Network-based filtering of unreliable markers in genome mapping

Proceedings - 10th International Conference on Machine Learning and Applications, ICMLA 2011

Volumn 1, Issue , 2011, Pages 19-24

  Al Azzam, Omar ^a   Alnemer, Loai ^a   Chitraranjan, Charith ^a   Denton, Anne M ^a   Kumar, Ajay ^b   Bassi, Filippo ^b   Iqbal, Muhammad J ^b   Kianian, Shahryar F ^b  

^a North Dakota State University   (United States)

^b NORTH DAKOTA STATE UNIVERSITY   (United States)

Author keywords

LOD score; neighborhood matrix; similarity network; unreliable marker

Indexed keywords

CONVENTIONAL APPROACH; DNA MARKERS; EXPERIMENTAL DETERMINATION; GENOME MAPPING; GENOME SEQUENCING; LOD SCORE; NETWORK-BASED; NETWORK-BASED APPROACH; RADIATION HYBRIDS; RESAMPLING; SIMILARITY NETWORK; TRADITIONAL TECHNIQUES; UNRELIABLE MARKER;

GENES; LEARNING SYSTEMS;

MAPPING;

EID: 84863242747     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/ICMLA.2011.103     Document Type: Conference Paper

References (14)

1. S. de Givry, M. Bouchez, P. Chabrier, D. Milan, and T. Schiex. Carthagene: multipopulation integrated genetic and radiation hybrid mapping. Genome analysis, 21 no. 8:1703-1704, 2005.
2. J. Ellson, E. Gansner, L. Koutsofios, S. North, G. Woodhull, S. Description, and L. Technologies. Graphviz open source graph drawing tools. In Lecture Notes in Computer Science, pages 483-484. Springer-Verlag, 2001.
3. P. I. Good. Resampling methods: a practical guide to data analysis. Birkhduser, 2 edition, 2001.
4. S. J. Goss and H. Harris. New method for mapping genes in human chromosomes. Nature, 255, 1975.
5. V. Kalavacharla, K. Hossain, Y. Gu, O. Riera-Lizarazu, M. I. Vales, S. Bhamidimarri, J. L. Gonzalez-Hernandez, S. S. Maan, and S. F. Kianian. High-resolution radiation hybrid map of wheat chromosome 1d. Genetics Society of America, 173:1089-1099, 2006. (Pubitemid 43945921)
6. V. Kalavacharla, K. Hossain, O. Riera-Lizarazu, Y. Gu, S. S. Maan, and S. F. Kianian. Advances In Agronomy, volume 102, pages 201-222. Elsevier Inc., 2009.
7. R. G. Kynast, R. J. Okagaki, M. W. Galatowitsch, S. R. Granath, M. S. Jacobs, A. O. Stec, H. W. Rines, and R. L. Phillips. Dissecting the maize genome by using chromosome addition and radiation hybrid lines. PNAS, 101 no. 26:99219926, 2004.
8. L. C. McCarthy, J. Terrett, and M. E. Davis. A first- generation whole genome-radiation hybrid map spanning the mouse?genome. Genome Research, 7:1153-1161, 1997. (Pubitemid 28043844)
9. D. I. Mester, Y. I. Ronin, M. A. Korostishevsky, V. L. Pikus, A. E. Glazman, and A. B. Korol. Multilocus consensus genetic maps (mcgm): Formulation, algorithms, and results. Computational Biology and Chemistry, 30(1):12-20, 2006.
10. D. I. Mester, Y. I. Ronin, D. Minkov, E. Nevo, and A. B. Korol. Constructing large-scale genetic maps using an evolutionary strategy algorithm. Genetics Society of America, 165:2269-2282, 2003. (Pubitemid 38040306)
11. D. I. Mester, Y. I. Ronin, y. Hu., J. Peng, E. Nevo, and A. B. Korol. Efficient multipoint mapping: making use of dominant repulsion-phase markers. Theo Appl Genet, 107:1102-1112, 2003.
12. Y. I. Ronin, D. I. Mester, D. Minkov, and A. B. Korol. Building reliable genetic maps: different mapping strategies may result in different maps. Natural Sciences, 2 No.6:576-589, 2010.
13. A. A. Schaffer, E. S. Rice, W. Cook, and R. Agarwala. rh tsp map 3.0: end-to-end radiation hybrid mapping with improved speed and quality control. Genome analysis, 23 no. 9:1156-1158, 2007.
14. M. A. Walter, D. J. Spillett, P. Thomas, J. Weissenbach, and P. N. Goodfellow. A method for constructing radiation hybrid maps of whole genomes. Nature Genetics, 7:22-28, 1994. (Pubitemid 24232375)