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» Models and Methods in Comparative Genomics
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DAM
2008
116views more  DAM 2008»
13 years 11 months ago
Expected number of breakpoints after t random reversals in genomes with duplicate genes
In comparative genomics, one wishes to deduce the evolutionary distance between dierent species by studying their genomes. Using gene order information, we seek the number of time...
Niklas Eriksen
BMCBI
2006
86views more  BMCBI 2006»
13 years 11 months ago
MCALIGN2: Faster, accurate global pairwise alignment of non-coding DNA sequences based on explicit models of indel evolution
Background: Non-coding DNA sequences comprise a very large proportion of the total genomic content of mammals, most other vertebrates, many invertebrates, and most plants. Unravel...
Jun Wang, Peter D. Keightley, Toby Johnson
RECOMB
2007
Springer
14 years 11 months ago
GIMscan: A New Statistical Method for Analyzing Whole-Genome Array CGH Data
Genetic instability represents an important type of biological markers for cancer and many other diseases. Array Comparative Genome Hybridization (aCGH) is a high-throughput cytoge...
Yanxin Shi, Fan Guo, Wei Wu, Eric P. Xing
BMCBI
2010
91views more  BMCBI 2010»
13 years 11 months ago
Coverage statistics for sequence census methods
We study the shape of coverage functions resulting from the sequencing of random genome fragments, and show that they can be described by Galton-Watson trees. This extends standar...
Steven N. Evans, Valerie Hower, Lior Pachter
BMCBI
2011
13 years 2 months ago
Improving pan-genome annotation using whole genome multiple alignment
Background: Rapid annotation and comparisons of genomes from multiple isolates (pan-genomes) is becoming commonplace due to advances in sequencing technology. Genome annotations c...
Samuel V. Angiuoli, Julie C. Dunning Hotopp, Steve...