J. K. Wickiser Lab

Archive for the ‘Current Data Papers’ Category

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Enzymatic networks

Monday, October 17, 2011

This group analyzes enzyme networks for robustness and dynamics.

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A network analysis approach to prediabetes

Friday, October 14, 2011

The molecular, cellular, and evironemental factors of diabetes makes for a complex problem that this group attacks using a network analysis approach.

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lincRNAs impact pluipotency and cell differentiation

Thursday, October 13, 2011

Mouse cells have been used to demonstrate that long intergenic non-coding RNAs (lincRNAs) have key roles in the circuitry controlling ES cell state.

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An RNA language hypothesis

Wednesday, October 12, 2011

Here’s an interesting paper that tries to tie together miRNA function and a network between mRNAs and intergenic regions.

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The essential genome of a bacterium: wants versus needs.

Tuesday, October 11, 2011

Lucy Shaprio and colleagues have identifed the minimal set of genes required for caulobacter to thrive on rich media. This work will help others bioengineer the organism to function in a variety of roles involving the production of small molecule metabolites and the generation of biosensor systems.

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An RNA aptamer “version” of GFP

Friday, September 16, 2011

Cool story bro: Someone wanted to track specific transcripts in vivo so they evolved an aptamer to bind a crippled fluorophore and in doing so, activate it. Yeah. Category: Things I wish I had invented.

Here’s the paper.

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TimeDelay-ARACNE: Reverse engineering of gene networks from time-course data by an information theoretic approach.

Thursday, September 15, 2011

The timecourse data sets are huge in systems biology. This paper details efforts to generate gene networks using microarray data. Time-course data used to create a gene network

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Protein networks in a plant model

Wednesday, September 14, 2011

Here’s a paper and press release for some recent work on the protein networks in Arabadopsis.

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Rank-based edge reconstruction for scale-free genetic regulatory networks.

Tuesday, September 13, 2011

The construction of gene networks is tricky business and this group details a Rank-based edge method: Rank-based edge reconstruction

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Gene expression network reconstruction by convex feature selection when incorporating genetic perturbations.

Monday, September 12, 2011

Generating or constructing the network is one thing, but it’s very difficult to ensure the model is predictive in terms of perturbations. This paper details efforts on how to do just that: Perturbations on Genetic Networks

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