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» Joint base-calling of two DNA sequences with factor graphs
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ICASSP
2008
IEEE
13 years 11 months ago
Joint base-calling of two DNA sequences with factor graphs
—Automated estimation of DNA base-sequences is an important step in genomics and in many other emerging fields in biological and medical sciences. Current automated sequencers p...
Xiaomeng Shi, Desmond S. Lun, Jim Meldrim, Ralf K&...
BIBM
2008
IEEE
175views Bioinformatics» more  BIBM 2008»
13 years 11 months ago
Integrative Protein Function Transfer Using Factor Graphs and Heterogeneous Data Sources
We propose a novel approach for predicting protein functions of an organism by coupling sequence homology and PPI data between two (or more) species with multifunctional Gene Onto...
Antonina Mitrofanova, Vladimir Pavlovic, Bud Mishr...
BMCBI
2005
147views more  BMCBI 2005»
13 years 4 months ago
GATA: a graphic alignment tool for comparative sequence analysis
Background: Several problems exist with current methods used to align DNA sequences for comparative sequence analysis. Most dynamic programming algorithms assume that conserved se...
David A. Nix, Michael B. Eisen
EMNLP
2010
13 years 2 months ago
Joint Training and Decoding Using Virtual Nodes for Cascaded Segmentation and Tagging Tasks
Many sequence labeling tasks in NLP require solving a cascade of segmentation and tagging subtasks, such as Chinese POS tagging, named entity recognition, and so on. Traditional p...
Xian Qian, Qi Zhang, Yaqian Zhou, Xuanjing Huang, ...
BCB
2010
156views Bioinformatics» more  BCB 2010»
12 years 12 months ago
RepFrag: a graph based method for finding repeats and transposons from fragmented genomes
Growing sequencing and assembly efforts have been met by the advances in high throughput machines. However, the presence of massive amounts of repeats and transposons complicates ...
Nirmalya Bandyopadhyay, A. Mark Settles, Tamer Kah...