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» A Generalization of Automatic Sequences
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CGO
2006
IEEE
16 years 29 days ago
Exhaustive Optimization Phase Order Space Exploration
The phase-ordering problem is a long standing issue for compiler writers. Most optimizing compilers typically have numerous different code-improving phases, many of which can be a...
Prasad Kulkarni, David B. Whalley, Gary S. Tyson, ...
BMCBI
2007
152views more  BMCBI 2007»
15 years 7 months ago
A cross-species alignment tool (CAT)
Background: The main two sorts of automatic gene annotation frameworks are ab initio and alignment-based, the latter splitting into two sub-groups. The first group is used for int...
Heng Li, Liang Guan, Tao Liu, Yiran Guo, Wei-Mou Z...
BMCBI
2008
145views more  BMCBI 2008»
15 years 7 months ago
The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction
Background: Amino acids responsible for structure, core function or specificity may be inferred from multiple protein sequence alignments where a limited set of residue types are ...
Jonathan R. Manning, Emily R. Jefferson, Geoffrey ...
BMCBI
2006
107views more  BMCBI 2006»
15 years 7 months ago
Simplifying gene trees for easier comprehension
Background: In the genomic age, gene trees may contain large amounts of data making them hard to read and understand. Therefore, an automated simplification is important. Results:...
Paul-Ludwig Lott, Marvin Mundry, Christoph Sassenb...
NAR
2006
83views more  NAR 2006»
15 years 6 months ago
KOBAS server: a web-based platform for automated annotation and pathway identification
There is an increasing need to automatically annotate a set of genes or proteins (from genome sequencing, DNA microarray analysis or protein 2D gel experiments) using controlled v...
Jianmin Wu, Xizeng Mao, Tao Cai, Jingchu Luo, Lipi...