File:ScATAC-seq analysis in human bone marrow and mouse HSCs.webp

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Captions

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From the study "Universal DNA methylation age across mammalian tissues"

Summary

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Description
English: "a–i, Results using human BMNCs. j, Murine HSCs. a, scATAC-seq results for 17 of the 35 genes (listed in Supplementary Table 3) that show a called ATAC peak in the region overlapping with our top CpG sites with positive age correlation. The y axis lists the gene symbol. The x axis reports the Pearson correlation between chronological age and the percentage of cells with an scATAC-seq signal overlapping the respective CpG site (labeled by the adjacent gene). The genes are ordered by correlation estimate (from the most negative). A negative correlation estimate indicates that the accessibility of the CpG site decreases with chronological age. Each dot presents a gene. Seven genes with P < 0.05 are marked with a solid shape. b, scATAC-seq analysis results for LHFPL4. The y axis depicts chronological age, and the x axis shows the percentage of cells with an scATAC-seq signal. c, Percentage of cells identified containing scATAC-seq signal in one of the seven significantly associated genes averaged across all samples. Cells are split into the called identities using the scRNA-seq measurement including HSCs, the various progenitors and differentiated cells. DC, dendritic cell; mono, monocyte; MK/E prog, megakaryocyte-erythroid progenitor; G/M prog, granulocyte-monocyte progenitor; NK, natural killer; prog, progenitor; RBC, red blood cell. d–f, The percentage of these three cell populations (HSC (d), progenitor (e) and differentiated cell type (f)) that contain at least one ATAC-seq signal in any of the seven significant genes, plotted against the age of each individual (y axis). g–i, The percentage of these three cell populations per individual (HSC (g), progenitor (h) and differentiated cell type (i)), plotted against the age of each individual. j, The percentage of cells with called ATAC peaks overlapping with our mammalian CpG sites in young mouse (10-week) versus old mouse (20-month) HSCs. The red dots denote 33 of the top 35 positively age-related CpG sites (listed in Supplementary Table 3) that map to the mouse genome. The red dashed line corresponds to the diagonal line (y=x). All P values reported are unadjusted and two sided."
Date
Source https://www.nature.com/articles/s43587-023-00462-6
Author Authors of the study: A. T. Lu, Z. Fei, A. Haghani, T. R. Robeck, J. A. Zoller, C. Z. Li, R. Lowe, Q. Yan, J. Zhang, H. Vu, J. Ablaeva, V. A. Acosta-Rodriguez, D. M. Adams, J. Almunia, A. Aloysius, R. Ardehali, A. Arneson, C. S. Baker, G. Banks, K. Belov, N. C. Bennett, P. Black, D. T. Blumstein, E. K. Bors, C. E. Breeze, R. T. Brooke, J. L. Brown, G. G. Carter, A. Caulton, J. M. Cavin, L. Chakrabarti, I. Chatzistamou, H. Chen, K. Cheng, P. Chiavellini, O. W. Choi, S. M. Clarke, L. N. Cooper, M. L. Cossette, J. Day, J. DeYoung, S. DiRocco, C. Dold, E. E. Ehmke, C. K. Emmons, S. Emmrich, E. Erbay, C. Erlacher-Reid, C. G. Faulkes, S. H. Ferguson, C. J. Finno, J. E. Flower, J. M. Gaillard, E. Garde, L. Gerber, V. N. Gladyshev, V. Gorbunova, R. G. Goya, M. J. Grant, C. B. Green, E. N. Hales, M. B. Hanson, D. W. Hart, M. Haulena, K. Herrick, A. N. Hogan, C. J. Hogg, T. A. Hore, T. Huang, J. C. Izpisua Belmonte, A. J. Jasinska, G. Jones, E. Jourdain, O. Kashpur, H. Katcher, E. Katsumata, V. Kaza, H. Kiaris, M. S. Kobor, P. Kordowitzki, W. R. Koski, M. Krützen, S. B. Kwon, B. Larison, S. G. Lee, M. Lehmann, J. F. Lemaitre, A. J. Levine, C. Li, X. Li, A. R. Lim, D. T. S. Lin, D. M. Lindemann, T. J. Little, N. Macoretta, D. Maddox, C. O. Matkin, J. A. Mattison, M. McClure, J. Mergl, J. J. Meudt, G. A. Montano, K. Mozhui, J. Munshi-South, A. Naderi, M. Nagy, P. Narayan, P. W. Nathanielsz, N. B. Nguyen, C. Niehrs, J. K. O’Brien, P. O’Tierney Ginn, D. T. Odom, A. G. Ophir, S. Osborn, E. A. Ostrander, K. M. Parsons, K. C. Paul, M. Pellegrini, K. J. Peters, A. B. Pedersen, J. L. Petersen, D. W. Pietersen, G. M. Pinho, J. Plassais, J. R. Poganik, N. A. Prado, P. Reddy, B. Rey, B. R. Ritz, J. Robbins, M. Rodriguez, J. Russell, E. Rydkina, L. L. Sailer, A. B. Salmon, A. Sanghavi, K. M. Schachtschneider, D. Schmitt, T. Schmitt, L. Schomacher, L. B. Schook, K. E. Sears, A. W. Seifert, A. Seluanov, A. B. A. Shafer, D. Shanmuganayagam, A. V. Shindyapina, M. Simmons, K. Singh, I. Sinha, J. Slone, R. G. Snell, E. Soltanmaohammadi, M. L. Spangler, M. C. Spriggs, L. Staggs, N. Stedman, K. J. Steinman, D. T. Stewart, V. J. Sugrue, B. Szladovits, J. S. Takahashi, M. Takasugi, E. C. Teeling, M. J. Thompson, B. Van Bonn, S. C. Vernes, D. Villar, H. V. Vinters, M. C. Wallingford, N. Wang, R. K. Wayne, G. S. Wilkinson, C. K. Williams, R. W. Williams, X. W. Yang, M. Yao, B. G. Young, B. Zhang, Z. Zhang, P. Zhao, Y. Zhao, W. Zhou, J. Zimmermann, J. Ernst, K. Raj & S. Horvath

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Date/TimeThumbnailDimensionsUserComment
current12:00, 15 October 2023Thumbnail for version as of 12:00, 15 October 20231,764 × 2,634 (198 KB)Prototyperspective (talk | contribs)Uploaded a work by Authors of the study: A. T. Lu, Z. Fei, A. Haghani, T. R. Robeck, J. A. Zoller, C. Z. Li, R. Lowe, Q. Yan, J. Zhang, H. Vu, J. Ablaeva, V. A. Acosta-Rodriguez, D. M. Adams, J. Almunia, A. Aloysius, R. Ardehali, A. Arneson, C. S. Baker, G. Banks, K. Belov, N. C. Bennett, P. Black, D. T. Blumstein, E. K. Bors, C. E. Breeze, R. T. Brooke, J. L. Brown, G. G. Carter, A. Caulton, J. M. Cavin, L. Chakrabarti, I. Chatzistamou, H. Chen, K. Cheng, P. Chiavellini, O. W. Choi, S. M. Cl...

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