Team:Illinois/Research

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Contents

Research

This page lists various sources used in our research organized by topic. Please note that most of the links to articles on this page will take you only to the abstract of the paper.

General

Includes catalog for restriction endonucleases/other lab products, a resource called NEBcutter that tells you what restriction endonucleases will cut your gene/DNA sequence of interest, and a tool called the Double Digest Finder that will tell you how compatible two restriction endonucleases are by comparing what conditions they work best in.

Contains a complete list of genes in E. coli and their base pair sequences.

Small RNAs

An overview on small RNAs and their functions, discussing the roles of Hfq and RNase E, and mentioning advantages to sRNA use.

Discusses various RNA regulators in bacteria, including riboswitches and sRNAs. Gives examples of well-characterized sRNAs and lists advantages of sRNAs over other types of gene regulation.

Documents successful fusions of sRNA target sequences to GFP in order to study regulatory activity of various sRNAs.

Describes sRNAs that act on the 3' untranslated region (UTR) of a target mRNA.

Modeling

RNAs: a quantitative view]: Yishai Shimoni, Gilgi Friedlander, Guy Hetzroni, Gali Niv, Shoshy Altuvia, Ofer Biham, and Hanah Margalit, 2007 Provides a basic model and differential equations for sRNA regulation of a gene, and quantitatively compares sRNA regulation with other types of regulation.

Protocols

Useful website for finding protocols online.

Protocol for plasmid purification using the PerfectPrep Spin Mini Kit.

  • Supplementary Material: Translational Control and Target Recognition by Escherichia coli Small RNAs in Vivo: Johannes H. Urban and Jörg Vogel, 2007

Includes step-by-step protocols for fusion cloning into a standard plasmid (pXG-10), fusion cloning via 5' RACE (pXG-20), and operon fusion cloning into pXG-30.

Details a modular two-plasmid system that uses GFP to study sRNA regulation in vivo.


Questions about our Wiki page? Please email Dave Korenchan at korench1@illinois.edu.