Title :
Joint classification and pairing of human chromosomes
Author :
Biyani, Pravesh ; Wu, Xiaolin ; Sinha, Abhijit
Author_Institution :
Dept. of Electr. & Comput. Eng., McMaster Univ., Hamilton, Ont., Canada
Abstract :
We reexamine the problems of computer-aided classification and pairing of human chromosomes, and propose to jointly optimize the solutions of these two related problems. The combined problem is formulated into one of optimal three-dimensional assignment with an objective function of maximum likelihood. This formulation poses two technical challenges: 1) estimation of the posterior probability that two chromosomes form a pair and the pair belongs to a class and 2) good heuristic algorithms to solve the three-dimensional assignment problem which is NP-hard. We present various techniques to solve these problems. We also generalize our algorithms to cases where the cell data are incomplete as often encountered in practice.
Keywords :
biology computing; cellular biophysics; computational complexity; maximum likelihood estimation; optimisation; probability; NP-hard; cell data; computer-aided classification; heuristic algorithms; human chromosome pairing; maximum likelihood; posterior probability; three-dimensional assignment problem; Biological cells; Cells (biology); Genetics; Heuristic algorithms; Humans; Linear programming; Maximum likelihood estimation; Neural networks; Testing; Transportation; Chromosome classification; homologue pairing; maximum likelihood estimation; optimization.; three-dimensional assignment; Algorithms; Artificial Intelligence; Chromosomes, Human; Humans; Image Interpretation, Computer-Assisted; Imaging, Three-Dimensional; Karyotyping; Likelihood Functions; Pattern Recognition, Automated;
Journal_Title :
Computational Biology and Bioinformatics, IEEE/ACM Transactions on
DOI :
10.1109/TCBB.2005.26
