Students

Devanshi Patel

DDevanshi Patelr. Lindsay Farrer’s Lab, Biomedical Genetics
Ph.D. in Bioinformatics, Boston University, Boston, MA (2015- present)
M.S. in Bioinformatics, Boston University, Boston, MA (2014)
B.S. in Biopsychology, Tufts University, Medford, MA (2012)

Research Interests

Using genetics, genomics, bioinformatics, and machine learning to further understand Alzheimer’s Disease

Selected Publications

· Patel D, Mez J, Vardarajan BN,…, Farrer, L. (2019) Association of Rare Coding Mutations With Alzheimer Disease and Other Dementias Among Adults of European Ancestry. JAMA Netw Open. 2019;2(3):e191350. doi:10.1001/jamanetworkopen.2019.1350

· Bis, J., Jian, X., Kunkle, B., Patel, D., Farrer, L. (2018) Whole Exome Sequencing Study Identifies Novel Rare and Common Alzheimer’s-Associated Variants Involved in Immune Response and Transcriptional Regulation. Molecular Psychiatry.

· Cox, J. W.+, Patel, D.+, Chung, J., Zhu, C., Lent, S., Fisher, V.,  Zhang, X. (2018). An efficient analytic approach in genome-wide identification of methylation quantitative trait loci response to fenofibrate treatment. BMC Proceedings, 12(S9). doi:10.1186/s12919-018-0152-7

+Co-first authors

· Bevilacqua, J., Hesse, A., Cormier, B., Davey, J., Patel, D., Shankar, K., & Reddi, H. V. (2017). Clinical utility of a 377 gene custom next-generation sequencing epilepsy panel. Journal of Genetics, 96(4), 681-685. doi:10.1007/s12041-017-0791-x


Rebecca Panitch

Dr. Lindsay Farrer’s Lab, Biomedical Genetics
Ph.D. in Bioinformatics, Boston University
B.S. in Neuroscience, Brandeis University

 


Research Interests

My research primarily focuses on creating APOE specific AD profiles by investigating different multi-omic data. Some of the data I work with includes  RNA-seq, chIP-seq, methylation arrays, and whole-genome sequencing, and I focus on integrating different levels of omic data to find how these elements interact. 

Selected Publications

Ellis S. E., Panitch R., West A. B., & Arking D. E. Transcriptome Analysis of Cortical Tissue Reveals Shared Sets of Down-Regulated Genes in Autism and Schizophrenia. Transl. Psychiatry 6, e817 (2016)


Tong Tong

Dr. Lindsay Farrer’s Lab, Biomedical Genetics
Ph.D. in Bioinformatics, Boston University, Boston, MA (2020 – Present)
M.S. in Bioinformatics, Boston University, Boston, MA (2018 – 2020)


Research Interests

Identification of biomarkers for Alzheimer’s Disease through statistical, genetic, and genomic approaches.


Nicholas O’Neill

Ph.D. Candidate, Boston University
B.S. Biochemistry, Boston College (2013)

Research Interests:
– Single-Cell sequencing analysis
– Alzheimer’s disease progression
– Gene regulation and epigenetics

Selected Publications:
– Jadhav U, Saxena M, O’Neill NK, et al. “Dynamic Reorganization of Chromatin Accessibility Signatures during Dedifferentiation of Secretory Precursors into Lgr5+ Intestinal Stem Cells.” Cell Stem Cell 2017;21(1):65‐77

– Saxena M, Roman AKS, O’Neill NK, Sulahian R, Jadhav U, Shivdasani RA. “Transcription factor-dependent ‘anti-repressive’ mammalian enhancers exclude H3K27me3 from extended genomic domains.” Genes Dev. 2017; 31(23-24):2391‐2404.

– Jadhav U, Nalapareddy K, Saxena M, O’Neill NK, et al. “Acquired Tissue-Specific Promoter Bivalency Is a Basis for PRC2 Necessity in Adult Cells.” Cell 2016; 165:1389-1400

– Cejas P, Li L, O’Neill NK, Duarte M, et al. “Chromatin immunoprecipitation from fixed clinical tissues reveals tumor-specific enhancer profiles.” Nat Med. 2016; 22:685-691