Welcome to Gene Regulation Info
This site is devoted to quantitative descriptions of gene regulation. It will store frequently updated reviews of resources on DNA-protein interactions, nucleosome positioning and epigenetic modifications, as well as the list of conferences and schools and other news relevant to the quantitative gene regulation.
We have an opening for a Ph.D. student (read here).
Interested to join as a student, postdoc or programmer? Contact me by email with your CV and a short cover letter, indicating how your skills fit to at least one of these directions: (1) biophysical modeling of epigenetic regulation in chromatin; (2) bioinformatics analysis of high-throughput sequencing data; (3) wet lab experience with ChIP-seq or related techniques. Also, have a look at the list of upcoming deadlines for external postdoctoral fellowships.
Here is a list of upcoming events -- conferences, summer schools, workshops and other meetings relevant to the quantitative gene regulation. I am regularly updating this list. Come again later and check for updates. Also feel free to add new entries (just contact me by email).
I have extended the collection of protein-DNA binding parameters here. In addition to thermodynamic parameters (Kd, deltaG, km, ks, etc) and the position weight matrices (PWMs), this list now includes software to calculate binding affinities from PWMs and directly from experiments. This list is being constantly updated, feel free to contact me to submit new links.
The nucleosome positioning collection has been extended and split into four sections: (i) software to analyze high-throughput data, (ii) software to predict affinities of the histone octamer to a given DNA sequence, (iii) experimental datasets, and (iv) experimental methods. This list is being constantly updated, feel free to contact me to submit new links and comments.