Shaun Mahony

Associate Professor of Biochemistry & Molecular Biology

Shaun Mahony

Research Summary

We apply neural networks and other machine learning approaches to understand how transcription factors control cellular identity

Huck Graduate Students

Huck Affiliations

Links

Publication Tags

Transcription Factors Genome Chromatin Genomics Genes Motor Neurons Experiment Dna Gene Expression Proteins Chromatin Immunoprecipitation Sequencing Embryonic Stem Cells Chip Chromatin Assembly And Disassembly Nucleosomes Biochemistry Quality Control Experiments Modeling Regulator Genes Analysis Cells Transcription Factor Stomach Fungal Proteins

Most Recent Publications

Danying Shao, G Kellogg, Ali Nematbakhsh, Prashant Kuntala, Shaun Mahony, B. Pugh, W Lai,

Sudarshan Pinglay, Milica Bulajić, Dylan Rahe, Emily Huang, Ran Brosh, Sergei German, John Cadley, Lila Rieber, Nicole Easo, Shaun Mahony, Matthew Maurano, Liam Holt, Esteban Mazzoni, Jef Boeke,

Danying Shao, Gretta D. Kellogg, Ali Nematbakhsh, Prashant K. Kuntala, Shaun Mahony, B. Franklin Pugh, William K.M. Lai, 2022, Genome Biology

Sudarshan Pinglay, Milica Bulajić, Dylan P. Rahe, Emily Huang, Ran Brosh, Nicholas E. Mamrak, Benjamin R. King, Sergei German, John A. Cadley, Lila Rieber, Nicole Easo, Timothée Lionnet, Shaun Mahony, Matthew T. Maurano, Liam J. Holt, Esteban O. Mazzoni, Jef D. Boeke, 2022, Science

Begüm Aydin, Michael Sierk, Mireia Moreno-Estelles, Link Tejavibulya, Nikathan Kumar, Nuria Flames, Shaun Mahony, Esteban O. Mazzoni, 2022, Frontiers in Neuroscience

Görkem Garipler, Congyi Lu, Alexis Morrissey, Lorena S. Lopez-Zepeda, Yingzhen Pei, Simon E. Vidal, Ana Paula Zen Petisco Fiore, Begüm Aydin, Matthias Stadtfeld, Uwe Ohler, Shaun Mahony, Neville E. Sanjana, Esteban O. Mazzoni, 2022, Cell Reports

Kelly Cochran, Divyanshi Srivastava, Avanti Shrikumar, Akshay Balsubramani, Ross C. Hardison, Anshul Kundaje, Shaun Mahony, 2022, Genome Research on p. 512-523

Suprita Singh, Joana M. Santos, Lindsey M. Orchard, Naomi Yamada, Riëtte van Biljon, Heather J. Painter, Shaun Mahony, Manuel Llinás, 2021, Molecular Microbiology on p. 1005-1024

Most-Cited Papers

Makiko Iwafuchi-Doi, Greg Donahue, Akshay Kakumanu, Jason A. Watts, Shaun Mahony, B. Franklin Pugh, Dolim Lee, Klaus H. Kaestner, Kenneth S. Zaret, 2016, Molecular Cell on p. 79-91

Esteban O. Mazzoni, Shaun Mahony, Michael Closser, Carolyn A. Morrison, Stephane Nedelec, Damian J. Williams, Disi An, David K. Gifford, Hynek Wichterle, 2013, Nature Neuroscience on p. 1219-1227

Esteban O. Mazzoni, Shaun Mahony, Mirza Peljto, Tulsi Patel, Seraphim R. Thornton, Scott McCuine, Christopher Reeder, Laurie A. Boyer, Richard A. Young, David K. Gifford, Hynek Wichterle, 2013, Nature Neuroscience on p. 1191-1198

Chaiyaboot Ariyachet, Alessio Tovaglieri, Guanjue Xiang, Jiaqi Lu, Manasvi S. Shah, Camilla A. Richmond, Catia Verbeke, Douglas A. Melton, Ben Z. Stanger, David Mooney, Ramesh A. Shivdasani, Shaun Mahony, Qing Xia, David T. Breault, Qiao Zhou, 2016, Cell Stem Cell on p. 410-421

Simona Lodato, Bradley J. Molyneaux, Emanuela Zuccaro, Loyal A. Goff, Hsu Hsin Chen, Wen Yuan, Alyssa Meleski, Emi Takahashi, Shaun Mahony, John L. Rinn, David K. Gifford, Paola Arlotta, 2014, Nature Neuroscience on p. 1046-1054

Silvia Velasco, Mahmoud M. Ibrahim, Akshay Kakumanu, Görkem Garipler, Begüm Aydin, Mohamed Ahmed Al-Sayegh, Antje Hirsekorn, Farah Abdul-Rahman, Rahul Satija, Uwe Ohler, Shaun Mahony, Esteban O. Mazzoni, 2017, Cell Stem Cell on p. 205-217.e8

Shaun Mahony, Matthew D. Edwards, Esteban O. Mazzoni, Richard I. Sherwood, Akshay Kakumanu, Carolyn A. Morrison, Hynek Wichterle, David K. Gifford, 2014, PLoS Computational Biology

Begüm Aydin, Akshay Kakumanu, Mary Rossillo, Mireia Moreno-Estellés, Görkem Garipler, Niels Ringstad, Nuria Flames, Shaun Mahony, Esteban O. Mazzoni, 2019, Nature Neuroscience on p. 897-908

Vinesh Vinayachandran, Rohit Reja, Matthew J. Rossi, Bongsoo Park, Lila Rieber, Chitvan Mittal, Shaun Mahony, B. Franklin Pugh, 2018, Genome Research on p. 357-366