دورية أكاديمية
FixNCut: single-cell genomics through reversible tissue fixation and dissociation.
| العنوان: | FixNCut: single-cell genomics through reversible tissue fixation and dissociation. |
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| المؤلفون: | Jiménez-Gracia L; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Marchese D; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Nieto JC; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Caratù G; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Melón-Ardanaz E; Inflammatory Bowel Disease Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), Barcelona, Spain., Gudiño V; Inflammatory Bowel Disease Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), Barcelona, Spain., Roth S; Cancer Immunology Program, Peter MacCallum Cancer Centre, Melbourne, VIC, Australia.; Sir Peter MacCallum Department of Oncology, The University of Melbourne, Melbourne, VIC, Australia.; Monash University Department of Surgery, Alfred Hospital, Melbourne, VIC, Australia., Wise K; Adelaide Centre for Epigenetics (ACE), University of Adelaide, Adelaide, South Australia, Australia.; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Australian Genomics Research Facility, Adelaide, South Australia, Australia., Ryan NK; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Freemasons Foundation Centre for Men's Health, University of Adelaide, Adelaide, South Australia, Australia.; South Australian Health and Medical Research Institute, Adelaide, South Australia, Australia., Jensen KB; Adelaide Centre for Epigenetics (ACE), University of Adelaide, Adelaide, South Australia, Australia.; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Australian Genomics Research Facility, Adelaide, South Australia, Australia., Hernando-Momblona X; Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Barcelona, Spain.; Centro de Investigación Biomédica en Red de Cáncer (CIBERONC), Barcelona, Spain., Bernardes JP; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany., Tran F; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.; Department of Internal Medicine I, University Hospital Schleswig-Holstein (UKSH), Campus Kiel, Kiel, Germany., Sievers LK; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.; Department of Internal Medicine I, University Hospital Schleswig-Holstein (UKSH), Campus Kiel, Kiel, Germany., Schreiber S; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany.; Department of Internal Medicine I, University Hospital Schleswig-Holstein (UKSH), Campus Kiel, Kiel, Germany., van den Berge M; Department of Pulmonary Diseases, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., Kole T; Department of Pulmonary Diseases, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., van der Velde PL; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Department of Pathology & Medical Biology, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., Nawijn MC; Groningen Research Institute for Asthma and COPD, University of Groningen, University Medical Center Groningen, Groningen, Netherlands.; Department of Pathology & Medical Biology, University of Groningen, University Medical Center Groningen, Groningen, Netherlands., Rosenstiel P; Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany., Batlle E; Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, Barcelona, Spain.; Centro de Investigación Biomédica en Red de Cáncer (CIBERONC), Barcelona, Spain.; ICREA, Barcelona, Spain., Butler LM; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia.; Freemasons Foundation Centre for Men's Health, University of Adelaide, Adelaide, South Australia, Australia.; South Australian Health and Medical Research Institute, Adelaide, South Australia, Australia., Parish IA; Cancer Immunology Program, Peter MacCallum Cancer Centre, Melbourne, VIC, Australia.; Sir Peter MacCallum Department of Oncology, The University of Melbourne, Melbourne, VIC, Australia., Plummer J; St Jude Children's Research Hospital, Memphis, TN, 38105, USA., Gut I; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain.; Universitat de Barcelona (UB), Barcelona, Spain., Salas A; Inflammatory Bowel Disease Group, Institut d'Investigacions Biomèdiques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBEREHD), Barcelona, Spain., Heyn H; Centro Nacional de Análisis Genómico (CNAG), 08028, Barcelona, Spain. holger.heyn@cnag.eu.; Universitat de Barcelona (UB), Barcelona, Spain. holger.heyn@cnag.eu.; Omniscope, Barcelona, Spain. holger.heyn@cnag.eu., Martelotto LG; Adelaide Centre for Epigenetics (ACE), University of Adelaide, Adelaide, South Australia, Australia. luciano.martelotto@adelaide.edu.au.; South Australian immunoGENomics Cancer Institute (SAiGENCI), University of Adelaide, Adelaide, South Australia, Australia. luciano.martelotto@adelaide.edu.au.; Omniscope, Barcelona, Spain. luciano.martelotto@adelaide.edu.au. |
| المصدر: | Genome biology [Genome Biol] 2024 Mar 29; Vol. 25 (1), pp. 81. Date of Electronic Publication: 2024 Mar 29. |
| نوع المنشور: | Journal Article; Research Support, Non-U.S. Gov't |
| اللغة: | English |
| بيانات الدورية: | Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE |
| أسماء مطبوعة: | Publication: London, UK : BioMed Central Ltd Original Publication: London : Genome Biology Ltd., c2000- |
| مواضيع طبية MeSH: | RNA*/genetics , Genomics*/methods, Humans ; Animals ; Mice ; Tissue Fixation/methods ; Reproducibility of Results ; Sequence Analysis, RNA/methods ; Single-Cell Analysis/methods |
| مستخلص: | 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. (© 2024. Crown.) |
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| معلومات مُعتمدة: | 848028 H2020 European Research Council; 831434 Innovative Medicines Initiative; FPU19/04886 Ministerio de Universidades; 2008-04050 Leona M. and Harry B. Helmsley Charitable Trust; RH042155 Ministerio de Ciencia e Innovación; PID2021-123918OB-I00 Ministerio de Ciencia e Innovación |
| فهرسة مساهمة: | Keywords: Cellular stress; RNA sequencing; Sample fixation; Single-cell genomics; Tissue dissociation |
| المشرفين على المادة: | 63231-63-0 (RNA) |
| تواريخ الأحداث: | Date Created: 20240330 Date Completed: 20240401 Latest Revision: 20240701 |
| رمز التحديث: | 20240702 |
| مُعرف محوري في PubMed: | PMC10979608 |
| DOI: | 10.1186/s13059-024-03219-5 |
| PMID: | 38553769 |
| قاعدة البيانات: | MEDLINE |
Find this article in full text from Springer Verlag. 
Full Text Finder | تدمد: | 1474-760X |
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| DOI: | 10.1186/s13059-024-03219-5 |