Selected Publications

  1. Sen A, Xu Z, Tyndale S, Yasis J, Cho CY, Bump R, Chandran S, Luo L, Fu Y, Petersen LK, Shokhirev M, Kuo DJ, McVicker GP, Dixon JR. Heterogeneity in chromatin structure drives core regulatory pathways in B-cell Acute Lymphoblastic Leukemia. bioRxiv. 2024:2024.10.04.616668. doi: 10.1101/2024.10.04.616668.
  2. Chen HV, Lorenzini MH, Lavalle SN, Sajeev K, Fonseca A, Fiaux PC, Sen A, Luthra I, Ho AJ, Chen AR, Guruvayurappan K, O’Connor C, McVicker G. Deletion mapping of regulatory elements for GATA3 in T cells reveals a distal enhancer involved in allergic diseases. Am J Hum Genet. 2023, doi: 10.1016/j.ajhg.2023.03.008. PubMed PMID: 36990085; PMCID: PMC10119147.
  3. Sen A, Huo Y, Elster J, Zage PE, McVicker G. Allele-specific expression reveals genes with recurrent cis-regulatory alterations in high-risk neuroblastoma. Genome Biol. 2022. doi: 10.1186/s13059-022-02640-y. PubMed PMID: 35246212;  PMCID: PMC8896304.
  4. Sen A, Prager BC, Zhong C, Park D, Zhu Z, Gimple RC, Wu Q, Bernatchez JA, Beck S, Clark AE, Siqueira-Neto JL, Rich JN, McVicker G. Leveraging Allele-Specific Expression for Therapeutic Response Gene Discovery in Glioblastoma. Cancer Res. 2021. doi: 10.1158/0008-5472.CAN-21-0810. PubMed PMID: 34903607, PMCID: PMC9122831.
  5. Massarat AR, Sen A, Jaureguy J, Tyndale ST, Fu Y, Erikson G, McVicker G. Discovering single nucleotide variants and indels from bulk and single-cell ATAC-seq. Nucleic Acids Res. 2021. doi: 10.1093/nar/gkab621. PubMed PMID: 34313779; PMCID: PMC8373110.
  6. Sen A, Gurdziel K, Liu J, Qu W, Nuga OO, Burl RB, Huttemann M, Pique-Regi R, Ruden DM. Smooth, an hnRNP-L Homolog, Might Decrease Mitochondrial Metabolism by Post-Transcriptional Regulation of Isocitrate Dehydrogenase (Idh) and Other Metabolic Genes in the Sub-Acute Phase of Traumatic Brain Injury. Front Genet. 2017. doi: 10.3389/fgene.2017.00175. PubMed PMID: 29187863; PMCID: PMC5694756.
  7. Senut MC, Zhang Y, Liu F, Sen A, Ruden DM, Mao G. Size-Dependent Toxicity of Gold Nanoparticles on Human Embryonic Stem Cells and Their Neural Derivatives. Small. 2016. doi: 10.1002/smll.201502346. PubMed PMID: 26676601; PMCID: PMC5033512.
  8. Sen A, Heredia N, Senut MC, Land S, Hollocher K, Lu X, Dereski MO, Ruden DM. Multigenerational epigenetic inheritance in humans: DNA methylation changes associated with maternal exposure to lead can be transmitted to the grandchildren. Sci Rep. 2015. doi: 10.1038/srep14466. PubMed PMID: 26417717; PMCID: PMC4586440.
  9. Sen A, Heredia N, Senut MC, Hess M, Land S, Qu W, Hollacher K, Dereski MO, Ruden DM. Early life lead exposure causes gender-specific changes in the DNA methylation profile of DNA extracted from dried blood spots. Epigenomics. 2015. doi: 10.2217/epi.15.2. PubMed PMID: 26077427; PMCID: PMC4501025.
  10. Sen A, Cingolani P, Senut MC, Land S, Mercado-Garcia A, Tellez-Rojo MM, Baccarelli AA, Wright RO, Ruden DM. Lead exposure induces changes in 5-hydroxymethylcytosine clusters in CpG islands in human embryonic stem cells and umbilical cord blood. Epigenetics. 2015.doi: 10.1080/15592294.2015.1050172. PubMed PMID: 26046694; PMCID: PMC4623482.
  11. Senut MC, Sen A, Cingolani P, Shaik A, Land SJ, Ruden DM. Lead exposure disrupts global DNA methylation in human embryonic stem cells and alters their neuronal differentiation. Toxicol Sci. 2014. doi: 10.1093/toxsci/kfu028. PubMed PMID: 24519525; PMCID: PMC4023291.