Publications

†: equal contribution

  • Kernfeld EM, Keener R, Cahan PM, & Battle A (2023). Model-X knockoffs reveal data-dependent limits on regulatory network identification. bioRxiv, 2023-05.
  • Kernfeld EM, Yang Y, Weinstock JS, Battle A, & Cahan PM (2023). A systematic comparison of computational methods for expression forecasting. bioRxiv, 2023-07.
  • Kernfeld EM†, Genga RMJ†, Parsi KM, Parsons TJ, Ziller MJ, Maehr R. Single-Cell RNA-Sequencing-Based CRISPRi Screening Resolves Molecular Drivers of Early Human Endoderm Development. Cell Rep. 2019 Apr 16;27(3):708-718.e10.
  • Kernfeld EM†, Genga RM†, Neherin K, Magaletta ME, Xu P, & Maehr R. (2018). A single-cell transcriptomic atlas of thymus organogenesis resolves cell types and developmental maturation. Immunity, 48(6), 1258-1270.
  • Magaletta ME†, Lobo M†, Kernfeld EM†, Aliee H, Huey JD, Parsons TJ, et al. Integration of single-cell transcriptomes and chromatin landscapes reveals regulatory programs driving pharyngeal organ development. Nat Commun. 2022 Jan 24;13(1):457.
  • Kearns NA, Lobo M, Genga RMJ, Abramowitz RG, Parsi KM, Min J, et al. Generation and molecular characterization of human pluripotent stem cell-derived pharyngeal foregut endoderm. Dev Cell. 2023 Sep 25;58(18):1801-1818.e15.
  • Peng D, Jackson D, Palicha B, Kernfeld EM, Laughner N, Shoemaker A, et al. Organogenetic transcriptomes of the Drosophila embryo at single cell resolution. Development. 2024 Jan 15;151(2).
  • Blue EE, Yu CE, Thornton TA, Chapman NH, Kernfeld E, Jiang N, et al. Variants regulating ZBTB4 are associated with age-at-onset of Alzheimer’s disease. Genes Brain Behav. 2018 Jul;17(6):e12429.
  • Fischer DS†, Fiedler AK†, Kernfeld EM, Genga RMJ, Bastidas-Ponce A, Bakhti M, et al. Inferring population dynamics from single-cell RNA-sequencing time series data. Nat Biotechnol. 2019 Apr 1;37(4):461–8.
  • Perlmutter L, Fiannaca A, Kernfeld EM, Anand S, Arnold L, Cakmak M. Automatic adaptation of online language lessons for robot tutoring. In: Agah A, Cabibihan J-J, Howard AM, Salichs MA, He H, editors. Social Robotics. Cham: Springer International Publishing; 2016. p. 660–70.
  • Perlmutter L, Kernfeld EM, Cakmak M. Situated Language Understanding with Human-like and Visualization-Based Transparency. Robotics: Science and Systems XII. Robotics: Science and Systems Foundation; 2016.
  • Kernfeld EM, Kilmer M, Aeron S. Tensor–tensor products with invertible linear transforms. Linear Algebra Appl. 2015 Nov;485:545–70.
  • Aeron S, Kernfeld EM. Group-invariant Subspace Clustering. 2015 53rd Annual Allerton Conference on Communication, Control, and Computing (Allerton). IEEE; 2015. p. 666–71.