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pnpxenopus involuting marginal zone 

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Experiment details for pnp

Genomic analysis of Xenopus organizer function.

Genomic analysis of Xenopus organizer function.

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Gene Clone Species Stages Anatomy
pnp.L laevis NF stage 10.5 to NF stage 11 involuting marginal zone

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  Figure 7. Relaxed statistical criteria select for additional genes with organizer-related expression patterns. The cluster results for the second set of RP criteria, which required correlated expression in the Nog+Dkk and Dor conditions, identifies additional unknown genes with organizer-related expression patterns. The hierarchical tree is on the far left, followed by the clustergram, and then the summary of the RP results at 10% FDR. Colors and columns are same as described in the Figure 3A. Black ticks between the cluster tree and the clustergram mark every tenth gene, allowing referencing to 3 for the gene identities. Genes in this list that lacked described gastrula stage expression patterns were analyzed by whole mount in situ hybridization. The top of the cluster contains genes that were repressed in the Nog+Dkk and Dor conditions; unknown genes within this group are excluded from organizer tissues (magenta box). The bottom of the cluster contains genes that were activated in the Nog+Dkk and Dor conditions; unknown genes within this group are enriched in organizer tissues (orange box). Each tested gene is labeled with its name and the Affymetrix probe set number. Genes marked "no pattern" showed no staining, or a non-specific staining pattern that was similar to sense controls. Genes marked "no gastrula pattern," showed no pattern during gastrula stages, but did show specific patterns at later stages that are not shown here. Each photo is labeled with the developmental stage of the embryo in the bottom left corner, and the orientation in the bottom right corner. veg: vegetal view, dorsal faces up. dor: dorsal view, anterior faces up. gene name was assigned by protein sequence similarity using Homologene.