Network cloning using DNA barcodes

Shuvaev, S. A., Baserdem, B., Zador, A. M., Koulakov, A. A. (April 2019) Network cloning using DNA barcodes. Proc Natl Acad Sci U S A, 116 (19). pp. 9610-9615. ISSN 0027-8424

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DOI: 10.1073/pnas.1706012116


The connections between neurons determine the computations performed by both artificial and biological neural networks. Recently, we have proposed SYNSeq, a method for converting the connectivity of a biological network into a form that can exploit the tremendous efficiencies of high-throughput DNA sequencing. In SYNSeq, each neuron is tagged with a random sequence of DNA-a "barcode"-and synapses are represented as barcode pairs. SYNSeq addresses the analysis problem, reducing a network into a suspension of barcode pairs. Here, we formulate a complementary synthesis problem: How can the suspension of barcode pairs be used to "clone" or copy the network back into an uninitialized tabula rasa network? Although this synthesis problem might be expected to be computationally intractable, we find that, surprisingly, this problem can be solved efficiently, using only neuron-local information. We present the "one-barcode-one-cell" (OBOC) algorithm, which forces all barcodes of a given sequence to coalesce into the same neuron, and show that it converges in a number of steps that is a power law of the network size. Rapid and reliable network cloning with single-synapse precision is thus theoretically possible.

Item Type: Paper
Subjects: organs, tissues, organelles, cell types and functions > tissues types and functions > neural networks
organs, tissues, organelles, cell types and functions > sub-cellular tissues: types and functions > synapse
CSHL Authors:
Communities: CSHL labs > Koulakov lab
CSHL labs > Zador lab
Depositing User: Matthew Dunn
Date: 24 April 2019
Date Deposited: 22 May 2019 16:59
Last Modified: 29 Jun 2021 20:15
PMCID: PMC6511037
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