Towards understanding how molecular networks evolve in plants

scientific article published on January 24, 2012

Towards understanding how molecular networks evolve in plants is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1016/J.PBI.2012.01.006
P953full work available at URLhttps://api.elsevier.com/content/article/PII:S1369526612000076?httpAccept=text/plain
https://api.elsevier.com/content/article/PII:S1369526612000076?httpAccept=text/xml
P698PubMed publication ID22280840
P5875ResearchGate publication ID221780696

P50authorInsuk LeeQ89945303
P2093author name stringJunha Shin
Lee Chae
Seung Yon Rhee
P2860cites workWhy do hubs in the yeast protein interaction network tend to be essential: reexamining the connection between the network topology and essentialityQ21092571
Q&A: epistasisQ21146762
Scale-free networks in cell biologyQ22306161
A metabolic network in the evolutionary context: multiscale structure and modularityQ24548560
EvolvabilityQ24595167
Escalating model sizes and complexities call for standardized forms of representationQ25255817
Network biology: understanding the cell's functional organizationQ27861027
Evolutionary plasticity and innovations in complex metabolic reaction networksQ28472194
Cohesive versus flexible evolution of functional modules in eukaryotesQ28474526
Genes encoding hub and bottleneck enzymes of the Arabidopsis metabolic network preferentially retain homeologs through whole genome duplicationQ28751745
The gene balance hypothesis: implications for gene regulation, quantitative traits and evolutionQ28752488
A framework for evolutionary systems biologyQ28754894
Nonrandom divergence of gene expression following gene and genome duplications in the flowering plant Arabidopsis thalianaQ28768184
Functional annotation of the Arabidopsis genome using controlled vocabulariesQ28770139
Lethality and centrality in protein networksQ29547267
Network medicine: a network-based approach to human diseaseQ29547462
Reconstruction of biochemical networks in microorganismsQ29616018
Evolutionary rate in the protein interaction networkQ29617048
Ancestral polyploidy in seed plants and angiospermsQ29617362
Identification and analysis of evolutionarily cohesive functional modules in protein networksQ30002330
Gene coexpression network analysis as a source of functional annotation for rice genesQ31027057
Metabolic functions of duplicate genes in Saccharomyces cerevisiaeQ33224556
Evolutionary systems biology: links between gene evolution and functionQ33256931
Evidence of interaction network evolution by whole-genome duplications: a case study in MADS-box proteinsQ33266895
Specificity and evolvability in eukaryotic protein interaction networksQ33274191
Molecular and cellular approaches for the detection of protein-protein interactions: latest techniques and current limitationsQ33319506
Protein complex evolution does not involve extensive network rewiring.Q33361269
Age-dependent evolution of the yeast protein interaction network suggests a limited role of gene duplication and divergenceQ33388239
How to identify essential genes from molecular networks?Q33509914
Genotype networks in metabolic reaction spacesQ33543376
Network analysis identifies ELF3 as a QTL for the shade avoidance response in ArabidopsisQ33691465
Measuring the evolutionary rewiring of biological networksQ33799118
Rational association of genes with traits using a genome-scale gene network for Arabidopsis thalianaQ33801141
Evolution of enzymes in metabolism: a network perspective.Q33959976
Combining genome-wide association mapping and transcriptional networks to identify novel genes controlling glucosinolates in Arabidopsis thalianaQ33998688
AGRIS: the Arabidopsis Gene Regulatory Information Server, an update.Q34456259
Modeling and simulation of genetic regulatory systems: a literature reviewQ34575847
Empirical fitness landscapes reveal accessible evolutionary pathsQ34606034
The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coliQ34785166
Genome evolution reveals biochemical networks and functional modulesQ34787866
Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotesQ34860078
Genome-wide network model capturing seed germination reveals coordinated regulation of plant cellular phase transitionsQ35035044
Genetic dissection of the biotic stress response using a genome-scale gene network for rice.Q35546770
Integrating Rare-Variant Testing, Function Prediction, and Gene Network in Composite Resequencing-Based Genome-Wide Association Studies (CR-GWAS).Q35746734
An Arabidopsis gene network based on the graphical Gaussian model.Q36098278
Exploring genetic interactions and networks with yeastQ36825599
Getting to grips with the plant metabolic networkQ37025984
Evolutionary rates and centrality in the yeast gene regulatory networkQ37208711
The origin and evolution of modern metabolismQ37267977
Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast.Q37365634
Bias in plant gene content following different sorts of duplication: tandem, whole-genome, segmental, or by transpositionQ37539972
Evolution of biomolecular networks: lessons from metabolic and protein interactionsQ37620156
Redundancy and rewiring of genetic networks following genome-wide duplication eventsQ37981369
Independently evolved virulence effectors converge onto hubs in a plant immune system networkQ38367812
Evidence for Network Evolution in an Arabidopsis Interactome MapQ38367823
Creation of a genome-wide metabolic pathway database for Populus trichocarpa using a new approach for reconstruction and curation of metabolic pathways for plantsQ38429319
PlaNet: combined sequence and expression comparisons across plant networks derived from seven speciesQ38502841
Global landscape of a co-expressed gene network in barley and its application to gene discovery in Triticeae cropsQ38502849
Quantifying modularity in the evolution of biomolecular systemsQ40622623
Integrated functional networks of process, tissue, and developmental stage specific interactions in Arabidopsis thalianaQ41985204
Influence of metabolic network structure and function on enzyme evolutionQ42235124
A network perspective on the evolution of metabolism by gene duplication.Q42613163
A stele-enriched gene regulatory network in the Arabidopsis rootQ42652266
The association of multiple interacting genes with specific phenotypes in rice using gene coexpression networksQ42953371
Molecular evolution in large genetic networks: does connectivity equal constraint?Q43791663
Metabolic adaptation after whole genome duplication.Q45922745
A single determinant dominates the rate of yeast protein evolutionQ46525702
Factors that Contribute to Variation in Evolutionary Rate among Arabidopsis GenesQ46624358
Cell identity mediates the response of Arabidopsis roots to abiotic stress.Q46626793
Metabolic network analysis of the causes and evolution of enzyme dispensability in yeastQ47363112
A high-resolution root spatiotemporal map reveals dominant expression patterns.Q50659214
Gene essentiality, gene duplicability and protein connectivity in human and mouseQ51708452
The yeast protein interaction network evolves rapidly and contains few redundant duplicate genesQ74071558
P433issue2
P407language of work or nameEnglishQ1860
P304page(s)177-184
P577publication date2012-01-24
P1433published inCurrent Opinion in Plant BiologyQ15756095
P1476titleTowards understanding how molecular networks evolve in plants
P478volume15

Reverse relations

cites work (P2860)
Q34375005A computational platform to maintain and migrate manual functional annotations for BioCyc databases
Q35093208A systems biology approach toward understanding seed composition in soybean
Q38447343Analysis of bHLH coding genes using gene co-expression network approach
Q26851316Chemical structure identification in metabolomics: computational modeling of experimental features
Q35954452ChlamyNET: a Chlamydomonas gene co-expression network reveals global properties of the transcriptome and the early setup of key co-expression patterns in the green lineage.
Q34353241Cladodes, leaf-like organs in Asparagus, show the significance of co-option of pre-existing genetic regulatory circuit for morphological diversity of plants
Q34624675Coupling deep transcriptome analysis with untargeted metabolic profiling in Ophiorrhiza pumila to further the understanding of the biosynthesis of the anti-cancer alkaloid camptothecin and anthraquinones
Q34611440De Novo transcriptome assembly (NGS) of Curcuma longa L. rhizome reveals novel transcripts related to anticancer and antimalarial terpenoids
Q27307135FragariaCyc: A Metabolic Pathway Database for Woodland Strawberry Fragaria vesca
Q46613613Gene Duplicability of Core Genes Is Highly Consistent across All Angiosperms.
Q38540598Global Metabolic Profiling of Arabidopsis Polyamine Oxidase 4 (AtPAO4) Loss-of-Function Mutants Exhibiting Delayed Dark-Induced Senescence.
Q56038576Identification of primary and secondary metabolites with phosphorus status-dependent abundance inArabidopsis, and of the transcription factor PHR1 as a major regulator of metabolic changes during phosphorus limitation
Q28661732In silico enzymatic synthesis of a 400,000 compound biochemical database for nontargeted metabolomics
Q89736341Jasmonic Acid, Not Salicyclic Acid Restricts Endophytic Root Colonization of Rice
Q34272835Key Hub and Bottleneck Genes Differentiate the Macrophage Response to Virulent and Attenuated Mycobacterium bovis
Q87914605MiRNAting control of DNA methylation
Q89206108Network Modeling Unravels Mechanisms of Crosstalk between Ethylene and Salicylate Signaling in Potato
Q37508331Pan- and core- network analysis of co-expression genes in a model plant.
Q31149682Pathway Analysis and Omics Data Visualization Using Pathway Genome Databases: FragariaCyc, a Case Study
Q42265701Polyploidy and the evolution of complex traits
Q37661841The Genome Database for Rosaceae (GDR): year 10 update
Q39166513The Transcription Factor ATHB5 Affects GA-Mediated Plasticity in Hypocotyl Cell Growth during Seed Germination.
Q58107320Topological assessment of metabolic networks reveals evolutionary information
Q36817906Transcriptional regulatory networks in Arabidopsis thaliana during single and combined stresses.
Q30377949Unraveling the complexity of transcriptomic, metabolomic and quality environmental response of tomato fruit.
Q30606414VitisCyc: a metabolic pathway knowledgebase for grapevine (Vitis vinifera).

Search more.