(Enter summary)
Abstract: this paper is the Boolean formalism as a building block for modeling
complex, large-scale, and dynamical networks of genetic interactions.
We discuss the goals of modeling genetic networks as
well as the data requirements. The Boolean formalism is justified
from several points of view. We then introduce Boolean networks
and discuss their relationships to nonlinear digital filters. The role
of Boolean networks in understanding cell differentiation and cellular
functional states is discussed. The ... (Update)
Cited by: More
A Bayesian connectivity-based approach to constructing .. - Zhou, Wang, Pal.. (2004)
(Correct)
Intervention in context-sensitive probabilistic Boolean.. - Pal, Datta, Bittner.. (2005)
(Correct)
Genomic Signal Processing: Diagnosis and Therapy - Dougherty, Datta (2005)
(Correct)
Similar documents (at the sentence level):
72.4%: From Boolean to Probabilistic Boolean Networks as.. - Shmulevich.. (2002)
(Correct)
7.3%: Probabilistic Boolean networks: a rule-based.. - Shmulevich.. (2002)
(Correct)
Active bibliography (related documents): More All
1.6: Spectral Methods for Testing Membership in Certain.. - Shmulevich..
(Correct)
1.2: Reduction Mappings between Probabilistic Boolean Networks - Ivanov, Dougherty (2004)
(Correct)
1.1: Modelling Gene Regulatory Networks: Systems Biology to Complex.. - Geard (2004)
(Correct)
Similar documents based on text: More All
0.6: Steady-state analysis of genetic regulatory networks modelled .. - Shmulevich, al. (2003)
(Correct)
0.5: External Control in Markovian Genetic Regulatory Networks - Datta, Choudhary, Al. (2003)
(Correct)
0.5: Control Of Stationary Behavior In Probabilistic.. - Shmulevich.. (2002)
(Correct)
Related documents from co-citation: More All
7: External control in Markovian genetic regulatory networks
- Datta, Choudhary et al. - 2003
6: Gene perturbation and intervention in probabilistic Boolean networks
- Shmulevich, Dougherty et al.
6: Probabilistic Boolean networks: a rulebased uncertainty model for gene regulator..
- Shmulevich, Dougherty et al. - 2002
BibTeX entry: (Update)
I. Shmulevich, E. R. Dougherty, and W. Zhang, "From Boolean to probabilistic Boolean networks as models of genetic regulatory networks," Proceedings of the IEEE, vol. 90, no. 11, pp. 1778--1792, 2002. http://citeseer.ist.psu.edu/shmulevich02from.html More
@misc{ shmulevich02from,
author = "I. Shmulevich and E. Dougherty and W. Zhang",
title = "From Boolean to probabilistic Boolean networks as models of genetic regulatory
networks",
text = "I. Shmulevich, E. R. Dougherty, and W. Zhang, From Boolean to probabilistic
Boolean networks as models of genetic regulatory networks, Proceedings of
the IEEE, vol. 90, no. 11, pp. 1778--1792, 2002.",
year = "2002",
url = "citeseer.ist.psu.edu/shmulevich02from.html" }
Citations (may not include all citations):
2138
Genetic Algorithms in Search (context) - Goldberg - 1989
1543
Probabilistic Reasoning in Intelligent Systems: Networks of .. (context) - Pearl - 1997
1291
The Nature of Statistical Learning Theory (context) - Vapnik - 2000
575
Image Analysis and Mathematical Morphology (context) - Serra - 1982
537
A theory of the learnable (context) - Valiant - 1984
519
System Identification: Theory for the User (context) - Ljung - 1999
165
Molecular classification of cancer: Class discovery and clas.. (context) - Golub, Slonim et al. - 1999
144
Computational limitations on learning from examples (context) - Pitt, Valiant - 1988
119
Comprehensive identification of cell cycle-regulated genes o..
- Spellman, Sherlock et al. - 1998
116
Molecular Biology of the Cell (context) - Alberts, Bray et al. - 1983
97
Computational Learning Theory (context) - Anthony, Biggs - 1992
84
Quantitative monitoring of gene expression patterns with a c.. (context) - Schena, Shalon et al. - 1995
76
Toward a general theory of adaptive walks on rugged landscap.. (context) - Kauffman, Levin - 1987
71
Statistical Signal Processing (context) - Scharf - 1991
54
Ratio-based decisions and the quantitative analysis of cDNA ..
- Chen, Dougherty et al. - 1997
49
A methodology for solving Markov models of parallel systems (context) - Plateau, Fourneau - 1991
46
Evolving cellular automata to perform computations: Mechanis.. (context) - Mitchell, Crutchfield et al. - 1994
34
An Introduction to Morphological Image Processing (context) - Dougherty - 1992
31
Tissue classification with gene expression profiles (context) - Ben-Dor, Bruhn et al. - 2000
31
A theoretical analysis of the properties of median filters (context) - Gallagher, Wise - 1981
29
High density synthetic oligonucleotide arrays (context) - Lipshutz, Fodor et al. - 1999
29
Stack filters (context) - Wendt, Coyle et al. - 1986
26
Metabolic stability and epigenesis in randomly constructed g.. (context) - Kauffman - 1969
24
Cause--effect relationships and partially defined Boolean fu.. (context) - Crama, Hammer et al. - 1988
24
Classification and diagnostic prediction of cancers using ge.. (context) - Khan, Wei et al. - 2001
24
Genomic regulation modeled as a network with basins of attra..
- Wuensche - 1998
22
Error-free and best-fit extensions of partially defined Bool..
- Boros, Ibaraki et al. - 1998
20
Identification of genetic networks from a small number of ge..
- Akutsu, Miyano et al. - 1999
19
Multivariate measurement of gene expression relationships
- Kim, Dougherty et al. - 2000
19
Probabilistic Boolean networks: A rule-based uncertainty mod..
- Shmulevich, Dougherty et al. - 2002
19
Modeling and simulation of genetic regulatory systems: A lit.. (context) - de Jong - 2002
16
General nonlinear framework for the analysis of gene interac..
- Kim, Dougherty et al. - 2000
15
Gene perturbation and intervention in probabilistic Boolean ..
- Shmulevich, Dougherty et al. - 2002
15
Identification of gene regulatory networks by strategic gene..
- Akutsu, Kuhara et al. - 1998
14
REVEAL, a general reverse engineering algorithm for inferenc..
- Liang, Fuhrman et al. - 1998
14
Stack filters and the mean absolute error criterion (context) - Coyle, Lin - 1988
14
Median filtering by threshold decomposition (context) - Fitch, Coyle et al. - 1984
14
Computational Modeling of Genetic and Biochemical Networks (context) - Bower, Bolouri - 2001
12
Nonlinear Filters for Image Processing (context) - Dougherty, Astola - 1999
11
Discovery of regulatory interactions through perturbation: I.. (context) - Ideker, Thorsson et al. - 2000
11
Von Neumann's self-reproducing automata (context) - Burks - 1970
10
the period-two-property of the majority operator in infinite.. (context) - Moran - 1995
8
Computational studies of gene regulatory networks: In numero.. (context) - Hasty, McMillen et al. - 2001
8
Optimal stack filtering and the estimation and structural ap.. (context) - Coyle, Lin et al. - 2037
8
Coefficient of determination in nonlinear signal processing
- Dougherty, Kim et al. - 2000
8
Control of stationary behavior in probabilistic Boolean netw..
- Shmulevich, Dougherty et al.
8
The logical analysis of continuous, nonlinear biochemical co.. (context) - Glass, Kauffman - 1973
7
Markov chain sensitivity measured by mean first passage time..
- Cho, Meyer - 2000
7
the use of the MDL principle in gene expression prediction
- Tabus, Astola - 2001
7
Gene expression profiling, genetic networks, and cellular st.. (context) - Huang - 1999
7
Robustness as an evolutionary principle
- Bornholdt, Sneppen - 2000
7
Circuits Syst (context) - existence, the et al. - 1992
7
Genetic control of flower morphogenesis in Arabidopsis thali.. (context) - Mendoza, Thieffry et al. - 1999
6
Programming the Drosophila embryo (context) - Bodnar - 1997
6
Normalized maximum likelihood models for Boolean regression .. (context) - Tabus, Rissanen et al. - 2002
6
Dynamical behavior of biological regulatory networks---I. Bi.. (context) - Thomas, Thieffry et al. - 1995
6
Development of a system for the inference of large scale gen..
- Maki, Tominaga et al. - 2001
6
Binary analysis and optimizationbased normalization of gene ..
- Shmulevich, Zhang - 2002
6
Mathematical modeling of gene networks (context) - Smolen, Baxter et al. - 2000
5
Genomic cis-regulatory logic: Experimental and computational.. (context) - Yuh, Bolouri et al. - 1902
5
Optimal weighted median filtering under structural constrain.. (context) - Yang, Yin et al. - 1995
5
Algorithms for choosing differential gene expression experim..
- Karp, Stoughton et al. - 1999
5
Modeling the normal and neoplastic cell cycle with `realisti.. (context) - Szallasi, Liang - 1998
4
Convergence behavior and root signal sets of stack filters (context) - Gabbouj, P-T et al. - 1992
4
The classification and associative memory capability of stac.. (context) - Yu, Coyle - 1992
4
Gene expression profiling: Monitoring transcription and tran.. (context) - Celis, Kruhffer et al. - 2000
4
New York: Oxford Univ (context) - of, Self-Organization et al. - 1993
4
Modeling the complexity of gene networks: Understanding mult.. (context) - Somogyi, Sniegoski - 1996
4
Root properties and convergence rates of median filters (context) - Fitch, Coyle et al. - 1985
4
Finding genetic network from experiments by weighted network..
- Noda, Shinohara et al. - 1998
4
It's a noisy business! Genetic regulation at the nanomolar s.. (context) - McAdams, Arkin - 1999
3
Convergence behavior and N-roots of stack filters (context) - Yu, Coyle - 1990
3
Sources of variation in microarray experiments (context) - Kerr, Leiter et al. - 2002
3
Genomics, gene expression and DNA arrays (context) - Lockhart, Winzeler - 2000
3
the relationship between genomic regulatory element organiza.. (context) - Wolf, Eeckman - 1998
3
Inference of genetic regulatory networks under the best-fit ..
- Shmulevich, Saarinen et al. - 2002
3
Optimal morphological restoration: The morphological filter .. (context) - Loce, Dougherty - 1992
3
Precision of morphological-representation estimators for tra.. (context) - Dougherty, Loce - 1994
3
Complexity of the consistency problem for certain post class..
- Shmulevich, Gabbouj et al. - 2001
3
Emergence of homeostasis and noise imprinting in an evolutio.. (context) - Stern - 1999
2
NewYork: Oxford Univ (context) - Kauffman, in et al. - 1995
2
Microarrays under the microscope (context) - Wildsmith, Elcock - 2001
2
Genomics, complexity and drug discovery: Insights from Boole.. (context) - Huang - 2001
2
Parallel computation and visualization tools for codetermina.. (context) - Suh, Dougherty et al. - 2002
2
How to reconstruct a large genetic network from n gene pertu.. (context) - Wagner - 2001
2
Evolving two-dimensional cellular automata to perform densit.. (context) - Morales, Crutchfield et al. - 2001
2
New York: Academic (context) - Codd, Automata - 1968
2
Optimal and adaptive design of logical granulometric filters (context) - Dougherty, Chen - 2001
2
Hidden Order: How Adaptation Builds Complexity (context) - Holl - 1995
2
Shape-dependent control of cell growth, differentiation, and.. (context) - Huang, Ingber - 2000
2
Root properties of morphological filters (context) - Wang, Gabbouj et al. - 1993
2
Differential p53 phosphorylation and activation of apoptosis.. (context) - Kobayashi, Ruan et al. - 1998
2
Transcriptional regulation of the p21(WAF1/CIP1) gene (context) - Gartel, Tyner - 1999
2
Regulation of CAK kinase activity by p53 (context) - Schneider, Montenarh et al. - 1998
2
Telomere loss: Mitotic clock or genetic time bomb (context) - Harley - 1991
2
The large scale structure and dynamics of genetic control ci.. (context) - Kauffman - 1974
2
Evaluation, strength, and relevance of variables of Boolean .. (context) - Hammer, Kogan et al. - 2000
http://www.interjournal.org
The graph only includes citing articles where the year of publication is known.
Documents on the same site (http://gsplab.tamu.edu/Publications/Papers.htm): More
Genomic Profiles and Predictive Biological.. - Johnson.. (2003)
(Correct)
Ratio-Based Decisions and the Quantitative Analysis of.. - Chen, Dougherty, Bittner (1997)
(Correct)
Gene Prediction Using Multinomial Probit Regression with.. - Zhou, al. (2004)
(Correct)
Online articles have much greater impact More about CiteSeer.IST Add search form to your site Submit documents Feedback
CiteSeer.IST - Copyright Penn State and NEC