Open this publication in new window or tab >>Department of Cardiovascular Sciences, Center for Molecular and Vascular Biology, KULeuven, Leuven, Belgium.
University of Utah Molecular Medicine Program, Eccles Institute of Human Genetics, Salt Lake City, Utah, USA.
Department of Laboratory Medicine, Faculty of Medicine, University of Debrecen, Debrecen, Hungary.
Department of Laboratory Medicine, Faculty of Medicine, University of Debrecen, Debrecen, Hungary.
University of Utah Molecular Medicine Program, Eccles Institute of Human Genetics, Salt Lake City, Utah, USA.
Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Department of Medicine and Surgery, University of Perugia, Italy.
Department of Medicine and Surgery, University of Perugia, Italy.
Department of Medicine and Surgery, University of Perugia, Italy.
Department of Medicine and Surgery, University of Perugia, Italy.
Research Center, Montreal Heart Institute, Montreal, Quebec, Canada; Faculty of Pharmacy, Université de Montréal, Montreal, Quebec, Canada.
Cardiovascular and Nutrition Centre, C2VN, Aix Marseille Univ, INSERM, INRAE, Marseille, France.
Population Sci9ences Branch, Division of Intramural Research, National Heart, Lung and Blood Institute, Framingham, Massachusetts, USA; The Framingham Heart Study, Framingham, Massachusetts, USA.
Transfusion Medicine, Medical Faculty of Tubingen, University of Tubingen, Tubingen, Germany.
Örebro University, School of Medical Sciences. Cardiovascular Research Centre, School of Medical Sciences, Faculty of Medicine and Health, Örebro University, Örebro, Sweden.
Department of Clinical and Biomedical Sciences, University of Exeter Medical School, Faculty of Health and Life Sciences, RILD Building, Barrack Road, Exeter,UK.
Unit of Cell and Molecular Biology in Cardiovascular Diseases, Centro Cardiologico Monzino IRCCS, Milan, Italy; Department of Pharmaceutical Sciences, Università Degli Studi Di Milano, Milan, Italy.
Unit of Cell and Molecular Biology in Cardiovascular Diseases, Centro Cardiologico Monzino IRCCS, Milan, Italy.
University of Utah Molecular Medicine Program, Eccles Institute of Human Genetics, Salt Lake City, Utah, USA; Department of Internal Medicine, University of Utah Health, Salt Lake City, Utah, USA.
University of Utah Molecular Medicine Program, Eccles Institute of Human Genetics, Salt Lake City, Utah, USA; Department of Internal Medicine, University of Utah Health, Salt Lake City, Utah, USA; George E. Wahlen Veterans Affairs Medical Center & GRECC, Salt Lake City, Utah, USA.
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2024 (English)In: Journal of Thrombosis and Haemostasis, ISSN 1538-7933, E-ISSN 1538-7836, Vol. 22, no 10, p. 2922-2934Article in journal (Refereed) Published
Abstract [en]
Genome-wide platelet transcriptomics is increasingly used to uncover new aspects of platelet biology and as a diagnostic and prognostic tool. Nevertheless, platelet isolation methods for transcriptomic studies are not standardized, introducing challenges for cross-study comparisons, data integration, and replication. In this prospective multicenter study, called "Standardizing Platelet Transcriptomics for Discovery, Diagnostics, and Therapeutics in the Thrombosis and Hemostasis Community (STRIDE)" by the ISTH SSCs, we assessed how three of the most commonly used platelet isolation protocols influence metrics from next-generation bulk RNA sequencing and functional assays. Compared with washing alone, more stringent removal of leukocytes by anti-CD45 beads or PALLTM filters resulted in a sufficient quantity of RNA for next-generation sequencing and similar quality of RNA sequencing metrics. Importantly, stringent removal of leukocytes resulted in the lower relative expression of known leukocyte-specific genes and the higher relative expression of known platelet-specific genes. The results were consistent across enrolling sites, suggesting the techniques are transferrable and reproducible. Moreover, all three isolation techniques did not influence basal platelet reactivity, but agonist-induced integrin αIIbβ3 activation is reduced by anti-CD45 bead isolation compared to washing alone. In conclusion, the isolation technique chosen influences genome-wide transcriptional and functional assays in platelets. These results should help the research community make informed choices about platelet isolation techniques in their own platelet studies.
Place, publisher, year, edition, pages
John Wiley & Sons, 2024
Keywords
Platelets, leukocytes, next generation RNA Seq, platelet transcriptomics
National Category
Bioinformatics and Systems Biology
Identifiers
urn:nbn:se:oru:diva-114655 (URN)10.1016/j.jtha.2024.06.017 (DOI)001318597100001 ()38969303 (PubMedID)2-s2.0-85199677075 (Scopus ID)
Funder
NIH (National Institutes of Health)
Note
Funding Agency:
National Institute for Health and Care Research(NIHR) Exeter Biomedical Research Centre.
2024-07-082024-07-082024-11-01Bibliographically approved