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Patch-sequencing

Patch-sequencing (patch-seq) is a modification of patch-clamp technique that combines electrophysiological, transcriptomic and morphological characterization of individual neurons. In this approach, the neuron's cytoplasm is collected and processed for RNAseq after electrophysiological recordings are performed on it. The cell is simultaneously filled…

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Overview

Background

Preparation and model system choice

Patch-sequencing workflow

Downstream data analysis

Applications

Limitations

Future directions

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Patch-sequencing

Nodes64
Edges63
Triples24
Avg. degree1.97
Density0.03125
Components1

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Important terminology

cell data patch-seq neurons cells neuronal morphological electrophysiological patch quality pipette recording types sequencing well using type seal nucleus neuron

Entity relationships Subject–Predicate–Object triples

SubjectPredicateObjectConfidenceSrc
pancreatic or cardiac cellsinstance ofPatch-seq is also applied to non-neuronal studies0.80text
MIESinstance ofThe data is recorded and analyzed with commercial or open-source software0.80text
PATCHMASTERinstance ofThe data is recorded and analyzed with commercial or open-source software0.80text
pCLAMPinstance ofThe data is recorded and analyzed with commercial or open-source software0.80text
WaveSurferinstance ofThe data is recorded and analyzed with commercial or open-source software0.80text
among others.Neurons are pre-stimulated to verify their resting membrane potentialinstance ofThe data is recorded and analyzed with commercial or open-source software0.80text
stabilize their baseline acrossinstance ofThe data is recorded and analyzed with commercial or open-source software0.80text
within experimentsinstance ofThe data is recorded and analyzed with commercial or open-source software0.80text
the Compresstome vibratomeinstance ofHealthy brain slices are typically prepared using tools0.80text
ensuring optimal conditions for accurateinstance ofHealthy brain slices are typically prepared using tools0.80text
reliable recordings.Nucleus extractionNegative pressure is used to move the nucleus near the pipette tip while moving the electrode near the center of the somainstance ofHealthy brain slices are typically prepared using tools0.80text
astrocytes or other types of neuronsinstance ofin some cases including RNA contamination from adjacent cells0.80text

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