Tfgd

Added: Stefano Wessels - Date: 15.08.2021 09:04 - Views: 14065 - Clicks: 4639

Tomato Functional Genomics Database TFGD provides a comprehensive resource to store, query, mine, analyze, visualize and integrate large-scale tomato functional genomics tfgd sets. The database is functionally expanded from the ly described Tomato Expression Database tfgd including metabolite profiles as well as large-scale tomato small RNA sRNA data sets. Computational pipelines have been developed to process microarray, metabolite and sRNA data sets archived in the database, respectively, and TFGD provides downlo of all the analyzed.

TFGD is also deed to enable users to easily retrieve biologically important information through a set of efficient query interfaces and analysis tools, including improved array probe annotations as well as tools to identify co-expressed genes, ificantly affected biological processes and biochemical pathways from gene expression data sets and miRNA targets, and to integrate transcript and metabolite profiles, and sRNA and mRNA sequences. The suite of tools and interfaces in TFGD allow intelligent data mining of recently released and continually expanding large-scale tomato functional genomics data sets.

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Figures Figure 1. Pathway analysis in the database. Figure 1. A Screenshot of an example result…. A Screenshot of an example result returned by the pathway analysis tool in TFGD which lists altered pathways identified from a gene expression data tfgd. B Visualization of detailed transcript expression changes in a pathway. Figure 2. Correlation tfgd between gene expression…. Correlation analysis between gene tfgd and metabolite profiles in TFGD.

A Interface of the correlation analysis. Figure 3. Tomato miRNA candidate information in…. A Abundances of a miRNA…. A Abundances of a miRNA candidate in each sample. D Predicted miRNA targets. Figure 4. See this image and copyright information in PMC. Fei Z, et al. Nucleic Acids Res. RadishBase: a database for genomics and genetics of radish. Shen D, et al. Plant Cell Physiol. Epub Dec PMID: Kudo T, et al.

Functional genomics of tomato: opportunities and challenges in post-genome NGS era. Kumar R, Khurana A. Kumar R, et al. J Biosci. PMID: Review. Tomato mutants as tools for functional genomics. Emmanuel E, Levy AA. Emmanuel E, et al. Curr Opin Plant Biol. See all similar articles. Heidari P, et al. Front Genet. Wang Q, et al. Int J Mol Sci. Prasad A, et al. Theor Appl Genet. Epub Feb 7. Breitel D, et al. Metab Eng. Epub Nov Prigigallo MI, et al. See all "Cited by" articles. A snapshot of the emerging tomato genome sequence. Plant Genome.

Tfgd analysis of full-length cDNAs from the tomato Solanum lycopersicum cultivar Micro-Tom, a reference system for the Solanaceae genomics. BMC Genomics. Integrated analysis of metabolite and transcript levels reveals the metabolic shifts that underlie tomato fruit development and highlight regulatory aspects of metabolic network behavior. Plant Physiol. Comprehensive metabolic profiling and phenotyping of interspecific introgression lines for tomato improvement.

Nat Biotechnol. Identification of loci affecting flavour volatile emissions in tomato fruits. Publication types Research Support, U. Gov't, Non-P. Gene Expression Profiling Actions. Genomics Actions. Oligonucleotide Array Sequence Analysis Actions. Related information MedGen.

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