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» Detecting Motifs from Sequences
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EVOW
2010
Springer
14 years 8 months ago
Finding Gapped Motifs by a Novel Evolutionary Algorithm
Background: Identifying approximately repeated patterns, or motifs, in DNA sequences from a set of co-regulated genes is an important step towards deciphering the complex gene reg...
Chengwei Lei, Jianhua Ruan
RECOMB
2008
Springer
15 years 10 months ago
A Fast, Alignment-Free, Conservation-Based Method for Transcription Factor Binding Site Discovery
As an increasing number of eukaryotic genomes are being sequenced, comparative studies aimed at detecting regulatory elements in intergenic sequences are becoming more prevalent. M...
Raluca Gordân, Leelavati Narlikar, Alexander...
JCB
2008
159views more  JCB 2008»
14 years 9 months ago
BayesMD: Flexible Biological Modeling for Motif Discovery
We present BayesMD, a Bayesian Motif Discovery model with several new features. Three different types of biological a priori knowledge are built into the framework in a modular fa...
Man-Hung Eric Tang, Anders Krogh, Ole Winther
BMCBI
2010
123views more  BMCBI 2010»
14 years 4 months ago
Predicting conserved protein motifs with Sub-HMMs
Background: Profile HMMs (hidden Markov models) provide effective methods for modeling the conserved regions of protein families. A limitation of the resulting domain models is th...
Kevin Horan, Christian R. Shelton, Thomas Girke
IV
2005
IEEE
68views Visualization» more  IV 2005»
15 years 3 months ago
Visualisation and Analysis of Network Motifs
Many of the complex networks that occur both in nature and in technology are built up from frequently recurring patterns of basic structural elements. These structural patterns kn...
Weidong Huang, Colin Murray, Xiaobin Shen, Le Song...