The paper introduces ExBarSeq, a method for high-resolution multiplexing of barcodes and synaptic proteins in neurons, demonstrating its application in mouse brain tissue.

bioRxiv · Jul 31, 2022 · PreprintNeuroscience

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

Shahar Alon, Daniel Goodwin, Anubhav Sinha, Asmamaw T. Wassie, Fei Chen, Evan R Daugharthy, Yosuke Bando, Atsushi Kajita, Andrew G. Xue, Karl Marrett, Robert Prior, Yi Cui, Andrew C. Payne, Chun‐Chen Yao, Ho‐Jun Suk, , Kirsty Sawicka

ExSeq enables multiplexed RNA mapping at nanoscale resolution by expanding biological specimens for in situ sequencing.

Science · Jan 28, 2021Peer-reviewedGenomics

Precision calcium imaging of dense neural populations via a cell body-targeted calcium indicator

Or A. Shemesh, Changyang Linghu, Kiryl D. Piatkevich, Daniel Goodwin, Orhan T. Celiker, Howard J. Gritton, Michael F. Romano, Ruixuan Gao, Chih-Chieh Yu, Hua-an Tseng, Seth Bensussen, Sujatha Narayan, Chao-Tsung Yang, Limor Freifeld, Cody A. Siciliano, , Edward S. Boyden

The paper develops cell body-targeted calcium indicators to improve signal fidelity in one-photon imaging of neural activity in live mice and zebrafish.

Neuron · Jun 26, 2020Peer-reviewedNeuroscience

Barcoded oligonucleotides ligated on RNA amplified for multiplex and parallel in-situ analyses

Eswar P. R. Iyer, Sukanya Punthambaker, Songlei Liu, Kunal Jindal, Michael Farrell, Jernej Murn, Thomas Ferrante, Stewart Rudnicki, Richie E. Kohman, Asmamaw T. Wassie, Daniel Goodwin, Fei Chen, Shahar Alon, Anubhav Sinha, Denitsa Milanova, , George M. Church

The paper introduces BOLORAMIS, a RT-free method for spatially-resolved, targeted in-situ RNA detection, and demonstrates its use on human iPSCs to identify spatial localization and expression heterogeneity.

bioRxiv · Mar 20, 2018 · PreprintCell Biology