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BMCBI
2005
189views more  BMCBI 2005»
9 years 11 months ago
Quantitative inference of dynamic regulatory pathways via microarray data
Background: The cellular signaling pathway (network) is one of the main topics of organismic investigations. The intracellular interactions between genes in a signaling pathway ar...
Wen-Chieh Chang, Chang-Wei Li, Bor-Sen Chen
BMCBI
2005
130views more  BMCBI 2005»
9 years 11 months ago
Some statistical properties of regulatory DNA sequences, and their use in predicting regulatory regions in the Drosophila genome
Background: This paper addresses the problem of recognising DNA cis-regulatory modules which are located far from genes. Experimental procedures for this are slow and costly, and ...
Irina I. Abnizova, Rene te Boekhorst, Klaudia Walt...
BMCBI
2007
105views more  BMCBI 2007»
9 years 11 months ago
Finding regulatory elements and regulatory motifs: a general probabilistic framework
Over the last two decades a large number of algorithms has been developed for regulatory motif finding. Here we show how many of these algorithms, especially those that model bind...
Erik van Nimwegen
BIOINFORMATICS
2006
124views more  BIOINFORMATICS 2006»
9 years 11 months ago
Probabilistic inference of transcription factor concentrations and gene-specific regulatory activities
Motivation Quantitative estimation of the regulatory relationship between transcription factors and genes is a fundamental stepping stone when trying to develop models of cellular...
Guido Sanguinetti, Neil D. Lawrence, Magnus Rattra...
BMCBI
2010
100views more  BMCBI 2010»
9 years 11 months ago
Trimming of mammalian transcriptional networks using network component analysis
Background: Network Component Analysis (NCA) has been used to deduce the activities of transcription factors (TFs) from gene expression data and the TF-gene binding relationship. ...
Linh M. Tran, Daniel R. Hyduke, James C. Liao
HAIS
2008
Springer
10 years 23 days ago
Clustering Likelihood Curves: Finding Deviations from Single Clusters
For systematic analyses of quantitative mass spectrometry data a method was developed in order to reveal peptides within a protein, that show differences in comparison with the rem...
Claudia Hundertmark, Frank Klawonn
GECCO
1999
Springer
130views Optimization» more  GECCO 1999»
10 years 4 months ago
Heterochrony and Adaptation in Developing Neural Networks
This paper discusses the simulation results of a model of biological development for neural networks based on a regulatory genome. The model’s results are analyzed using the fra...
Angelo Cangelosi
GCB
2005
Springer
138views Biometrics» more  GCB 2005»
10 years 5 months ago
Inferring Regulatory Systems with Noisy Pathway Information
: With increasing number of pathways available in public databases, the process of inferring gene regulatory networks becomes more and more feasible. The major problem of most of t...
Christian Spieth, Felix Streichert, Nora Speer, An...
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