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Research Article

RandomForest4Life: A Random Forest for predicting ALS disease progression

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Pages 444-452 | Received 29 Aug 2013, Accepted 03 Feb 2014, Published online: 20 Aug 2014

References

  • Chiò A, Logroscino G, Hardiman O, Swingler R, Mitchell D, Beghi E, Traynor BGon behalf of the Eurals Consortium. Prognostic factors in ALS: a critical review. Amyotroph Lateral Scler. 2009;10:310–23.
  • Kimura F, Fujimura C, Ishida S, Nakajima H, Furutama D, Uehara H, et al. Progression rate of ALSFRS- R at time of diagnosis predicts survival time in ALS. Neurology. 2006; 66:265–7.
  • Zoccolella S, Beghi E, Palagano G, Fraddosio A, Guerra V, Samarelli V, et al.;for the SLAP Registry. Analysis of survival and prognostic factors in amyotrophic lateral sclerosis: a population based study. Journal of Neurology, Neurosurgery & Psychiatry. 2008;79:33–7.
  • Fujimura-Kiyono C, Kimura F, Ishida S, Nakajima H, Hosokawa T, Sugino M, Hanafusa T. Onset and spreading patterns of lower motor neuron involvements predict survival in sporadic amyotrophic lateral sclerosis. Journal of Neurology, Neurosurgery & Psychiatry. 2011;82:1244–9.
  • Brooks BR, Sanjak M, Ringel S, England J, Brinkmann J, Pestronk A, et al. The amyotrophic lateral sclerosis functional rating scale: assessment of activities of daily living in patients with amyotrophic lateral sclerosis. Archives of Neurology. 1996;53:141–7.
  • Cedarbaum JM, Stambler N, Malta E, Fuller C, Hilt D, Thurmond B, Nakanishi A. The ALSFRS-R: a revised ALS functional rating scale that incorporates assessments of respiratory function. Journal of the Neurological Sciences. 1999;169:13–21.
  • Qureshi MM, Hayden D, Urbinelli L, Ferrante K, Newhall K, Myers D, et al. Analysis of factors that modify susceptibility and rate of progression in amyotrophic lateral sclerosis (ALS). Amyotroph Lateral Scler. 2006;7: 173–82.
  • Gordon PH, Cheng B, Salachas F, Pradat PF, Bruneteau G, Corcia P, et al. Progression in ALS is not linear but is curvilinear. Journal of Neurology. 2010;257:1713–7.
  • Reich-Slotky R, Andrews J, Cheng B, Buchsbaum R, Levy D, Kaufmann P, Thompson JLP. Body mass index (BMI) as predictor of ALSFRS-R score decline in ALS patients. Amyotroph Lateral Scler Frontotemporal Degener. 2013;14:212–6.
  • Kollewe K, Mauss U, Krampfl K, Petri S, Dengler R, Mohammadi B. ALSFRS-R score and its ratio: a useful predictor for ALS progression. Journal of the Neurological Sciences. 2008;275:69–73.
  • Paganoni S, Zhang M, Zárate AQ, Jaffa M, Yu H, Cudkowicz ME, Wills AM. Uric acid levels predict survival in men with amyotrophic lateral sclerosis. Journal of Neurology. 2012;259:1923–8.
  • Brettschneider J, Toledo JB, Deerlin VMV, Elman L, McCluskey L, Lee VMY, Trojanowski JQ. Microglial activation correlates with disease progression and upper motor neuron clinical symptoms in amyotrophic lateral sclerosis. PLoS One. 2012;7:e39216.
  • DREAM Project. DREAM Project Webpage, 2013. URL http://www.the-dream-project.org/. Accessed 2013-05-24.
  • Prize4Life. Prize4Life Webpage, 2013. URL http://www.prize4life.org/. Accessed 2013-05-24.
  • InnoCentive. InnoCentive Webpage, 2013. URL http://www.innocentive.com/. Accessed 2013-05-24.
  • Küffner R, Zach N, Norel R, Hawe J, Schoenfeld D, Wang L, et al.,DREAM 7 ALS Prediction Prize Consortium, Stolovitzky G, Leitner M. Predicting ALS progression: insights into the disease from a crowdsourcing effort, 2013. Unpublished manuscript.
  • Prize4Life, Neurological Clinical Research Institute, Massachusetts Geeral Hospital. Pooled Resource Open-Access ALS Clinical Trials Database, 2013. URL https://nctu.partners.org/ProACT/. Accessed 2013-05-24.
  • Brooks BR, Lewis D, Rawling J, Sanjak M, Belden D, Hakim H, et al. The natural history of amyotrophic lateral sclerosis. In: Williams AC, editor. Motor Neuron Disease. London, UK: Chapman & Hall Medical; 1994. pp. 131–70.
  • Diggle PJ, Heagerty PJ, Liang K, Zeger SL. Analysis of Longitudinal Data. Oxford, UK: Oxford University Press, 2nd edn, 2002.
  • Wishart J. Growth-rate determinition in nutrition studies with the bacon pig, and their analysis. Biometrika. 1938; 30:16–28.
  • Rowell JG, Walters DE. Analysing data with repeated observations on each experimental unit. Journal of Agricultural Science. 1976;87:423–32.
  • Hothorn T, Hornik K, Zeileis A. Unbiased recursive partitioning: a conditional inference framework. Journal of Computational and Graphical Statistics. 2006;15:651–74.
  • Strobl C, Boulesteix AL, Zeileis A, Hothorn T. Bias in random forest variable importance measures: illustrations, sources and a solution. BMC Bioinformatics. 2007;8:25.
  • Breiman L. Random forests. Machine Learning. 2001;45: 5–32.
  • Hapfelmeier A, Hothorn T, Ulm K, Strobl C. A new variable importance measure for random forests with missing data. Statistics and Computing. 2014;24:21–34.
  • Strobl C, Malley J, Tutz G. An introduction to recursive partitioning: rationale, application, and characteristics of classification and regression trees, bagging, and random forests. Psychological Methods. 2009;14:323–48.
  • Prize4Life, Neurological Clinical Research Institute, Massachusetts General Hospital.A Guide to the PRO- ACT Database, 2013. URL https://nctu.partners.org/ProACT/Home/HowToUse. Accessed 2013-05-24.
  • R Core Team. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria, 2013. URL http://www.R-project.org/.
  • Bates D, Maechler M, Bolker B. lme4: Linear Mixed- effects Models Using S4 Classes, 2013. URL http://CRAN.R-project.org/package=lme4. R package version 0.999999-2.
  • Hothorn T, Hornik K, Strobl C, Zeileis A. party: A Laboratory for Recursive Part(y)itioning, 2013. URL http://CRAN.R-project.org/package = party. R package version 1.0-6.
  • Prize4Life, Neurological Clinical Research Institute, Massachusetts General Hospital. Pooled Resource Open-Access ALS Clinical Trials Database–ALS Prize Data, 2013. URL https://nctu.partners.org/ProACT/data. Accessed 2013-11-04.
  • DREAM, Prize4Life.The DREAM Phil Bowen ALS Prediction Prize4Life Challenge, 2012. URL http://www.the-dream-project.org/result/dream-phil-bowen-als-prediction-prize4life-challenge. Accessed 2013-05-24.
  • Hothorn T, Leisch F, Zeileis A, Hornik K. The design and analysis of benchmark experiments. Journal of Computational and Graphical Statistics.2005;14:675–99.
  • Franchignoni F, Mora G, Giordano A, Volanti P, Chió A. Evidence of multidimensionality in the ALSFRS-R scale: a critical appraisal on its measurement properties using Rasch analysis. Journal of Neurology, Neurosurgery & Psychiatry. 2013;84:1340–5.
  • Chió A, Canosa A, Gallo S, Cammarosano S, Moglia C, Fuda G, Calvo A,M Gabriele for the PARALS Group. ALS clinical trials: Denrolled patients accurately represent the ALS population? Neurology 2011;77:1432–7.

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