Andrew Payne

Andrew studied Engineering Science at the University of Toronto. Formerly, as a visiting student at the MIT Media Lab and at the Harvard Wyss Institute, Andrew and his colleagues designed tools for a networked biology lab, investigated composite nanosystems self-assembled from peptides and nucleic acids, and developed a novel method for physically elongating and positioning strands of DNA. As a student in the Boyden lab, he completed a PhD on inventing and applying new technologies for visualizing the structure and sequence of genomes in situ.

Publications

Combinatorial protein barcodes enable self-correcting neuron tracing with nanoscale molecular context

bioRxiv | 2025

Park SY*, Sheridan A*, An B, Jarvis E, Lyudchik J, Patton W, Axup JY, Chan SW, Damstra HGJ, Leible D, Leung KS, Magno CA, Meeran A, Michalska JM, Rieger F, Wang C, Wu M, Church GM, Funke J, Huffman T, Leeper KGC**, Truckenbrodt S**, Winnubst J**, Kornfeld JMR, Boyden ES+, Rodriques SG***, Payne AC+*** (2025) Combinatorial protein barcodes enable self-correcting neuron tracing with nanoscale molecular context, bioRxiv 2025.09.26.678648, doi: 10.1101/2025.09.26.678648. (*, contributed equally; **, contributed equally; ***, contributed equally; +, co-corresponding)

Expansion in situ genome sequencing links nuclear abnormalities to aberrant chromatin regulation

Science | 2025

Labade AS, Chiang ZD, Comenho C, Reginato PL, Payne AC, Earl AS, Shrestha R, Duarte FM, Habibi E, Zhang R, Church GM, Boyden ES, Chen F, Buenrostro JD (2025) Expansion in situ genome sequencing links nuclear abnormalities to aberrant chromatin regulation, Science 389(6758):eadt2781.

Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems

Science | 2021

Alon S*, Goodwin DR*, Sinha A*, Wassie AT*, Chen F*, Daugharthy ER**, Bando Y, Kajita A, Xue AG, Marrett K, Prior R, Cui Y, Payne AC, Yao CC, Suk HJ, Wang R, Yu CJ, Tillberg P, Reginato P, Pak N, Liu S, Punthambaker S, Iyer EPR, Kohman RE, Miller JA, Lein ES, Lako A, Cullen N, Rodig S, Helvie K, Abravanel DL, Wagle N, Johnson BE, Klughammer J, Slyper M, Waldman J, Jané-Valbuena J, Rozenblatt-Rosen O, Regev A; IMAXT Consortium, Church GM***+, Marblestone AH***, Boyden ES***+ (2021) Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems, Science 371(6528):eaax2656. (* equal contribution, ** key contributions to early stages of project, *** equal contribution, +co-corresponding authors)

In situ genome sequencing resolves DNA sequence and structure in intact biological samples

Science | 2020

Payne AC*, Chiang ZD*, Reginato PL*, Mangiameli SM, Murray EM, Yao CC, Markoulaki S, Earl AS, Labade AS, Jaenisch R, Church GM, Boyden ES**, Buenrostro JD**, Chen F** (2020) In situ genome sequencing resolves DNA sequence and structure in intact biological samples, Science 371(6532):eaay3446. (* equal contribution, **co-corresponding)