Researcher Profile

Researcher Profile

James Broach, PhD

James Broach, PhD

Distinguished Professor and Chair, Department of Biochemistry and Molecular Biology
Institute for Personalized Medicine
Scientific Program:Experimental Therapeutics
jrb62@psu.edu
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Research Interests

The Dr. James Broach lab has studied a variety of biological processes using the yeast Saccharomyces as a model system.  These studies have focused primarily on the interaction of cells with their environment, exploring the nature of signaling pathways that cells use to perceive their nutritional state - such as the Ras/protein kinase A pathway and the Target of Rapamycin Complex – and the transcriptional and metabolic responses of those cells to changes in nutritional state.  More recently, the lab has focused on the cell’s stress response, using single cell imaging and genome sequencing-based studies of chromatin structure and transcriptional remodeling.  These studies yielded the remarkable finding that genetically identical cells in the same environment mount quite different responses to an applied stress, allowing the population as a whole to hedge its bets regarding the best survival strategy in the face of an uncertain future.

 

More recently, the lab has expanded its interest to the application of genomic tools to issues of disease onset and treatment. The work is conducted through the Institute for Personalized Medicine, comprising a biorepository, in which biological samples from all consented patients of the Milton S. Hershey Medical Center are stored; a genomics core, in which state of the art genotyping and NextGen sequencing is applied to the biological samples; and a bioinformatics core, in which patient outcome data obtained from electronic medical records are correlated with genomic profiling and sequencing results. The lab works closely with clinicians at the Milton S. Hershey Medical Center to identify patients whose disorder or response to treatment shows a familial pattern of inheritance, as well as cohorts of patients that have phenotypically distinct disease presentations or responses to treatment.  The lab has successfully pursued studies in a variety of diseases, including various cancers, ALS, multiple sclerosis, inflammatory bowel disease, epilepsy and osteoporosis.

  • Yeasts
  • Saccharomyces cerevisiae
  • Genes
  • Proteins
  • Plasmids
  • Mutation
  • Growth
  • DNA
  • Genetic Recombination
  • Chromatin
  • Food
  • Genome

Recent Publications

2019

Pool, C, Walter, V, Bann, D, Goldenberg, D, Broach, J, Hennessy, M, Cottrill, E, Washburn, E, Williams, N, Crist, H, Imamura, Y & Warrick, J 2019, 'Molecular characterization of tumors meeting diagnostic criteria for the non-invasive follicular thyroid neoplasm with papillary-like nuclear features (NIFTP)', Virchows Archiv, vol. 474, no. 3, pp. 341-351. https://doi.org/10.1007/s00428-018-02512-6
The ITALSGEN Consortium & The International ALS Genomics Consortium 2019, 'Shared polygenic risk and causal inferences in amyotrophic lateral sclerosis', Annals of Neurology, vol. 85, no. 4, pp. 470-481. https://doi.org/10.1002/ana.25431

2018

Briones, MRS, Snyder, A, Ferreira, RC, Neely, EB, Connor, J & Broach, J 2018, 'A possible role for platelet-activating factor receptor in amyotrophic lateral sclerosis treatment', Frontiers in Neurology, vol. 9, no. FEB, 39. https://doi.org/10.3389/fneur.2018.00039
Mockus, TE, Shwetank, Lauver, MD, Ren, HM, Netherby, CS, Salameh, T, Imamura, Y, Yue, F, Broach, J & Lukacher, A 2018, 'CD4 T cells control development and maintenance of brain-resident CD8 T cells during polyomavirus infection', PLoS Pathogens, vol. 14, no. 10, e1007365. https://doi.org/10.1371/journal.ppat.1007365
Borges, BJP, Arantes, OMN, Fernandes, AAR, Broach, J & Fernandes, PMB 2018, 'Genetically modified labeling policies: Moving forward or backward?', Frontiers in Bioengineering and Biotechnology, vol. 6, no. NOV, 181. https://doi.org/10.3389/fbioe.2018.00181
ITALSGEN Consortium, Genomic Translation for ALS Care (GTAC) Consortium, ALS Sequencing Consortium, NYGC ALS Consortium, Answer ALS Foundation, Clinical Research in ALS and Related Disorders for Therapeutic Development (CReATe) Consortium, SLAGEN Consortium, French ALS Consortium & Project MinE ALS Sequencing Consortium 2018, 'Genome-wide Analyses Identify KIF5A as a Novel ALS Gene', Neuron, vol. 97, no. 6, pp. 1268-1283.e6. https://doi.org/10.1016/j.neuron.2018.02.027
Dixon, JR, Xu, J, Dileep, V, Zhan, Y, Song, F, Le, VT, Yardımcı, GG, Chakraborty, A, Bann, DV, Wang, Y, Clark, R, Zhang, L, Yang, H, Liu, T, Iyyanki, S, An, L, Pool, C, Sasaki, T, Rivera-Mulia, JC, Ozadam, H, Lajoie, BR, Kaul, R, Buckley, M, Lee, K, Diegel, M, Pezic, D, Ernst, C, Hadjur, S, Odom, DT, Stamatoyannopoulos, JA, Broach, J, Hardison, RC, Ay, F, Noble, WS, Dekker, J, Gilbert, DM & Yue, F 2018, 'Integrative detection and analysis of structural variation in cancer genomes', Nature Genetics, vol. 50, no. 10, pp. 1388-1398. https://doi.org/10.1038/s41588-018-0195-8
The New York Genome Center ALS Consortium 2018, 'Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism', eLife, vol. 7, e37754. https://doi.org/10.7554/eLife.37754

2017

Goldenberg, D, Russo, M, Houser, K, Crist, H, Derr, JB, Walter, V, Warrick, J, Sheldon, KE, Broach, J & Bann, DV 2017, 'Altered molecular profile in thyroid cancers from patients affected by the Three Mile Island nuclear accident', Laryngoscope, vol. 127, pp. S1-S9. https://doi.org/10.1002/lary.26687
Russo, M, Broach, J, Sheldon, K, Houser, KR, Liu, D, Kesterson, J, Phaeton, R, Hossler, C, Hempel, N, Baker, M, Newell, J, Zaino, R & Warrick, J 2017, 'Clonal evolution in paired endometrial intraepithelial neoplasia/atypical hyperplasia and endometrioid adenocarcinoma', Human Pathology, vol. 67, pp. 69-77. https://doi.org/10.1016/j.humpath.2017.07.003
Geronimo, A, Sheldon, KE, Broach, J, Simmons, Z & Schiff, S 2017, 'Expansion of C9ORF72 in amyotrophic lateral sclerosis correlates with brain-computer interface performance' Scientific reports, vol. 7, no. 1, 8875. https://doi.org/10.1038/s41598-017-08857-3
Coble, JL, Yue, F, Salameh, TJ, Harris, LR, Deiling, S, Ruggiero, FM, Eshelman, MA, Yochum, GS, Koltun, WA, Gerhard, GS & Broach, JR 2017, 'Identification of a rare LAMB4 variant associated with familial diverticulitis through exome sequencing', Human Molecular Genetics, vol. 26, no. 16, ddx204, pp. 3212-3220. https://doi.org/10.1093/hmg/ddx204
Chereji, RV, Bharatula, V, Elfving, N, Blomberg, J, Larsson, M, Morozov, AV, Broach, J & Björklund, S 2017, 'Mediator binds to boundaries of chromosomal interaction domains and to proteins involved in DNA looping, RNA metabolism, chromatin remodeling, and actin assembly', Nucleic acids research, vol. 45, no. 15, pp. 8806-8821. https://doi.org/10.1093/nar/gkx491
Kurischko, C & Broach, J 2017, 'Phosphorylation and nuclear transit modulate the balance between normal function and terminal aggregation of the yeast RNA-binding protein Ssd1', Molecular biology of the cell, vol. 28, no. 22, pp. 3057-3069. https://doi.org/10.1091/mbc.E17-02-0100
Gerhard, GS, Bann, DV, Broach, J & Goldenberg, D 2017, 'Pitfalls of exome sequencing: A case study of the attribution of HABP2 rs7080536 in familial non-medullary thyroid cancer', npj Genomic Medicine, vol. 2, no. 1, 8. https://doi.org/10.1038/s41525-017-0011-x

2016

Schiff, S, Kiwanuka, J, Riggio, G, Nguyen, L, Mu, K, Sproul, E, Bazira, J, Mwanga-Amumpaire, J, Tumusiime, D, Nyesigire, E, Lwanga, N, Bogale, KT, Kapur, V, Broach, J, Morton, SU, Warf, BC & Poss, M 2016, 'Separating putative pathogens from background contamination with principal orthogonal decomposition: Evidence for Leptospira in the Ugandan Neonatal Septisome', Frontiers in Medicine, vol. 3, no. JUN, 22. https://doi.org/10.3389/fmed.2016.00022

2015

Rutledge, MT, Russo, M, Belton, JM, Dekker, J & Broach, JR 2015, 'The yeast genome undergoes significant topological reorganization in quiescence', Nucleic Acids Research, vol. 43, no. 17, pp. 8299-8313. https://doi.org/10.1093/nar/gkv723

Clinical Trials Search


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Adults (age >= 18 years)