Therefore, at a systems level, connections between individual genes in a molecular interaction network can be used to infer the collective functional linkages between biologically meaningful gene sets.Results: We present the human interactome resource and the gene set linkage analysis (GSLA) tool for...
Results We present the gene set linkage analysis (GSLA) tool for interpretation of the collective functional impacts of a set of changed genes. The GSLA algorithm relies on a functional association network to evaluate whether the observed omics changes collectively interfere with functions of known ...
Gene set-based analysis (GSA) has been widely utilized on gene expression microarray to explore the association of biological features with phenotypes based on a prior pathway knowledge since its first application in 2003. GSA focuses on sets of related genes and has exhibited major advantages over...
We applied OrthoMCL to the clustered and aligned gene models of A. lyrata, A. thaliana, B. rapa, C. papaya and Oryza sativa as reported by Wang et al.3, as well as R. sativus and then selected a “single copy gene” set. Based on the lineage I phylogenetic divergence of A. ...
Among five candidate genes, BnaC2.MYB28, a homologue of the Arabidopsis MYB28 encoding a putative R2R3-MYB-type transcription factor functioning in aliphatic methionine-derived GSL synthesis, was most likely to be the target gene underlying the QTL. Sequence analysis revealed multiple insertion/...
the present status of the tools that are widely used for constructing the gene co-expression network. The highlights of gene co-expression network databases and the tools presented here will pave the way for a robust interpretation of biologically relevant information. With this effort, the ...
2b) to set an upper limit for its formation time, and to BnaA and the earliest divergent B. napus accessions (B. napus; Fig. 2b) to set a lower limit for its formation time. Here we deduced that B. napus formed 0.038−0.051 Mya (Fig. 2c), which is slightly earlier than the ...
a ing eight different BRCA1 kindreds (Table 1). The lod scores (likelihood ratios for linkage) in these kindreds range from 9.49 to -0.44 for a set of markers in 17q21. Four of the families have convincing lod scores for linkage, and four have low positive or negative lod scores. ...
The overexpression of specific GSL (Gibberellin Stimulated-Like) genes is known to confer enhanced disease resistance. A potato intragenic expression cassette, with the potato GSL1 gene placed under the regulatory control of the light-inducible Lhca3 gene from potato, was designed and constructed. ...
To accelerate the genetic determination of gene function, we have developed a sequence-tagged gene-trap library of >270,000 mouse embryonic stem cell clones representing mutations in &Sime;60% of mammalian genes. Through the generation and phenotypic analysis of knockout mice from this resource, ...