Engelhardt, Alexander, Rieger, Anna, Tresch, Achim and Mansmann, Ulrich (2016). Efficient Maximum Likelihood Estimation for Pedigree Data with the Sum-Product Algorithm. Hum. Hered., 82 (1-2). S. 1 - 16. BASEL: KARGER. ISSN 1423-0062
Full text not available from this repository.Abstract
Objective: We analyze data sets consisting of pedigrees with age at onset of colorectal cancer (CRC) as phenotype. The occurrence of familial clusters of CRC suggests the existence of a latent, inheritable risk factor. We aimed to compute the probability of a family possessing this risk factor as well as the hazard rate increase for these risk factor carriers. Due to the inheritability of this risk factor, the estimation necessitates a costly marginalization of the likelihood. Methods: We propose an improved EM algorithm by applying factor graphs and the sum-product algorithm in the E-step. This reduces the computational complexity from exponential to linear in the number of family members. Results: Our algorithm is as precise as a direct likelihood maximization in a simulation study and a real family study on CRC risk. For 250 simulated families of size 19 and 21, the runtime of our algorithm is faster by a factor of 4 and 29, respectively. On the largest family (23 members) in the real data, our algorithm is 6 times faster. Conclusion: We introduce a flexible and run-time-efficient tool for statistical inference in biomedical event data with latent variables that opens the door for advanced analyses of pedigree data. (C) 2017 S. Karger AG, Basel
| Item Type: | Journal Article | ||||||||||||||||||||
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| URN: | urn:nbn:de:hbz:38-287778 | ||||||||||||||||||||
| DOI: | 10.1159/000475465 | ||||||||||||||||||||
| Journal or Publication Title: | Hum. Hered. | ||||||||||||||||||||
| Volume: | 82 | ||||||||||||||||||||
| Number: | 1-2 | ||||||||||||||||||||
| Page Range: | S. 1 - 16 | ||||||||||||||||||||
| Date: | 2016 | ||||||||||||||||||||
| Publisher: | KARGER | ||||||||||||||||||||
| Place of Publication: | BASEL | ||||||||||||||||||||
| ISSN: | 1423-0062 | ||||||||||||||||||||
| Language: | English | ||||||||||||||||||||
| Faculty: | Unspecified | ||||||||||||||||||||
| Divisions: | Unspecified | ||||||||||||||||||||
| Subjects: | no entry | ||||||||||||||||||||
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| Refereed: | Yes | ||||||||||||||||||||
| URI: | http://kups.ub.uni-koeln.de/id/eprint/28777 |
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