We are looking for talented and motivated individuals who want to be a part of the epigenomics revolution!
We developed and use the ultra-high resolution ChIP-exo mapping technique.1 Most notably, we are using yeast and human systems to define the positional and mechanistic organization of all proteins that interact with the genome. Knowledge of protein positional organization informs of biological mechanisms that we can test using various gene editing methods.2 In human systems we look at many cell types, including clinical samples that are prepared and sequenced here in Dr. Pugh’s lab. Dr. Mahony’s lab is also investigating neuronal cells.3 What is most exciting is integrating thousands of datasets into a coherent view of genome regulation. This is what is most challenging also, as it involves developing advances in computational and statistical methods.
The Pugh and Mahony labs work closely together to bring experimental and computational approaches to bear on the problem of genome regulation. The two labs are physically next door to each other, with students and postdocs typically intermixed between the two labs. Multiple joint meetings each week explore cutting-edge computational and statistical approaches to understanding genome regulation, using the many thousands of datasets that we produce. Dr. Pugh is also the Director of The Center for Eukaryotic Gene Regulation (CEGR) that has ten leading faculty devoted to basic mechanisms of eukaryotic gene regulation. Seven of the faculty share contiguous space, and so there is an incredible vibrance of interactions here.
We have openings for prospective graduate students, postdocs, full time staff and undergraduate students who want to learn and contribute to the rapidly developing field of bioinformatics for genomic discovery. Those who are interested should contact Dr. Pugh.
ASSISTANT RESEARCH PROFESSOR: https://psu.jobs/job/80099
Rhee HS, Pugh BF. Genome-wide structure and organization of eukaryotic pre-initiation complexes. Nature. 2012 Jan 18;483(7389):295-301. doi:10.1038/nature10799. Erratum in: Nature. 2012 Jul 5;487(7405):128. PubMed PMID:22258509; PubMed Central PMCID: PMC3306527.
Doudna JA, Charpentier E. Genome editing. The new frontier of genome engineering with CRISPR-Cas9. Science. 2014 Nov 28;346(6213):1258096. doi:10.1126/science.1258096. Review. PubMed PMID: 25430774.
Mazzoni EO, Mahony S, Closser M, Morrison CA, Nedelec S, Williams DJ, An D, Gifford DK, Wichterle H. Synergistic binding of transcription factors to cell-specific enhancers programs motor neuron identity. Nat Neurosci. 2013 Sep;16(9):1219-27. doi: 10.1038/nn.3467. Epub 2013 Jul 21. PubMed PMID: 23872598; PubMed Central PMCID: PMC3820498.