Toward digital staining using imaging mass spectrometry and random forests.

作者: Michael Hanselmann , Ullrich Köthe , Marc Kirchner , Bernhard Y. Renard , Erika R. Amstalden

DOI: 10.1021/PR900253Y

关键词:

摘要: We show on imaging mass spectrometry (IMS) data that the Random Forest classifier can be used for automated tissue classification and it results in predictions with high sensitivities positive predictive values, even when intersample variability is present data. further demonstrate how Markov Fields vector-valued median filtering applied to reduce noise effects improve a posthoc smoothing step. Our study gives clear evidence digital staining by means of IMS constitutes promising complement chemical techniques.

参考文章(50)
Mathias Uhlén, A human protein atlas for normal and cancer tissues 10th International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2006, 5 November 2006 through 9 November 2006, Tokyo, Japan. ,(2006)
Robert Tibshirani, Trevor Hastie, Jerome H. Friedman, The Elements of Statistical Learning ,(2001)
R. Heeren, Alexander Broersen, van Robert Liere, Comparing three PCA-based Methods for the 3D Visualization of Imaging Spectroscopy Data ACTA Press. pp. 540- 545 ,(2005)
Micah Hamady, Erin Peden, Rob Knight, Ravinder Singh, Fast-Find: A novel computational approach to analyzing combinatorial motifs BMC Bioinformatics. ,vol. 7, pp. 1- 10 ,(2006) , 10.1186/1471-2105-7-1
Ramón Díaz-Uriarte, Sara Alvarez de Andrés, Gene selection and classification of microarray data using random forest BMC Bioinformatics. ,vol. 7, pp. 3- 3 ,(2006) , 10.1186/1471-2105-7-3
Jennifer H Barrett, David A Cairns, Application of the Random Forest Classification Method to Peaks Detected from Mass Spectrometric Proteomic Profiles of Cancer Patients and Controls Statistical Applications in Genetics and Molecular Biology. ,vol. 7, pp. 1- 22 ,(2008) , 10.2202/1544-6115.1349
Bernhard Schölkopf, Alexander J. Smola, Learning with Kernels The MIT Press. pp. 626- ,(2018) , 10.7551/MITPRESS/4175.001.0001
Martin Welk, Christian Feddern, Bernhard Burgeth, Joachim Weickert, Median Filtering of Tensor-Valued Images joint pattern recognition symposium. pp. 17- 24 ,(2003) , 10.1007/978-3-540-45243-0_3
Christopher M. Bishop, Pattern Recognition and Machine Learning ,(2006)