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Transcriptomic landscape of blood platelets in healthy donors. / Supernat, Anna; Popęda, Marta; Pastuszak, Krzysztof et al.

In: Scientific reports, Vol. 11, No. 1, 15679, 12.2021, p. 15679.

Research output: Contribution to journalArticleAcademicpeer-review

Harvard

Supernat, A, Popęda, M, Pastuszak, K, Best, MG, Grešner, P, Veld, SI, Siek, B, Bednarz-Knoll, N, Rondina, MT, Stokowy, T, Wurdinger, T, Jassem, J & Żaczek, AJ 2021, 'Transcriptomic landscape of blood platelets in healthy donors', Scientific reports, vol. 11, no. 1, 15679, pp. 15679. https://doi.org/10.1038/s41598-021-94003-z

APA

Supernat, A., Popęda, M., Pastuszak, K., Best, M. G., Grešner, P., Veld, S. I. ., Siek, B., Bednarz-Knoll, N., Rondina, M. T., Stokowy, T., Wurdinger, T., Jassem, J., & Żaczek, A. J. (2021). Transcriptomic landscape of blood platelets in healthy donors. Scientific reports, 11(1), 15679. [15679]. https://doi.org/10.1038/s41598-021-94003-z

Vancouver

Supernat A, Popęda M, Pastuszak K, Best MG, Grešner P, Veld SI et al. Transcriptomic landscape of blood platelets in healthy donors. Scientific reports. 2021 Dec;11(1):15679. 15679. doi: 10.1038/s41598-021-94003-z

Author

Supernat, Anna ; Popęda, Marta ; Pastuszak, Krzysztof et al. / Transcriptomic landscape of blood platelets in healthy donors. In: Scientific reports. 2021 ; Vol. 11, No. 1. pp. 15679.

BibTeX

@article{be587db2d7ea433790d93e69b639e7c2,
title = "Transcriptomic landscape of blood platelets in healthy donors",
abstract = "Blood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with regard to age, sex, blood storage time, unit of collection or library size. Genes B2M, PPBP, TMSB4X, ACTB, FTL, CLU, PF4, F13A1, GNAS, SPARC, PTMA, TAGLN2, OAZ1 and OST4 demonstrated the highest expression in the analysed cohort, remaining substantial transcription consistency. CSF3R gene was found upregulated in males (fold change 2.10, FDR q < 0.05). Cohort dichotomisation according to the median age, showed upregulated KSR1 in the older donors (fold change 2.11, FDR q < 0.05). Unsupervised hierarchical clustering revealed two clusters which were irrespective of age, sex, storage time, collecting unit or library size. However, when donors are analysed globally (as vectors), sex, storage time, library size, the unit of blood collection as well as age impose a certain degree of between- and/or within-group variability. Healthy donor platelet transcriptome retains general consistency, with very few splice variants deviating from the landscape. Although multidimensional analysis reveals statistically significant variability between and within the analysed groups, biologically, these changes are minor and irrelevant while considering disease classification. Our work provides a reference for studies working both on healthy platelets and pathological conditions affecting platelet transcriptome.",
author = "Anna Supernat and Marta Pop{\c e}da and Krzysztof Pastuszak and Best, {Myron G} and Peter Gre{\v s}ner and Veld, {Sjors In 't} and Bart{\l}omiej Siek and Natalia Bednarz-Knoll and Rondina, {Matthew T} and Tomasz Stokowy and Thomas Wurdinger and Jacek Jassem and {\.Z}aczek, {Anna J}",
note = "Funding Information: This research was supported by the SONATA grant of The National Science Centre (2018/31/D/NZ5/01263) and Medical University of Gda{\'n}sk statutory work (ST-23, 02-0023/07). We wish to thank Bartosz Supernat for artwork design and preparation. We would like to acknowledge Adam Wyszomirski for providing biostatistics consultation within the services of the Computational Core located at Medical University of Gda{\'n}sk, Poland. The Core Facility is working as part of “Excellence Initiative—Research University{"} Grant No. MNiSW 07/IDUB/2019/94. Publisher Copyright: {\textcopyright} 2021, The Author(s).",
year = "2021",
month = dec,
doi = "10.1038/s41598-021-94003-z",
language = "English",
volume = "11",
pages = "15679",
journal = "Scientific reports",
issn = "2045-2322",
publisher = "Nature Publishing Group",
number = "1",

}

RIS

TY - JOUR

T1 - Transcriptomic landscape of blood platelets in healthy donors

AU - Supernat, Anna

AU - Popęda, Marta

AU - Pastuszak, Krzysztof

AU - Best, Myron G

AU - Grešner, Peter

AU - Veld, Sjors In 't

AU - Siek, Bartłomiej

AU - Bednarz-Knoll, Natalia

AU - Rondina, Matthew T

AU - Stokowy, Tomasz

AU - Wurdinger, Thomas

AU - Jassem, Jacek

AU - Żaczek, Anna J

N1 - Funding Information: This research was supported by the SONATA grant of The National Science Centre (2018/31/D/NZ5/01263) and Medical University of Gdańsk statutory work (ST-23, 02-0023/07). We wish to thank Bartosz Supernat for artwork design and preparation. We would like to acknowledge Adam Wyszomirski for providing biostatistics consultation within the services of the Computational Core located at Medical University of Gdańsk, Poland. The Core Facility is working as part of “Excellence Initiative—Research University" Grant No. MNiSW 07/IDUB/2019/94. Publisher Copyright: © 2021, The Author(s).

PY - 2021/12

Y1 - 2021/12

N2 - Blood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with regard to age, sex, blood storage time, unit of collection or library size. Genes B2M, PPBP, TMSB4X, ACTB, FTL, CLU, PF4, F13A1, GNAS, SPARC, PTMA, TAGLN2, OAZ1 and OST4 demonstrated the highest expression in the analysed cohort, remaining substantial transcription consistency. CSF3R gene was found upregulated in males (fold change 2.10, FDR q < 0.05). Cohort dichotomisation according to the median age, showed upregulated KSR1 in the older donors (fold change 2.11, FDR q < 0.05). Unsupervised hierarchical clustering revealed two clusters which were irrespective of age, sex, storage time, collecting unit or library size. However, when donors are analysed globally (as vectors), sex, storage time, library size, the unit of blood collection as well as age impose a certain degree of between- and/or within-group variability. Healthy donor platelet transcriptome retains general consistency, with very few splice variants deviating from the landscape. Although multidimensional analysis reveals statistically significant variability between and within the analysed groups, biologically, these changes are minor and irrelevant while considering disease classification. Our work provides a reference for studies working both on healthy platelets and pathological conditions affecting platelet transcriptome.

AB - Blood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with regard to age, sex, blood storage time, unit of collection or library size. Genes B2M, PPBP, TMSB4X, ACTB, FTL, CLU, PF4, F13A1, GNAS, SPARC, PTMA, TAGLN2, OAZ1 and OST4 demonstrated the highest expression in the analysed cohort, remaining substantial transcription consistency. CSF3R gene was found upregulated in males (fold change 2.10, FDR q < 0.05). Cohort dichotomisation according to the median age, showed upregulated KSR1 in the older donors (fold change 2.11, FDR q < 0.05). Unsupervised hierarchical clustering revealed two clusters which were irrespective of age, sex, storage time, collecting unit or library size. However, when donors are analysed globally (as vectors), sex, storage time, library size, the unit of blood collection as well as age impose a certain degree of between- and/or within-group variability. Healthy donor platelet transcriptome retains general consistency, with very few splice variants deviating from the landscape. Although multidimensional analysis reveals statistically significant variability between and within the analysed groups, biologically, these changes are minor and irrelevant while considering disease classification. Our work provides a reference for studies working both on healthy platelets and pathological conditions affecting platelet transcriptome.

UR - http://www.scopus.com/inward/record.url?scp=85111985375&partnerID=8YFLogxK

U2 - 10.1038/s41598-021-94003-z

DO - 10.1038/s41598-021-94003-z

M3 - Article

C2 - 34344933

VL - 11

SP - 15679

JO - Scientific reports

JF - Scientific reports

SN - 2045-2322

IS - 1

M1 - 15679

ER -

ID: 20861053