Sinbase2.0 - Sesame Multi-Omics Database

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Resources>>Proteomics Analysis>>Salt Tolerance:

I. Phenotype for sesame samples under salt stress

Sample instruction: Sesame salty sensitive (SS) and tolerance (ST) samples, 5 time points (0, 2, 6, 12, 24 hours), three biological replicates.

II. Expression analysis among different samples in sesame by iTRAQ

In this project, we employed iTRAQ [1] to calculate the expression quantification of sesame proteins among 10 samples, including 5 time points in sesame salty sensitive (SS) and tolerance (ST) samples respectively. After curation, 4,956 genes, representing 18.255% of all sesame proteins, were detected to express among 10 samples in sesame.

III. Protein-protein interaction analysis by STRING database

The STRING database aims to collect and integrate this information, by consolidating known and predicted protein–protein association data for a large number of organisms. The associations in STRING include direct (physical) interactions, as well as indirect (functional) interactions, as long as both are specific and biologically meaningful [2].

In this project, we used the information of protein-protein interaction from STRING database to detect the relationships of protein-protein interaction of different expression protein between different samples in sesame. And further to load resulting interactive data into Cytoscape software to achieve interactive network [3].

Categories	Sample 1	Sample 2	Contents
Salt Tolerance (ST)	ST: 0h	ST: 2h	Interactive network
	ST: 0h	ST: 6h	Interactive network
	ST: 0h	ST: 12h	Interactive network
	ST: 0h	ST: 24h	Interactive network
Salt Sensitive (SS)	SS: 0h	SS: 2h	Interactive network
	SS: 0h	SS: 6h	Interactive network
	SS: 0h	SS: 12h	Interactive network
	SS: 0h	SS: 24h	Interactive network
Salt Tolerance (ST) vs. Sensitive (SS)	SS: 0h	ST: 0h	Interactive network
	SS: 2h	ST: 2h	Interactive network
	SS: 6h	ST: 6h	Interactive network
	SS: 12h	ST: 12h	Interactive network
	SS: 24h	ST: 24h	Interactive network

Reference:

1. Ross PL, Huang YN, Marchese JN, et al. Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents[J]. Molecular & cellular proteomics : MCP, 2004, 3(12):1154.

2. Damian Szklarczyk, John H Morris, Helen Cook, Michael Kuhn, Stefan Wyder, Milan Simonovic, Alberto Santos, Nadezhda T Doncheva, Alexander Roth, Peer Bork, Lars J. Jensen, Christian von Mering; The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible, Nucleic Acids Research, Volume 45, Issue D1, 4 January 2017, Pages D362–D368, https://doi.org/10.1093/nar/gkw937

3. Paul Shannon, Andrew Markiel, Owen Ozier, Nitin S. Baliga, Jonathan T. Wang, Daniel Ramage, Nada Amin, Benno Schwikowski and Trey Ideker. Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks. Genome Res. 2003. 13: 2498-2504, doi: 10.1101/gr.1239303.