A time-series DDP for functional proteomics profiles.
Using a new type of array technology, the reverse phase protein array (RPPA), we measure time-course protein expression for a set of selected markers that are known to coregulate biological functions in a pathway structure. To accommodate the complex dependent nature of the data, including temporal correlation and pathway dependence for the protein markers, we propose a mixed effects model with temporal and protein-specific components. We develop a sequence of random probability measures (RPM) to account for the dependence in time of the protein expression measurements. Marginally, for each RPM we assume a Dirichlet process model. The dependence is introduced by defining multivariate beta distributions for the unnormalized weights of the stick-breaking representation. We also acknowledge the pathway dependence among proteins via a conditionally autoregressive model. Applying our model to the RPPA data, we reveal a pathway-dependent functional profile for the set of proteins as well as marginal expression profiles over time for individual markers.
Department of Statistics, ITAM, Rio Hondo 1, Progreso Tizapan, 01080 Mexico City, Mexico. lnieto@itam.mx
Luis E
LE
Nieto-Barajas
Peter
P
Müller
Yuan
Y
Ji
Yiling
Y
Lu
Gordon B
GB
Mills
D001499:Bayes Theorem; D014408:Biomarkers, Tumor / Q000378:metabolism; D001699:Biometry; D045744:Cell Line, Tumor; D003627:Data Interpretation, Statistical; D066246:ErbB Receptors / Q000037:antagonists & inhibitors / Q000378:metabolism; D005260:Female; D006801:Humans; D000077341:Lapatinib; D016014:Linear Models; D008390:Markov Chains; D015233:Models, Statistical; D009010:Monte Carlo Method; D015999:Multivariate Analysis; D010051:Ovarian Neoplasms / Q000188:drug therapy / Q000378:metabolism; D040081:Protein Array Analysis / Q000706:statistics & numerical data*; D040901:Proteomics / Q000706:statistics & numerical data*; D011799:Quinazolines / Q000494:pharmacology; D015398:Signal Transduction / Q000187:drug effects; D018709:Statistics, Nonparametric
D014408:Biomarkers, Tumor; D011799:Quinazolines; D000077341:Lapatinib; D066246:ErbB Receptors