PT  - JOURNAL ARTICLE
AU  - Xiaoyin Chen
AU  - Yu-Chi Sun
AU  - Huiqing Zhan
AU  - Justus M Kebschull
AU  - Stephan Fischer
AU  - Katherine Matho
AU  - Z. Josh Huang
AU  - Jesse Gillis
AU  - Anthony M Zador
TI  - High-throughput mapping of long-range neuronal projection using <em>in situ</em> sequencing
AID  - 10.1101/294637
DP  - 2019 Jan 01
TA  - bioRxiv
PG  - 294637
4099  - http://biorxiv.org/content/early/2019/07/30/294637.short
4100  - http://biorxiv.org/content/early/2019/07/30/294637.full
AB  - Understanding neural circuits requires deciphering interactions among myriad cell types defined by spatial organization, connectivity, gene expression, and other properties. Resolving these cell types requires both single neuron resolution and high throughput, a challenging combination with conventional methods. Here we introduce BARseq, a multiplexed method based on RNA barcoding for mapping projections of thousands of spatially resolved neurons in a single brain, and relating those projections to other properties such as gene or Cre expression. Mapping the projections to 11 areas of 3579 neurons in mouse auditory cortex using BARseq confirmed the laminar organization of the three top classes (IT, PT-like and CT) of projection neurons. In depth analysis uncovered a novel projection type restricted almost exclusively to transcriptionally-defined subtypes of IT neurons. By bridging anatomical and transcriptomic approaches at cellular resolution with high throughput, BARseq can potentially uncover the organizing principles underlying the structure and formation of neural circuits.