Title :
Prostate cancer biomarker identification using MALDI-MS DATA: Initial results
Author :
Mantena, Vamsi ; Jiang, Wenjuan ; Li, Jiang ; McKenzie, Rick
Author_Institution :
ECE & VMASC, Old Dominion Univ., Norfolk, VA
Abstract :
We present a computational framework to identify prostate specific cancer biomarkers using matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) tissue imaging data collected at the Eastern Virginia Medical School (EVMS). Protein profiles of a tumor and its surrounding area from one prostate tissue sample were analyzed. The data contain 974 spectra (27 cancer, 947 normal). We proposed a pipeline to configure our previously developed feature selection and classification algorithms for biomarker identification. We also compared our algorithms with other popular computational models. Our feature selection algorithm identified three peaks (proteins) which obtained high sensitivities and specificities in a five-fold cross validation experiment.
Keywords :
biomedical optical imaging; cancer; laser applications in medicine; mass spectroscopy; medical image processing; molecular biophysics; proteins; tumours; matrix-assisted laser desorption/ionization mass spectrometry; prostate cancer biomarker identification; protein profiles; tissue imaging data; tumor; Biomarkers; Biomedical imaging; Classification algorithms; Computational modeling; Ionization; Mass spectroscopy; Neoplasms; Pipelines; Prostate cancer; Proteins;
Conference_Titel :
Life Science Systems and Applications Workshop, 2009. LiSSA 2009. IEEE/NIH
Conference_Location :
Bethesda, MD
Print_ISBN :
978-1-4244-4292-8
Electronic_ISBN :
978-1-4244-4293-5
DOI :
10.1109/LISSA.2009.4906723
