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» Computing persistent homology
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BMCBI
2008
164views more  BMCBI 2008»
14 years 9 months ago
Word correlation matrices for protein sequence analysis and remote homology detection
Background: Classification of protein sequences is a central problem in computational biology. Currently, among computational methods discriminative kernel-based approaches provid...
Thomas Lingner, Peter Meinicke
IJRR
2006
145views more  IJRR 2006»
14 years 9 months ago
Coordinate-free Coverage in Sensor Networks with Controlled Boundaries via Homology
ABSTRACT. We introduce tools from computational homology to verify coverage in an idealized sensor network. Our methods are unique in that, while they are coordinate-free and assum...
V. de Silva, R. Ghrist
RECOMB
2006
Springer
15 years 10 months ago
Inferring Positional Homologs with Common Intervals of Sequences
Inferring orthologous and paralogous genes is an important problem in whole genomes comparisons, both for functional or evolutionary studies. In this paper, we introduce a new appr...
Guillaume Blin, Annie Chateau, Cedric Chauve, Yann...
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DCG
2008
104views more  DCG 2008»
14 years 9 months ago
Finding the Homology of Submanifolds with High Confidence from Random Samples
Recently there has been a lot of interest in geometrically motivated approaches to data analysis in high dimensional spaces. We consider the case where data is drawn from sampling...
Partha Niyogi, Stephen Smale, Shmuel Weinberger
ICPADS
2005
IEEE
15 years 3 months ago
Exploiting Multi-level Parallelism for Homology Search using General Purpose Processors
New biological experimental techniques are continuing to generate large amounts of data using DNA, RNA, human genome and protein sequences. The quantity and quality of data from t...
Xiandong Meng, Vipin Chaudhary