB. Impact of a Stroke Recovery Program Integrating Modified Cardiac Rehabilitation on All-Cause Mortality, Cardiovascular Performance and Functional Performance. Am J Phys Med Rehabil. 2019.
      14. (2019) MD Gastrich, S Zinonos, G Bachmann, NM Cosgrove, J Cabrera, J Kostis.
        Preeclamptic Women Are at Significantly Higher Risk of Future Cardiovascular Outcomes Over a 15-Year Period. Journal of Women’s Health 29 (1), 74-83
      15. (2018) Guo J, Wang J, Cabrera J, Elsayed E. Improved inverse Gaussian process and bootstrap: Degradation and reliability metrics. Reliability Engineering and System Safety 178 (2018) 269–277.
      16. (2018) Kostis WJ, Cabrera J. Fear of adverse events should not prevent the use of appropriate antihypertensive drug therapy. J Am Soc Hypertens. (11):756-758.ohh ok
      17. (2018) Wellings J, Kostis J, Sargsyan D Cabrera J, Kostis W. Risk Factors and Trends in Incidence of Heart Failure Following Acute Myocardial Infarction. American Jour. of Cardiology 3-5.
      18. (2018) Moreyra A, Shami W, Zinonos S, Cosgrove N, Gold A, Kostis J Cabrera J. The course of patients with chest pain and no evidence of heart disease: A 20 year follow-up study. Journal of the American College of Cardiology 71-11
      19. (2018) Tang, L., Zhao, Y., Cabrera, J., Ma, J. & Tsui, K. L., Jan 1 2018, Forecasting Short-Term Passenger Flow: An Empirical Study on Shenzhen Metro.  IEEE Transactions on Intelligent Transportation Systems.
      20. (2017) Scholer A, Mahmoud O, Ghosh D, Schwartzman J, Farooq M, Cabrera J, Wieder R, Adam N, Chokshi R. Improving cancer patient emergency room utilization: A New Jersey state assessment. Cancer Epidemiol.
      21. (2017) Emir B, Gruben D, Bhattacharyya H, Reisman A , J Cabrera Predictive Modeling in HEOR. Statistical Topics in Health Economics and Outcomes Research, 69
      22. (2017) Wang C, Elsayed E, Li K, Cabrera J Multisensor Degradation Data Fusion and Remaining Life Prediction. ASME 2017 Pressure Vessels and Piping Conference,
      23. (2017) Pantazopoulos JS, David A, Kostis WJ, Cosgrove NM, Kostis JB. For the Myocardial Infarction Data Acquisition System (MIDAS 30) Study Group(Cabrera).Cardiovascular outcomes in patients with intraventricular conduction blocks: sixteen-year follow-up in a statewide database. Hellenic J Cardiol. 2017;58:194-201.
      24. (2016) Ghosh D, Cabrera J, Adam T, Aggarwal R,Levounis P, Adam N  Comorbidity Patterns and its Impact on Health Outcomes: Two-way Clustering Analysis.  IEEE Transactions on Big Data. V- 99.
      25. (2016) Kostis W · Moreyra A· Cabrera J· Kostis J. Survival Differences in Clinical Trials With Long-Term Follow-Up. Journal of the American College of Cardiology.
      26. Kostis WJ, Moreyra AE, Cabrera J, Kostis JB. Survival Differences in Clinical Trials With Long-

      Term Follow-Up.  Journal of the American College of Cardiology 2016;67(5):600

      1. (2016) Amaratunga D, Cabrera J. High-dimensional data Journal of the National Science Foundation of Sri Lanka 44(1):3
      2. (2015) Ng, Cabrera J, Tse P., Chen A Tsui K. Distance-based analysis of dynamical systems reconstructed from vibrations for bearing diagnostics. Nonlinear DynamicsV.80, Issue 1–2.
      3. (2015) Amaratunga D, Cabrera J, Review of New Statistical Techniques for Analysis of Cardiovascular Trial and Registry Data Current Hypertension Reports, 17(10).
      4. (2015) Iyanoye A, Moreyra AE, Swerdel JN, Gandhi SK, Cabrera J, Cosgrove NM, Kostis JB; MIDAS 23 Study Group. Gender disparity in the use of drug-eluting stents during percutaneous coronary intervention for acute myocardial infarction. Catheter Cardiovasc Interv. 2015 Aug;86(2):221-8.
      5. (2015) Cheng J, Cabrera J, Cosgrove N, Davis B, Kostis W, Pressel S, Sargsyan D, Kostis, Clinical trials in hypertension and related morbidities prediction of survival benefit of clinical trials. J.  Journal of the American Society of Hypertension.
      6. (2015) Adeyemi A, Moreyra A ·Swerdel J · Gandhi S ·Cabrera J · Cosgrove N ·Kostis J, Gender disparity in the Use of Drug – Eluting Stents during Percutaneous Coronary Intervention for Acute Myocardial Infarction. Catheterization and Cardiovascular Interventions 2015
      1. (2015) Kostis J, Sargsyan D, Cabrera J, Cosgrove N, Pentakota S, Sedjro J, Kostis W, Pressel S, Davis B. Orthostatic Hypertension in SHEP.
      2. (2104) Amaratunga, D., Cabrera J. and Li, YS. Resampling-Based Similarity Measures for High-Dimensional Data. 22-1, pp1-9.
      3. (2014) Freeman R, Baron R, Bouhassira D, Cabrera J, Emir B. Sensory profiles of patients with neuropathic pain based on the neuropathic pain symptoms and signs. Pain. 2014 Feb; 155(2):367-76. PMID: 24472518.
      4. (2014) Murugavel M, Cubon V, Putukian M, Echemendia R, Cabrera J, Osherson D, Dettwiler A.  A longitudinal diffusion tensor imaging study assessing white matter fiber tracts after sports related concussion. J Neurotrauma. May 2.
      1. (2014) Tryputsen V, Cabrera J, Bondt A., Amaratunga D. Using Fisher’s method to identify enriched gene sets, Statistics in Biopharmaceutical Research.
      2. (2014) Swerdel J, Janevic T, Cabrera J., Cosgrove N., Davis B, Kpostis J.  Rapid Decreases in Blood Pressure From Antihypertensive Treatment were Associated with Cancer, Epidemiology, Biomarkers & Prevention.
      3. (2014) Kostis J · Cintron D ·Cabrera D ·Sedjro J· Cosgrove N.  Acute Myocardial Infarction Hospital Performance Reports And Recurrence Of Myocardial Infarction After Discharge in a Statewide Study of 64 Hospitals. Journal of the American College of Cardiology.
      4. (2014) Kostis W, Cabrera J, Messerli F, Cheng J, Sedjro J, Cosgrove N, Swerdel J, Deng Y, Davis B, Kostis J. Competing cardiovascular and non cardiovascular risks and longevity in the systolic hypertension in the elderly program. Am J Cardiol. 2014 Feb 15;113(4):676-
      5. (2014) Kostis J, Sedjro J, Cabrera J, Cosgrove N, Pantazopoulos J, Kostis W, Pressel S, Davis B. Visit-to-visit blood pressure variability and cardiovascular death in the systolic hypertension in the elderly program .J Clin Hypertens, 2014 (1):34-40
      6. (2014) Ng S, Cabrera J, Tsui KL. An Application Of Dynamical System Reconstruction From Vibrations For Bearing Diagnostics And Prognostics. Proceedings Spring Research Conference on Systems Engineering and Management Science, SRC-SEMS 2014.
      7. Research output: Conference Papers › Refereed conference paper (no ISBN/ISSN) (2013) Cabrera J. and Wang, J. Bootstrap Methods for Assessing the Reliability of Subgroup Discovery in Clinical Trial Data. To appear.
      8. (2013) French J, Cabrera J, Emir B, Whalen E, Lu F. Designing a new proof-of-principle trial for treatment of partial seizures to demonstrate efficacy with minimal sample size and duration-a case study. Epilepsy Res.106(1-2):230-6.
      9. (2013) Zou K., Yu C., Liu K., Carlsson M., Cabrera, J. Optimal Thresholds by Maximizing or Minimizing Various Metrics via ROC-Type Analysis Academic Radiology 20-7, 2013, pp 807–81
      10. (2013) Kostis W, Cabrera J, Hooper W, Whelton P, Espeland M, Cosgrove N, Cheng J, Deng Y, De Staerck C, Pyle M, Maruthur N, Reyes I, Anderson CA, Liu J, Kostis J. Relationships between selected gene polymorphisms and blood pressure sensitivity to weight loss in elderly persons with hypertension. Hypertension. 2013 61(4):857-63.
      11. (2013) B. Emir, D. Amaratunga, M. Beltangady, J. Cabrera, R. Freeman, D Madigan, Nguyen and E. Whalen  Generating productive dialogue between consulting statisticians and their clients. Open Access Medical Statistics, 3:51 – 56.
      12. (2013) Udall M, Mardekian J, Cabrera J. Identification of patients with painful diabetic peripheral neuropathy who have a favorable cost profile with pregabalin treatment. Pain Pract. 13(6):476-84.
      13. (2012) Kostis J, Cabrera J, Chen J, Life Expextancy After Treatment for Systolic Hyperstension. JAMA April 4 2012, 307(13).
      14. (2012) Gastrich MD, Gandhi SK, Pantazopoulos J, Zang EA, Cosgrove NM, Cabrera J, Sedjro JE, Bachmann G, Kostis JB. Cardiovascular outcomes after preeclampsia or eclampsia complicated by myocardial infarction or stroke. Obstet Gynecol. Oct;120(4):823-31.
      15. (2012) Cabrera J, Emir B, Dills D, Murphy TK, Whalen E, Clair A. Characterizing and understanding body weight patterns in patients treated with pregabalin. Curr Med Res Opin. 28(6):1027-37.
      16. (2011) Kostis J, Cabrera J, Chen, Cosgrove N,Deng Y, Pressel S, Davis B. Association Between Chlorthalidone Treatment of Systolic Hypertension and Long-term Survival. JAMA, December 21 2011, 306(23).
      17. (2011) Kostis W. , Chen J., Cabrera J., Kostis, J. Meta-Analysis of Statin Effects in Women Versus Men . JACC.
      18. (2011) Ghandi S., McKinney J., Chen J., Cabrera J., Kostis, J. Temporal Trends in Incidence and Long-Term Case Fatality of Stroke among Children from 1994-2007.
      19. (2011) Tomson T, Almas M, Giordano S, Cabrera J. The impact of background antiepileptic drugs on the efficacy and safety of Pregabalin in treating partial-onset seizures: A post hoc analysis of combined clinical trials. Epilepsy Res, 2011.