wiki.mahonylab.org

mahonylab.org

MultiGPS | Shaun Mahony

http://mahonylab.org/software/multigps

Biochemistry and Molecular Biology, Penn State University. MultiGPS is a framework for analyzing collections of multi-condition ChIP-seq datasets and characterizing differential binding events between conditions. In analyzing multiple-condition ChIP-seq datasets, MultiGPS encourages consistency in the reported binding event locations across conditions and provides accurate estimation of ChIP enrichment levels at each event. MultiGPS version 0.5 (2014-03-01): JAR. You need Java 7 installed to run MultiGPS.

mahonylab.org

Group | Shaun Mahony

http://mahonylab.org/people

Biochemistry and Molecular Biology, Penn State University. Shaun Mahony, Ph.D. Assistant Professor, Biochemistry and Molecular Biology. Mahony@psu.edu. 404 South Frear Bldg., University Park, PA 16802. PhD student, MCIBS Bioinformatics and Genomics program. 97;uk262@psu.edu. 405 South Frear Bldg., University Park, PA 16802. PhD student, MCIBS Bioinformatics and Genomics program. Nuy11@psu.edu. 405 South Frear Bldg., University Park, PA 16802. PhD student, MCIBS Bioinformatics and Genomics program. Collab...

mahonylab.org

News | Shaun Mahony | Biochemistry & Molecular Biology, Penn State University

http://mahonylab.org/news

Biochemistry and Molecular Biology, Penn State University. Lila awarded an NSF Graduate Research Fellowship. April 22, 2016. Lila Rieber has been awarded a 2016 Graduate Research Fellowship from the National Science Foundation! This prestigiousfellowship will enable her to pursue thesis research that aims to characterize the three-dimensional organization of chromatin in high resolution. Congratulations, Lila! Continue reading →. April 8, 2016. March 4, 2016. A manuscript on which Shaun and group member ...

mahonylab.org

Software | Shaun Mahony

http://mahonylab.org/software

Biochemistry and Molecular Biology, Penn State University. Is a novel framework for analyzing collections of multi-condition ChIP-seq datasets and characterizing differential binding events between conditions. In analyzing multiple-condition ChIP-seq datasets, MultiGPS encourages consistency in the reported binding event locations across conditions and provides accurate estimation of ChIP enrichment levels at each event. MultiGPS manual and downloads are available here. RescueNet uses the Self-Organizing...

mahonylab.org

Publications | Shaun Mahony

http://mahonylab.org/publications

Biochemistry and Molecular Biology, Penn State University. Google Scholar profile and citation statistics. Co-first authors; co-corresponding authors; group members in bold. The pioneer transcription factor FoxA maintains an accessible nucleosome configuration at enhancers for tissue-specific gene activation. M Iwafuchi-Doi, G Donahue, A Kakumanu. JA Watts, S Mahony. BF Pugh, D Lee, KH Kaestner, KS Zaret. C Ariyachet, A Tovaglieri, G Xiang. Q Xia, DT Breault, Q Zhou. DW Haas, MD Ritchie. An integrated mo...

mahonylab.org

shaun | Shaun Mahony

http://mahonylab.org/people/shaun

Biochemistry and Molecular Biology, Penn State University. December 30, 2013. At 180 × 240. Or leave a trackback: Trackback URL. Leave a Reply Cancel reply. Your email address will not be published. Required fields are marked *. Notify me of follow-up comments by email. Notify me of new posts by email. Lila awarded an NSF Graduate Research Fellowship. Collaborative paper on the pioneer transcription factor, Foxa2, published in Molecular Cell. Group publication accepted to PSB 2016.

mahonylab.org

Group paper accepted for publication in PLoS Computational Biology and for presentation at RECOMB 2014 | Shaun Mahony

http://mahonylab.org/lab-news/2014-01-23_multigps

Biochemistry and Molecular Biology, Penn State University. Group paper accepted for publication in PLoS Computational Biology and for presentation at RECOMB 2014. January 23, 2014. Our group manuscript, entitled “ An integrated model of multiple-condition ChIP-seq data reveals predeterminants of Cdx2 binding”. Has been accepted for publication. The manuscript will be presented at the RECOMB 2014. Graduate student in David Gifford’s. MultiGPS is open source software, available here. January 23, 2014.

mahonylab.org

Two papers published in Nature Neuroscience | Shaun Mahony

http://mahonylab.org/lab-news/two-papers-published-in-nature-neuroscience

Biochemistry and Molecular Biology, Penn State University. Two papers published in Nature Neuroscience. September 1, 2013. Two papers which Shaun jointly first-authored with Esteban Mazzoni. Have been published in the same issue of Nature Neuroscience. In “ Synergistic binding of transcription factors to cell-specific enhancers programs motor neuron identity. In “ Saltatory remodeling of Hox chromatin in response to rostrocaudal patterning signals. September 1, 2013. Group publication accepted to PSB 2016.

mahonylab.org

Co-authored paper published in Stem Cell Reports | Shaun Mahony

http://mahonylab.org/lab-news/collaborative-paper-published-in-stem-cell-reports

Biochemistry and Molecular Biology, Penn State University. Co-authored paper published in Stem Cell Reports. November 7, 2013. A paper on which we. Collaborated with Elizabeth Paik and her colleagues in Len Zon’s lab at Harvard University has been published in Stem Cell Reports. The paper, entitled “ A Cdx4-Sall4 Regulatory Module Controls the Transition from Mesoderm Formation to Embryonic Hematopoiesis. November 7, 2013. Group publication accepted to PSB 2016. Two papers published in Nature Neuroscience.