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» ProtEST: protein multiple sequence alignments from expressed...
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BMCBI
2005
108views more  BMCBI 2005»
13 years 7 months ago
SplitTester: software to identify domains responsible for functional divergence in protein family
Background: Many protein families have undergone functional divergence after gene duplications such that current subgroups of the family carry out overlapping but distinct biologi...
Xiang Gao, Kent Vander Velden, Daniel F. Voytas, X...
BMCBI
2006
117views more  BMCBI 2006»
13 years 7 months ago
Gene Designer: a synthetic biology tool for constructing artificial DNA segments
Background: Direct synthesis of genes is rapidly becoming the most efficient way to make functional genetic constructs and enables applications such as codon optimization, RNAi re...
Alan Villalobos, Jon E. Ness, Claes Gustafsson, Je...
ALMOB
2006
155views more  ALMOB 2006»
13 years 7 months ago
A phylogenetic generalized hidden Markov model for predicting alternatively spliced exons
Background: An important challenge in eukaryotic gene prediction is accurate identification of alternatively spliced exons. Functional transcripts can go undetected in gene expres...
Jonathan E. Allen, Steven L. Salzberg
BMCBI
2006
99views more  BMCBI 2006»
13 years 7 months ago
MAGIC-SPP: a database-driven DNA sequence processing package with associated management tools
Background: Processing raw DNA sequence data is an especially challenging task for relatively small laboratories and core facilities that produce as many as 5000 or more DNA seque...
Chun Liang, Feng Sun, Haiming Wang, Junfeng Qu, Ro...
BMCBI
2007
147views more  BMCBI 2007»
13 years 7 months ago
Statistical analysis and significance testing of serial analysis of gene expression data using a Poisson mixture model
Background: Serial analysis of gene expression (SAGE) is used to obtain quantitative snapshots of the transcriptome. These profiles are count-based and are assumed to follow a Bin...
Scott D. Zuyderduyn