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Collection and preprocessing of fine needle aspirate patient samples for single cell profiling and data analysis


Tastanova, Aizhan; Ramelyte, Egle; Balázs, Zsolt; Menzel, Ulrike; Beisel, Christian; Krauthammer, Michael; Dummer, Reinhard; Levesque, Mitchell Paul (2021). Collection and preprocessing of fine needle aspirate patient samples for single cell profiling and data analysis. STAR Protocols, 2(2):100581.

Abstract

High cell viability and recovered cell concentration are typical quality control requirements for single-cell processing and quality data. This protocol describes procedures for sampling, live-cell biobanking, preprocessing for single-cell RNA sequencing, and analysis of fine-needle aspiration (FNA) samples of the skin. The minimally invasive nature of FNA collection is more accepted by patients and allows for frequent longitudinal sampling, resulting in high-quality single-cell sequencing data that capture cellular heterogeneity in clinical samples.

Abstract

High cell viability and recovered cell concentration are typical quality control requirements for single-cell processing and quality data. This protocol describes procedures for sampling, live-cell biobanking, preprocessing for single-cell RNA sequencing, and analysis of fine-needle aspiration (FNA) samples of the skin. The minimally invasive nature of FNA collection is more accepted by patients and allows for frequent longitudinal sampling, resulting in high-quality single-cell sequencing data that capture cellular heterogeneity in clinical samples.

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Item Type:Journal Article, refereed, further contribution
Communities & Collections:04 Faculty of Medicine > University Hospital Zurich > Dermatology Clinic
Dewey Decimal Classification:610 Medicine & health
Language:English
Date:18 June 2021
Deposited On:23 Jun 2021 14:56
Last Modified:01 Jul 2021 18:14
Publisher:Cell Press (Elsevier)
ISSN:2666-1667
OA Status:Gold
Free access at:PubMed ID. An embargo period may apply.
Publisher DOI:https://doi.org/10.1016/j.xpro.2021.100581
PubMed ID:34151301

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