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Species » C. elegans(Genome assembly: WBcel235)

Expression cluster » WBPaper00025032:cluster_12

  • Clustered data

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  • Comments on WBPaper00025032:cluster_12 (0)

  • Overview

    WBPaper00025032:cluster_12

    Species:
    Caenorhabditis elegans
    Attribute of Microarray experiment:
    WBPaper00025032:N2_0_min
    WBPaper00025032:N2_101_min
    WBPaper00025032:N2_122_min
    WBPaper00025032:N2_143_min
    WBPaper00025032:N2_186_min
    WBPaper00025032:N2_23_min
    WBPaper00025032:N2_41_min
    WBPaper00025032:N2_53_min
    WBPaper00025032:N2_66_min
    WBPaper00025032:N2_83_min
    WBPaper00025032:mex-3_skn-1_0_min
    WBPaper00025032:mex-3_skn-1_101_min
    WBPaper00025032:mex-3_skn-1_122_min
    WBPaper00025032:mex-3_skn-1_143_min
    WBPaper00025032:mex-3_skn-1_186_min
    WBPaper00025032:mex-3_skn-1_23_min
    WBPaper00025032:mex-3_skn-1_41_min
    WBPaper00025032:mex-3_skn-1_53_min
    WBPaper00025032:mex-3_skn-1_66_min
    WBPaper00025032:mex-3_skn-1_83_min
    WBPaper00025032:pie-1_0_min
    WBPaper00025032:pie-1_101_min
    WBPaper00025032:pie-1_122_min
    WBPaper00025032:pie-1_143_min
    WBPaper00025032:pie-1_186_min
    WBPaper00025032:pie-1_23_min
    WBPaper00025032:pie-1_41_min
    WBPaper00025032:pie-1_53_min
    WBPaper00025032:pie-1_66_min
    WBPaper00025032:pie-1_83_min
    WormBase ID:
    WBPaper00025032:cluster_12
    C-lineage related expression profile.

    Algorithm:

    QT clustering

    Remarks:

    This clustering algorithm assembles a series of clusters ordered by size with a defined limit on the largest pair-wise distance allowed between any two profiles in a cluster. Distance between profiles is measured as 1-R, where R is the Pearson correlation coefficient. Although we limited this distance to 0.3, some genes are included in clusters simply by chance. To reduce the spurious inclusion of these genes in the final clusters, we systematically re-sampled our data (100 times) with two forms of synthetic noise added at each reiteration to generate an Ravg. Noise was added to log2 scale RMA expression data, and was generated by a two-component model consisting of an additive Gaussian background with standard deviation 0.2, and a multiplicative Gaussian sampling error with a standard deviation of 0.05. Simulated data were floored at 1 RMA unit.
    Type: Co-expression Cluster

  • Regulation

    No regulation data for WBPaper00025032:cluster_12
    Regulated by Gene:
    Regulated by Treatment:
    Regulated by Molecule:

  • Associations

    No associations data for WBPaper00025032:cluster_12
    Anatomy Terms:
    Life Stages:
    GO terms:
    Processes:

  • References

    • Filter by article type
      • Journal article

      1

    1 reference found
    The homeodomain protein PAL-1 specifies a lineage-specific regulatory network in the C. elegans embryo.
    Journal article
    Development
    2005

    Maternal and zygotic activities of the homeodomain protein PAL-1 specify the identity and maintain the development of the multipotent C blastomere lineage in the C. elegans embryo. To identify PAL-1 regulatory target genes, we used microarrays to compare transcript abundance in wild-type embryos with mutant embryos lacking a C blastomere and to mutant embryos with extra C blastomeres. pal-1-dependent C-lineage expression was verified for select candidate target genes by reporter gene analysis, though many of the target genes are expressed in additional lineages as well. The set of validated target genes includes 12 transcription factors, an uncharacterized wingless ligand and five uncharacterized genes. Phenotypic analysis demonstrates that the identified PAL-1 target genes affect specification, differentiation and morphogenesis of C-lineage cells. In particular, we show that cell fate-specific genes (or tissue identity genes) and a posterior HOX gene are activated in lineage-specific fashion. Transcription of targets is initiated in four temporal phases, which together with their spatial expression patterns leads to a model of the regulatory network specified by PAL-1.

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