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A gene module was defined by a group of genes that sharing a similar function or regulation mechanism.
They have the highest probability of sharing a similar function in several species and can be used with high confidence for a direct annotation transfer.
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When the number of differentially expressed genes identified in a given condition is large, gene set analysis can be used to identify a few categories of genes that share a similar function and that are over-represented/enriched within the list of differentially expressed genes44.
A gene module was defined as a group of genes which share a similar function or regulation mechanism.
Based on the phenotypes of zebrafish and Xenopus embryos injected with synthetic mRNA, zebrafish wnt4a and Xenopus Xwnt-5A appear to share a similar function, distinct from that of wnt1, Xwnt3A and Xwnt8 [16].
However, a common origin is apparent for the TPX2 domains suggesting that these domains share a similar function.
Clustering of gene expression data serves as a basis for functional annotations of genes, relying on the notion that genes with a similar expression pattern often share a similar function (reviewed in [ 6]).
The genes p52, p36, and b9, all belong to the recently expanded 6-Cys family of Plasmodium proteins and may share a similar function in formation or maintenance of the PV membrane at the interface of parasite and host cell.
Since L9 NTD, which binds to 23S rRNA, is sufficient to complement the der mutant, L9 may share a similar function with Der in promoting and/or stabilizing correct assembly of the 70S ribosome [ 21].
Moreover, CAPN5, CAPN6, CAPN7 and CAPN10 have been suggested to share a similar function in the regulation of microtubule stability due to their comparable architectures with tandem C2L/C2 domains at the C-terminus of CysPc [ 41].
It is also relevant for functional analysis as ultraparalogs likely share a similar function and are often involved in functional redundancy and/or neofunctionnalization.
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