Spatiotemporal network motif reveals the biological traits of developmental gene regulatory networks in Drosophila melanogaster

[1]  Gregory T. Reeves,et al.  Dorsal-ventral gene expression in the Drosophila embryo reflects the dynamics and precision of the dorsal nuclear gradient. , 2012, Developmental cell.

[2]  E. Davidson,et al.  Precise cis-regulatory control of spatial and temporal expression of the alx-1 gene in the skeletogenic lineage of s. purpuratus. , 2011, Developmental biology.

[3]  J. Cotterell,et al.  An atlas of gene regulatory networks reveals multiple three-gene mechanisms for interpreting morphogen gradients , 2010, Molecular systems biology.

[4]  Kwang-Hyun Cho,et al.  Dynamic network rewiring determines temporal regulatory functions in Drosophila melanogaster development processes , 2010, BioEssays : news and reviews in molecular, cellular and developmental biology.

[5]  S. Thor,et al.  Segment-Specific Neuronal Subtype Specification by the Integration of Anteroposterior and Temporal Cues , 2010, PLoS biology.

[6]  Sarah A Teichmann,et al.  The developmental expression dynamics of Drosophila melanogaster transcription factors , 2010, Genome Biology.

[7]  Dmitri A. Papatsenko Stripe formation in the early fly embryo: principles, models, and networks , 2009, Bioessays.

[8]  Kunihiko Kaneko,et al.  Robustness under Functional Constraint: The Genetic Network for Temporal Expression in Drosophila Neurogenesis , 2009, PLoS Comput. Biol..

[9]  Kwang-Hyun Cho,et al.  Hub genes with positive feedbacks function as master switches in developmental gene regulatory networks , 2009, Bioinform..

[10]  C. Peterson,et al.  Stem cell states, fates, and the rules of attraction. , 2009, Cell stem cell.

[11]  Sui Huang Reprogramming cell fates: reconciling rarity with robustness , 2009, BioEssays : news and reviews in molecular, cellular and developmental biology.

[12]  David H. Sharp,et al.  Canalization of Gene Expression in the Drosophila Blastoderm by Gap Gene Cross Regulation , 2009, PLoS biology.

[13]  David H. Sharp,et al.  Canalization of Gene Expression and Domain Shifts in the Drosophila Blastoderm by Dynamical Attractors , 2009, PLoS Comput. Biol..

[14]  Eric H Davidson,et al.  Properties of developmental gene regulatory networks , 2008, Proceedings of the National Academy of Sciences.

[15]  Chris Mungall,et al.  AmiGO: online access to ontology and annotation data , 2008, Bioinform..

[16]  David Osumi-Sutherland,et al.  FlyBase: enhancing Drosophila Gene Ontology annotations , 2008, Nucleic Acids Res..

[17]  Peter Bühlmann,et al.  Annotating novel genes by integrating synthetic lethals and genomic information , 2008, BMC Systems Biology.

[18]  Eric H Davidson,et al.  A Gene Regulatory Network Subcircuit Drives a Dynamic Pattern of Gene Expression , 2007, Science.

[19]  G. Rubin,et al.  Global analysis of patterns of gene expression during Drosophila embryogenesis , 2007, Genome Biology.

[20]  Lee Soon-Bok,et al.  Korea Advanced Institute of Science and Technology (KAIST) Computer Aided Reliability Evaluation Laboratory (CARE Lab.) , 2006 .

[21]  Uri Alon,et al.  An Introduction to Systems Biology , 2006 .

[22]  J. Stark,et al.  Network motifs: structure does not determine function , 2006, BMC Genomics.

[23]  Alexander E. Kel,et al.  TRANSFAC® and its module TRANSCompel®: transcriptional gene regulation in eukaryotes , 2005, Nucleic Acids Res..

[24]  J. Ferrell,et al.  Interlinked Fast and Slow Positive Feedback Loops Drive Reliable Cell Decisions , 2005, Science.

[25]  Andre Levchenko,et al.  Dynamic Properties of Network Motifs Contribute to Biological Network Organization , 2005, PLoS biology.

[26]  Falk Schreiber,et al.  MAVisto: a tool for the exploration of network motifs , 2005, Bioinform..

[27]  S. Crews,et al.  Gene expression profiling of the developing Drosophila CNS midline cells. , 2004, Developmental biology.

[28]  David H. Sharp,et al.  Dynamical Analysis of Regulatory Interactions in the Gap Gene System of Drosophila melanogaster , 2004, Genetics.

[29]  L. Hood,et al.  Calculating biological behaviors of epigenetic states in the phage λ life cycle , 2004, Functional & Integrative Genomics.

[30]  E. Davidson,et al.  Developmental gene regulatory network architecture across 500 million years of echinoderm evolution , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[31]  Q. Ouyang,et al.  The yeast cell-cycle network is robustly designed. , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[32]  S. Mangan,et al.  Structure and function of the feed-forward loop network motif , 2003, Proceedings of the National Academy of Sciences of the United States of America.

[33]  Denis Thieffry,et al.  Segmenting the fly embryo: a logical analysis of the pair-rule cross-regulatory module. , 2003, Journal of theoretical biology.

[34]  H. Jäckle,et al.  FlyMove--a new way to look at development of Drosophila. , 2003, Trends in genetics : TIG.

[35]  Katherine C. Chen,et al.  Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell. , 2003, Current opinion in cell biology.

[36]  M. Ashburner,et al.  Systematic determination of patterns of gene expression during Drosophila embryogenesis , 2002, Genome Biology.

[37]  S. Shen-Orr,et al.  Network motifs: simple building blocks of complex networks. , 2002, Science.

[38]  B. S. Baker,et al.  Gene Expression During the Life Cycle of Drosophila melanogaster , 2002, Science.

[39]  D. Thieffry,et al.  A logical analysis of the Drosophila gap-gene system. , 2001, Journal of theoretical biology.

[40]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[41]  J. Posakony,et al.  Posterior stripe expression of hunchback is driven from two promoters by a common enhancer element. , 1995, Development.

[42]  H. Jäckle,et al.  Control and function of terminal gap gene activity in the posterior pole region of the Drosophila embryo , 1991, Mechanisms of Development.

[43]  Detlef Weigel,et al.  Regulation of Krüppel expression in the anlage of the Malpighian tubules in the Drosophila embryo , 1990, Mechanisms of Development.

[44]  M. Leptin,et al.  Cell shape changes during gastrulation in Drosophila. , 1990, Development.

[45]  M Hoch,et al.  cis‐acting control elements for Krüppel expression in the Drosophila embryo. , 1990, The EMBO journal.

[46]  Edmund T. Rolls,et al.  Cortical Attractor Network Dynamics with Diluted Connectivity , 2011 .

[47]  L. Hood,et al.  Calculating biological behaviors of epigenetic states in the phage lambda life cycle. , 2004, Functional & integrative genomics.

[48]  S. Shen-Orr,et al.  Milo , Networks Network Motifs : Simple Building Blocks of Complex , 2002 .