The model organism as a system: integrating 'omics' data sets (Q31032864)

28 June 2017

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title

The model organism as a system: integrating 'omics' data sets (English)

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28 June 2017

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2

Bernhard Ø Palsson

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28 June 2017

Andrew R Joyce

1

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28 June 2017

1 March 2006

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Nature Reviews Molecular Cell Biology

28 June 2017

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28 June 2017

7

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28 June 2017

198-210

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28 June 2017

3

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Whole-genome random sequencing and assembly of Haemophilus influenzae Rd

28 June 2017

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Relationship between gene co-expression and probe localization on microarray slides

31 March 2020

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Data standards for 'omic' science

31 March 2020

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Analyzing yeast protein-protein interaction data obtained from different sources

31 March 2020

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Integrating 'omic' information: a bridge between genomics and systems biology

31 March 2020

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The Genomes On Line Database (GOLD) v.2: a monitor of genome projects worldwide

31 March 2020

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Sequencing and comparison of yeast species to identify genes and regulatory elements

31 March 2020

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Initial sequence of the chimpanzee genome and comparison with the human genome

31 March 2020

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Phylogenomics and the reconstruction of the tree of life

31 March 2020

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Assessing computational tools for the discovery of transcription factor binding sites

31 March 2020

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ORFeome cloning and systems biology: standardized mass production of the parts from the parts-list

31 March 2020

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Microarray platforms--comparisons and contrasts.

31 March 2020

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Tag-based approaches for transcriptome research and genome annotation

31 March 2020

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Unraveling the molecular components and genetic blueprints of stem cells

31 March 2020

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Integrative analysis of the cancer transcriptome

31 March 2020

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Insights into host responses against pathogens from transcriptional profiling.

31 March 2020

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Post-transcriptional control of gene expression: a genome-wide perspective.

31 March 2020

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Proteomics: the first decade and beyond

31 March 2020

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Global analysis of protein expression in yeast

31 March 2020

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Proteomics of organelles and large cellular structures

31 March 2020

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Scoring proteomes with proteotypic peptide probes

31 March 2020

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Metabonomics: its potential as a tool in toxicology for safety assessment and data integration

31 March 2020

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The next wave in metabolome analysis

31 March 2020

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Measuring the metabolome: current analytical technologies

31 March 2020

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Metabolomics, genomics, proteomics, and the identification of enzymes and their substrates and products

31 March 2020

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Human red blood cells targeted metabolome analysis of glycolysis cycle metabolites by capillary electrophoresis using an indirect photometric detection method.

31 March 2020

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Quantitative analysis of the microbial metabolome by isotope dilution mass spectrometry using uniformly 13C-labeled cell extracts as internal standards

31 March 2020

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Tailoring the plant metabolome without a loose stitch.

31 March 2020

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Metabonomics in toxicology: a review

31 March 2020

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All systems go: launching cell simulation fueled by integrated experimental biology data.

31 March 2020

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Global analysis of protein localization in budding yeast

31 March 2020

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A first version of the Caenorhabditis elegans Promoterome

31 March 2020

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pTARGET [corrected] a new method for predicting protein subcellular localization in eukaryotes.

31 March 2020

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The emerging field of lipidomics

31 March 2020

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Glycomics: a pathway to a class of new and improved therapeutics

31 March 2020

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Gene regulatory networks for development

31 March 2020

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Applications of DNA tiling arrays for whole-genome analysis

31 March 2020

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ChIP-chip: considerations for the design, analysis, and application of genome-wide chromatin immunoprecipitation experiments

31 March 2020

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Immobilization of Escherichia coli RNA polymerase and location of binding sites by use of chromatin immunoprecipitation and microarrays

31 March 2020

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Exchange of RNA polymerase II initiation and elongation factors during gene expression in vivo

31 March 2020

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A high-resolution map of active promoters in the human genome

31 March 2020

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Transcriptional regulatory code of a eukaryotic genome

31 March 2020

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A global transcriptional regulatory role for c-Myc in Burkitt's lymphoma cells

31 March 2020

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Distribution of NF-kappaB-binding sites across human chromosome 22

31 March 2020

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Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs

31 March 2020

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Genome-wide analysis of cAMP-response element binding protein occupancy, phosphorylation, and target gene activation in human tissues

31 March 2020

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Genome-wide map of nucleosome acetylation and methylation in yeast

31 March 2020

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Interactome: gateway into systems biology

31 March 2020

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High-throughput two-hybrid analysis. The promise and the peril

31 March 2020

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Kernel methods for predicting protein-protein interactions

31 March 2020

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Assessing protein co-evolution in the context of the tree of life assists in the prediction of the interactome.

31 March 2020

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Experimental and bioinformatic approaches for interrogating protein-protein interactions to determine protein function

31 March 2020

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Interaction network containing conserved and essential protein complexes in Escherichia coli

31 March 2020

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The protein-protein interaction map of Helicobacter pylori

31 March 2020

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A protein interaction network of the malaria parasite Plasmodium falciparum

31 March 2020

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Roles for the two-hybrid system in exploration of the yeast protein interactome.

31 March 2020

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Protein interaction mapping: a Drosophila case study

31 March 2020

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A map of the interactome network of the metazoan C. elegans

31 March 2020

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A human protein-protein interaction network: a resource for annotating the proteome

31 March 2020

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Local modeling of global interactome networks.

31 March 2020

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Molecular evolution in large genetic networks: does connectivity equal constraint?

31 March 2020

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How reliable are experimental protein-protein interaction data?

31 March 2020

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A general framework for development and data analysis of competitive high-throughput screens for small-molecule inhibitors of protein-protein interactions by fluorescence polarization

31 March 2020

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New technologies to assess genotype-phenotype relationships

31 March 2020

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Chemogenomics: an emerging strategy for rapid target and drug discovery

31 March 2020

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The silent revolution: RNA interference as basic biology, research tool, and therapeutic

31 March 2020

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Global mapping of the yeast genetic interaction network

31 March 2020

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High-throughput phenomics: experimental methods for mapping fluxomes

31 March 2020

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Dissecting the transcription networks of a cell using computational genomics

31 March 2020

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Inference of combinatorial regulation in yeast transcriptional networks: a case study of sporulation

31 March 2020

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Computational discovery of gene modules and regulatory networks

31 March 2020

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Modeling and analysis of heterogeneous regulation in biological networks

31 March 2020

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Validation and refinement of gene-regulatory pathways on a network of physical interactions

31 March 2020

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A Bayesian Networks Approach for Predicting Protein-Protein Interactions from Genomic Data

31 March 2020

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Probabilistic model of the human protein-protein interaction network

31 March 2020

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Network motifs in integrated cellular networks of transcription-regulation and protein-protein interaction

31 March 2020

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Detection of regulatory circuits by integrating the cellular networks of protein-protein interactions and transcription regulation

31 March 2020

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Motifs, themes and thematic maps of an integrated Saccharomyces cerevisiae interaction network

31 March 2020

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Genomic analysis of regulatory network dynamics reveals large topological changes

31 March 2020

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Evidence for dynamically organized modularity in the yeast protein-protein interaction network

31 March 2020

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Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data

31 March 2020

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Discovering regulatory and signalling circuits in molecular interaction networks

31 March 2020

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Combining biological networks to predict genetic interactions

31 March 2020

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Systematic interpretation of genetic interactions using protein networks

31 March 2020

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The KEGG resource for deciphering the genome

31 March 2020

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Genome-scale models of microbial cells: evaluating the consequences of constraints

31 March 2020

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Towards multidimensional genome annotation

31 March 2020

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Two-dimensional annotation of genomes

31 March 2020

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Use of genome-scale microbial models for metabolic engineering

31 March 2020

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Uncovering transcriptional regulation of metabolism by using metabolic network topology

31 March 2020

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Integrating high-throughput and computational data elucidates bacterial networks

31 March 2020

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The JAK-STAT signaling network in the human B-cell: an extreme signaling pathway analysis

31 March 2020

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Computational representation of developmental genetic regulatory networks

31 March 2020

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Global strategies to integrate the proteome and metabolome

31 March 2020

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Hot spots for modulating toxicity identified by genomic phenotyping and localization mapping

31 March 2020

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Genome-wide requirements for resistance to functionally distinct DNA-damaging agents

31 March 2020

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Integrating phenotypic and expression profiles to map arsenic-response networks

31 March 2020

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Functional genomic analysis of RNA interference in C. elegans

31 March 2020

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Systematic interactome mapping and genetic perturbation analysis of a C. elegans TGF-beta signaling network

31 March 2020

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Combined functional genomic maps of the C. elegans DNA damage response

31 March 2020

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Predictive models of molecular machines involved in Caenorhabditis elegans early embryogenesis.

31 March 2020

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Integrating genomics and metabolomics for engineering plant metabolic pathways

31 March 2020

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Metabolic engineering of dhurrin in transgenic Arabidopsis plants with marginal inadvertent effects on the metabolome and transcriptome

31 March 2020

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Integration of transcriptomics and metabolomics for understanding of global responses to nutritional stresses in Arabidopsis thaliana

31 March 2020

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An integrated functional genomics and metabolomics approach for defining poor prognosis in human neuroendocrine cancers.

31 March 2020

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System-based proteomic analysis of the interferon response in human liver cells

31 March 2020

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Intra- and interspecific variation in primate gene expression patterns

31 March 2020

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Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees

31 March 2020

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Regional patterns of gene expression in human and chimpanzee brains

31 March 2020

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Rewiring of the Yeast Transcriptional Network Through the Evolution of Motif Usage

31 March 2020

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Conservation and evolvability in regulatory networks: the evolution of ribosomal regulation in yeast

31 March 2020

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31 March 2020

MIAME, we have a problem

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Cytoscape: a software environment for integrated models of biomolecular interaction networks

31 March 2020

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The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models

31 March 2020

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Minimum information requested in the annotation of biochemical models (MIRIAM)

31 March 2020

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Toxicogenomics concepts and applications to study hepatic effects of food additives and chemicals

31 March 2020

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Nutrigenomics: the impact of biomics technology on nutrition research

31 March 2020

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Towards a systems biology understanding of human health: interplay between genotype, environment and nutrition

31 March 2020

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The metabolic syndrome: the crossroads of diet and genetics

31 March 2020

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Genomics, proteomics, metabolomics: what is in a word for multiple sclerosis?

31 March 2020

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Systems biology for cancer

31 March 2020

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Biological networks and analysis of experimental data in drug discovery

31 March 2020

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Ready for genomic medicine? Perspectives of health care decision makers

31 March 2020

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A simple physical model for scaling in protein-protein interaction networks

31 March 2020

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31 March 2020

Identifiers

DOI

10.1038/NRM1857

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PubMed ID

16496022

Dimensions Publication ID

28 June 2017

0 references

1 reference

PubMed ID

16496022