Preprints

Samaroo J, Almodaimegh A, Larkin JW, “Motile and matrix-producing cells drive distinct modes of cell-scale motion in Bacillus subtilis colonies”, bioRxiv, https://www.biorxiv.org/content/10.64898/2026.05.21.727008v1 (2026). [link]

Saha A, Jones JM, Plummer A, Larkin JW, “Formation of a swelling gel underlies a morphological transition in Bacillus subtilis biofilms”, bioRxiv, https://www.biorxiv.org/content/10.64898/2026.02.20.707077v1 (2026). [link]

Jones JM, Yao M, Mugler A, and Larkin JW, “Colony morphogenesis regulates sporulation dynamics in bacterial biofilms”, bioRxiv, https://doi.org/10.64898/2026.02.11.705348 (2026). [link]

Yao M, Jones JM, Larkin JW, and Mugler A, “Distinguishable spreading dynamics in microbial communities“ arXiv, https://doi.org/10.48550/arXiv.2601.22293 (2026). [link]

Peer-reviewed papers

Brooks C, Yao M, McCool JT, Gillman A, Süel GM, Mugler A, and Larkin JW, “Computational model of fractal interface formation in bacterial biofilms”, Physical Review E, 112, 064408 (2025). [link] [pdf]

Mulder OJ, Peters Kostman M, Almodaimegh A, Edge MD*, and Larkin JW*, “An agent-based model of metabolic signaling oscillations in Bacillus subtilis biofilms”, PLOS Computational Biology, 21, e1013746 (2025). [link] [pdf] Featured on the cover.

Incandela JT, Hu K, Joshi P, Rosenstin JK, and Larkin JW, “Non-optical, label-free electrical capacitance imaging of microorganisms”, mBio, 16, e01676-25 (2025). [link] [pdf]

Abdelatty M, Incandela J, Hu K, Joshi P, Larkin JW, Reda S, and Rosenstein JK, “Electrical Capacitance Tomography of Cell Cultures on a CMOS Microelectrode Array“, IEEE Transactions on Biomedical Circuits and Systems, 18, 799-809 (2024) [link]

Abdelatty M, Incandela J, Hu K, Larkin JW, Reda S, and Rosenstein JK, “Microscale 3-D Capacitance Tomography with a CMOS Sensor Array“, IEEE BioCAS (2023). [link] [pdf]

Hu K, Incandela J, Lian X, Larkin JW, Rosenstein JK, “A 13.1 mm2 512 x 256 Multimodal CMOS Array for Spatiochemical Imaging of Bacterial Biofilms”, IEEE CICC (2022). [link] [pdf]

Yang C*, Bialecka-Fornal M.*, Weatherwax C, Larkin JW, Prindle A, Liu J, Garcia-Ojalvo J, Süel GM, “Encoding membrane potential-based memory within a microbial community“, Cell Systems, 10, 417-423 (2020). [link] [pdf] Featured on the cover.

Zhai X, Larkin JW, Süel GM, and Mugler A. “Spiral wave propagation in communities with spatially correlated heterogeneity“, Biophysical Journal, 118, 1721-1732 (2020). [link] [pdf]

Zhai X., Larkin JW, Kikuchi K., Redford S, Roy U, Süel GM, and Mugler A. “Statistics of correlated percolation in a bacterial community”, PLoS Computational Biology, 15, e1007508 (2019). [link] [pdf]

Larkin JW, Zhai X, Kikuchi K, Redford S, Prindle A, Liu J, Greenfield S, Walczak AM, Garcia-Ojalvo J, Mugler A, and Süel GM. “Signal percolation within a bacterial community”, Cell Systems, 7, 1-9 (2018). [link] [pdf] Featured on the cover.

Larkin J, Henley RY, Jadhav V, Korlach J, and Wanunu M, “Length-Independent DNA Packing into Nanopore Zero-Mode Waveguides for Low-Input DNA Sequencing”, Nature Nanotechnology, 12, 1169–1175 (2017). [link] [pdf]

Liu J, Martinez-Corral R, Prindle A, Lee DYD, Larkin JW, Gabalda-Sagarra M, Garcia-Ojalvo J, and Süel GM, “Coupling between distant biofilms and emergence of nutrient time-sharing”, Science, 356, 638-642 (2017). [link] [pdf]

Waduge P, Bilgin I, Larkin J, Henley RY, Goodfellow K, Graham AC, Bell DC, Vamivakas N, Kar S, and Wanunu M, “Direct and Scalable Deposition of Atomically Thin Low-Noise MoS2 Membranes on Apertures” ACS Nano, 9, 7352–7359 (2015). [link] [pdf]

Waduge P, Larkin J, Upmanyu M, Kar S, and Wanunu M, "Programmed Synthesis of Freestanding Graphene Nanomembrane Arrays" Small, 11, 597-603 (2015). [link] [pdf]

Ivankin A*, Henley RY*, Larkin J, Carson S, Toscano M, and Wanunu M, "Label-Free Optical Detection of Biomolecular Translocation through Nanopore Arrays", ACS Nano, 8, 10774-10781 (2014). [link] [pdf]

Larkin J, Foquet M, Turner SW, Korlach J, and Wanunu M, “Reversible Positioning of Single Molecules Inside Zero-Mode Waveguides”, Nano Letters, 14, 6023-6029 (2014). [link] [pdf]

Connelly L, Meckes B, Larkin J, Gillman AL, Wanunu M, and Lal R, “Graphene Nanopore Support System for Simultaneous High-Resolution AFM Imaging and Conductance Measurements”, ACS Applied Materials and Interfaces, 6, 5290-5296 (2014). [link] [pdf]

Larkin J, Henley R, Muthukumar M, Rosenstein JK, and Wanunu M, “High-Bandwidth Protein Analysis Using Solid-State Nanopores”, Biophysical Journal, 106, 696-704 (2014). [link] [pdf]

Larkin J*, Henley R*, Bell D, Cohen-Karni T, Rosenstein J, and Wanunu M, “Slow DNA Transport through Nanopores in Hafnium Oxide Membranes”, ACS Nano, 7, 10121-10128 (2013). [link] [pdf]

dela Torre R, Larkin J, Singer A, Meller A, “Fabrication and characterization of solid-state nanopore arrays for high-throughput DNA sequencing”, Nanotechnology, 23, 385308 (2012). [link] [pdf]

Reviews

Jones JM and Larkin JW, “Toward Bacterial Bioelectric Signal Transduction”, Bioelectricity, 3, 116-119 (2021) [link] [pdf]

Larkin J, Carson S, Stoloff DJ, and Wanunu M, "Nanopore-Based Analysis of Chemically Modified DNA and Nucleic Acid Drug Targets", Israel Journal of Chemistry, 53, 431-441 (2013). [link] [pdf]