FixNCut: single-cell genomics through reversible tissue fixation and dissociation

Abstract The use of single-cell technologies for clinical applications requires disconnecting sampling from downstream processing steps. Early sample preservation can further increase robustness and reproducibility by avoiding artifacts introduced during specimen handling. We present FixNCut, a meth...
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Autor*in:	Jiménez-Gracia, Laura [verfasserIn] Marchese, Domenica Nieto, Juan C. Caratù, Ginevra Melón-Ardanaz, Elisa Gudiño, Victoria Roth, Sara Wise, Kellie Ryan, Natalie K. Jensen, Kirk B. Hernando-Momblona, Xavier Bernardes, Joana P. Tran, Florian Sievers, Laura Katharina Schreiber, Stefan van den Berge, Maarten Kole, Tessa van der Velde, Petra L. Nawijn, Martijn C. Rosenstiel, Philip Batlle, Eduard Butler, Lisa M. Parish, Ian A. Plummer, Jasmine Gut, Ivo Salas, Azucena Heyn, Holger Martelotto, Luciano G.

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2024

Schlagwörter:	Single-cell genomics RNA sequencing Sample fixation Tissue dissociation Cellular stress

Anmerkung:	© Crown 2024

Übergeordnetes Werk:	Enthalten in: Genome biology - BioMed Central, 2000, 25(2024), 1 vom: 29. März
Übergeordnetes Werk:	volume:25 ; year:2024 ; number:1 ; day:29 ; month:03

Links:	Volltext

DOI / URN:	10.1186/s13059-024-03219-5

Katalog-ID:	SPR055350747

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allfieldsSound	10.1186/s13059-024-03219-5 doi (DE-627)SPR055350747 (SPR)s13059-024-03219-5-e DE-627 ger DE-627 rakwb eng 570 VZ BIODIV DE-30 fid 42.13 bkl 42.20 bkl Jiménez-Gracia, Laura verfasserin aut FixNCut: single-cell genomics through reversible tissue fixation and dissociation 2024 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Crown 2024 Abstract The use of single-cell technologies for clinical applications requires disconnecting sampling from downstream processing steps. Early sample preservation can further increase robustness and reproducibility by avoiding artifacts introduced during specimen handling. We present FixNCut, a methodology for the reversible fixation of tissue followed by dissociation that overcomes current limitations. We applied FixNCut to human and mouse tissues to demonstrate the preservation of RNA integrity, sequencing library complexity, and cellular composition, while diminishing stress-related artifacts. Besides single-cell RNA sequencing, FixNCut is compatible with multiple single-cell and spatial technologies, making it a versatile tool for robust and flexible study designs. Single-cell genomics (dpeaa)DE-He213 RNA sequencing (dpeaa)DE-He213 Sample fixation (dpeaa)DE-He213 Tissue dissociation (dpeaa)DE-He213 Cellular stress (dpeaa)DE-He213 Marchese, Domenica aut Nieto, Juan C. aut Caratù, Ginevra aut Melón-Ardanaz, Elisa aut Gudiño, Victoria aut Roth, Sara aut Wise, Kellie aut Ryan, Natalie K. aut Jensen, Kirk B. aut Hernando-Momblona, Xavier aut Bernardes, Joana P. aut Tran, Florian aut Sievers, Laura Katharina aut Schreiber, Stefan aut van den Berge, Maarten aut Kole, Tessa aut van der Velde, Petra L. aut Nawijn, Martijn C. aut Rosenstiel, Philip aut Batlle, Eduard aut Butler, Lisa M. aut Parish, Ian A. aut Plummer, Jasmine aut Gut, Ivo aut Salas, Azucena aut Heyn, Holger (orcid)0000-0002-3276-1889 aut Martelotto, Luciano G. aut Enthalten in Genome biology BioMed Central, 2000 25(2024), 1 vom: 29. März (DE-627)326173617 (DE-600)2040529-7 1474-760X nnns volume:25 year:2024 number:1 day:29 month:03 https://dx.doi.org/10.1186/s13059-024-03219-5 kostenfrei Volltext SYSFLAG_0 GBV_SPRINGER FID-BIODIV SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2003 GBV_ILN_2014 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 42.13 VZ 42.20 VZ AR 25 2024 1 29 03
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source	Enthalten in Genome biology 25(2024), 1 vom: 29. März volume:25 year:2024 number:1 day:29 month:03
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author	Jiménez-Gracia, Laura
spellingShingle	Jiménez-Gracia, Laura ddc 570 fid BIODIV bkl 42.13 bkl 42.20 misc Single-cell genomics misc RNA sequencing misc Sample fixation misc Tissue dissociation misc Cellular stress FixNCut: single-cell genomics through reversible tissue fixation and dissociation
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topic_title	570 VZ BIODIV DE-30 fid 42.13 bkl 42.20 bkl FixNCut: single-cell genomics through reversible tissue fixation and dissociation Single-cell genomics (dpeaa)DE-He213 RNA sequencing (dpeaa)DE-He213 Sample fixation (dpeaa)DE-He213 Tissue dissociation (dpeaa)DE-He213 Cellular stress (dpeaa)DE-He213
topic	ddc 570 fid BIODIV bkl 42.13 bkl 42.20 misc Single-cell genomics misc RNA sequencing misc Sample fixation misc Tissue dissociation misc Cellular stress
topic_unstemmed	ddc 570 fid BIODIV bkl 42.13 bkl 42.20 misc Single-cell genomics misc RNA sequencing misc Sample fixation misc Tissue dissociation misc Cellular stress
topic_browse	ddc 570 fid BIODIV bkl 42.13 bkl 42.20 misc Single-cell genomics misc RNA sequencing misc Sample fixation misc Tissue dissociation misc Cellular stress
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title	FixNCut: single-cell genomics through reversible tissue fixation and dissociation
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title_full	FixNCut: single-cell genomics through reversible tissue fixation and dissociation
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author_browse	Jiménez-Gracia, Laura Marchese, Domenica Nieto, Juan C. Caratù, Ginevra Melón-Ardanaz, Elisa Gudiño, Victoria Roth, Sara Wise, Kellie Ryan, Natalie K. Jensen, Kirk B. Hernando-Momblona, Xavier Bernardes, Joana P. Tran, Florian Sievers, Laura Katharina Schreiber, Stefan van den Berge, Maarten Kole, Tessa van der Velde, Petra L. Nawijn, Martijn C. Rosenstiel, Philip Batlle, Eduard Butler, Lisa M. Parish, Ian A. Plummer, Jasmine Gut, Ivo Salas, Azucena Heyn, Holger Martelotto, Luciano G.
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title_sort	fixncut: single-cell genomics through reversible tissue fixation and dissociation
title_auth	FixNCut: single-cell genomics through reversible tissue fixation and dissociation
abstract	Abstract The use of single-cell technologies for clinical applications requires disconnecting sampling from downstream processing steps. Early sample preservation can further increase robustness and reproducibility by avoiding artifacts introduced during specimen handling. We present FixNCut, a methodology for the reversible fixation of tissue followed by dissociation that overcomes current limitations. We applied FixNCut to human and mouse tissues to demonstrate the preservation of RNA integrity, sequencing library complexity, and cellular composition, while diminishing stress-related artifacts. Besides single-cell RNA sequencing, FixNCut is compatible with multiple single-cell and spatial technologies, making it a versatile tool for robust and flexible study designs. © Crown 2024
abstractGer	Abstract The use of single-cell technologies for clinical applications requires disconnecting sampling from downstream processing steps. Early sample preservation can further increase robustness and reproducibility by avoiding artifacts introduced during specimen handling. We present FixNCut, a methodology for the reversible fixation of tissue followed by dissociation that overcomes current limitations. We applied FixNCut to human and mouse tissues to demonstrate the preservation of RNA integrity, sequencing library complexity, and cellular composition, while diminishing stress-related artifacts. Besides single-cell RNA sequencing, FixNCut is compatible with multiple single-cell and spatial technologies, making it a versatile tool for robust and flexible study designs. © Crown 2024
abstract_unstemmed	Abstract The use of single-cell technologies for clinical applications requires disconnecting sampling from downstream processing steps. Early sample preservation can further increase robustness and reproducibility by avoiding artifacts introduced during specimen handling. We present FixNCut, a methodology for the reversible fixation of tissue followed by dissociation that overcomes current limitations. We applied FixNCut to human and mouse tissues to demonstrate the preservation of RNA integrity, sequencing library complexity, and cellular composition, while diminishing stress-related artifacts. Besides single-cell RNA sequencing, FixNCut is compatible with multiple single-cell and spatial technologies, making it a versatile tool for robust and flexible study designs. © Crown 2024
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title_short	FixNCut: single-cell genomics through reversible tissue fixation and dissociation
url	https://dx.doi.org/10.1186/s13059-024-03219-5
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author2	Marchese, Domenica Nieto, Juan C. Caratù, Ginevra Melón-Ardanaz, Elisa Gudiño, Victoria Roth, Sara Wise, Kellie Ryan, Natalie K. Jensen, Kirk B. Hernando-Momblona, Xavier Bernardes, Joana P. Tran, Florian Sievers, Laura Katharina Schreiber, Stefan van den Berge, Maarten Kole, Tessa van der Velde, Petra L. Nawijn, Martijn C. Rosenstiel, Philip Batlle, Eduard Butler, Lisa M. Parish, Ian A. Plummer, Jasmine Gut, Ivo Salas, Azucena Heyn, Holger Martelotto, Luciano G.
author2Str	Marchese, Domenica Nieto, Juan C. Caratù, Ginevra Melón-Ardanaz, Elisa Gudiño, Victoria Roth, Sara Wise, Kellie Ryan, Natalie K. Jensen, Kirk B. Hernando-Momblona, Xavier Bernardes, Joana P. Tran, Florian Sievers, Laura Katharina Schreiber, Stefan van den Berge, Maarten Kole, Tessa van der Velde, Petra L. Nawijn, Martijn C. Rosenstiel, Philip Batlle, Eduard Butler, Lisa M. Parish, Ian A. Plummer, Jasmine Gut, Ivo Salas, Azucena Heyn, Holger Martelotto, Luciano G.
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up_date	2024-07-03T15:03:23.793Z
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FixNCut: single-cell genomics through reversible tissue fixation and dissociation

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