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Results 1 - 10
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930
Metabolic stability and epigenesis in randomly connected nets
- Journal of Theoretical Biology
, 1969
"... “The world is either the effect of cause or chance. If the latter, it is a world for all that, that is to say, it is a regular and beautiful structure.” Marcus Aurelius Proto-organisms probably were randomly aggregated nets of chemical reactions. The hypothesis that contemporary organisms are also r ..."
Abstract
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Cited by 657 (5 self)
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randomly constructed molecular automata is examined by modeling the gene as a binary (on-off) device and studying the behavior of large, randomly con-structed nets of these binary “genes”. The results suggest that, if each “gene ” is directly affected by two or three other “genes”, then such random nets
Classification with binary gene expressions
, 2009
"... Microarray gene expression measurements are reported, used and archived usually to high numerical precision. However, properties of mRNA molecules, such as their low stability and availability in small copy numbers, and the fact that measurements correspond to a population of cells, rather than a si ..."
Abstract
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Cited by 1 (1 self)
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Microarray gene expression measurements are reported, used and archived usually to high numerical precision. However, properties of mRNA molecules, such as their low stability and availability in small copy numbers, and the fact that measurements correspond to a population of cells, rather than a
Reconciliation with Non-binary Gene Trees Revisited
"... By reconciling the phylogenetic tree of a gene family with the corresponding species tree, it is possible to infer lineage-specic duplications and losses with high condence and hence annotate orthologs and paralogs. However, the currently available reconciliation methods for non-binary gene trees ar ..."
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By reconciling the phylogenetic tree of a gene family with the corresponding species tree, it is possible to infer lineage-specic duplications and losses with high condence and hence annotate orthologs and paralogs. However, the currently available reconciliation methods for non-binary gene trees
From recombination of genes to the estimation of distributions I. binary parameters
, 1996
"... The Breeder Genetic Algorithm (BGA) is based on the equation for the response to selection. In order to use this equation for prediction, the variance of the fitness of the population has to be estimated. For the usual sexual recombination the computation can be difficult. In this paper we shortly ..."
Abstract
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Cited by 312 (9 self)
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shortly state the problem and investigate several modifications of sexual recombination. The first method is gene pool recombination, which leads to marginal distribution algorithms. In the last part of the paper we discuss more sophisticated methods, based on estimating the distribution of promising
Model Selection Through Sparse Maximum Likelihood Estimation for Multivariate Gaussian or Binary Data
- JOURNAL OF MACHINE LEARNING RESEARCH
, 2008
"... We consider the problem of estimating the parameters of a Gaussian or binary distribution in such a way that the resulting undirected graphical model is sparse. Our approach is to solve a maximum likelihood problem with an added ℓ1-norm penalty term. The problem as formulated is convex but the memor ..."
Abstract
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Cited by 334 (2 self)
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and Jordan, 2006), we show that these same algorithms can be used to solve an approximate sparse maximum likelihood problem for the binary case. We test our algorithms on synthetic data, as well as on gene expression and senate voting records data.
Reveal, A General Reverse Engineering Algorithm For Inference Of Genetic Network Architectures
, 1998
"... Given the immanent gene expression mapping covering whole genomes during development, health and disease, we seek computational methods to maximize functional inference from such large data sets. Is it possible, in principle, to completely infer a complex regulatory network architecture from input/o ..."
Abstract
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Cited by 344 (5 self)
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/output patterns of its variables? We investigated this possibility using binary models of genetic networks. Trajectories, or state transition tables of Boolean nets, resemble time series of gene expression. By systematically analyzing the mutual information between input states and output states, one is able
A Bayesian Kernel for the Prediction of Neuron Properties from Binary Gene
, 2005
"... Predicting cellular properties from molecular or genetic data is a challenge for bioinformatics and machine learning. In brain slices of neuronal tissue, it has become possible to both measure electro-physiological properties of a given neuron and to extract a sample of its cytoplasm so that express ..."
Abstract
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Cited by 1 (0 self)
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that expressed genes can be amplified. Thus, the presence or absence of genes related to ion channels in the neuronal cell membrane can be correlated with neuronal behavior encoded as a set of electro-physiological parameters. A typical gene amplification process is asymmetric in the sense that false positives
Binary Gene Targets Derived from Comparative Genome Hybridization Studies �
, 2006
"... These include: This article cites 52 articles, 34 of which can be accessed free at: ..."
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These include: This article cites 52 articles, 34 of which can be accessed free at:
Binary gene induction and protein expression in individual cells. Theor Biol Med Model
"... Background: Eukaryotic gene transcription is believed to occur in either a binary or a graded fashion. With binary induction, a transcription activator (TA) regulates the probability with which a gene template is switched from the inactive to the active state without affecting the rate at which RNA ..."
Abstract
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Cited by 9 (1 self)
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Background: Eukaryotic gene transcription is believed to occur in either a binary or a graded fashion. With binary induction, a transcription activator (TA) regulates the probability with which a gene template is switched from the inactive to the active state without affecting the rate at which RNA
Results 1 - 10
of
930
