250 results on '"Kaufman DS"'
Search Results
2. Alleged Lessepsian foraminifera prove native and suggest Pleistocene range expansions into the Mediterranean Sea
- Author
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Albano, PG, primary, Sabbatini, A, additional, Lattanzio, J, additional, Päßler, JF, additional, Steger, J, additional, Hua, Q, additional, Kaufman, DS, additional, Szidat, S, additional, Zuschin, M, additional, and Negri, A, additional
- Published
- 2022
- Full Text
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3. Reconstructing postglacial hydrologic and environmental change in the eastern Kenai Peninsula lowlands using proxy data and mass balance modeling
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Broadman E, Kaufman DS, Anderson RS, Bogle S, Ford M, Fortin D, Henderson ACG, Lacey JH, Leng MJ, McKay NP, Muñoz SE
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- 2022
- Full Text
- View/download PDF
4. Technical note: Open-paleo-data implementation pilot – the PAGES 2k special issue
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Kaufman, DS, Abram, NJ, Evans, MN, Francus, P, Goosse, H, Linderholm, HW, Loutre, MF, Martrat, B, McGregor, HV, Neukom, R, George, SS, Turney, C, Von Gunten, L, and UCL - SST/ELI/ELIC - Earth & Climate
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0301 basic medicine ,Paleoclimate ,010504 meteorology & atmospheric sciences ,Computer science ,data acquisition ,lcsh:Environmental protection ,Stratigraphy ,Digital curation ,data set ,Data loss ,01 natural sciences ,Convention ,03 medical and health sciences ,Data acquisition ,lcsh:Environmental pollution ,paleoclimate ,lcsh:TD169-171.8 ,lcsh:Environmental sciences ,0105 earth and related environmental sciences ,lcsh:GE1-350 ,Data ,Global and Planetary Change ,model ,Paleontology ,Technical note ,Data science ,Data set ,030104 developmental biology ,lcsh:TD172-193.5 ,Stewardship ,Element (criminal law) ,0406 Physical Geography and Environmental Geoscience - Abstract
Data stewardship is an essential element of the publication process. Knowing how to enact data polices that are described only in general terms can be difficult, however. Examples are needed to model the implementation of open-data polices in actual studies. Here we explain the procedure used to attain a high and consistent level of data stewardship across a special issue of the journal Climate of the Past. We discuss the challenges related to (1) determining which data are essential for public archival, (2) using data generated by others, and (3) understanding data citations. We anticipate that open-data sharing in paleo sciences will accelerate as the advantages become more evident and as practices that reduce data loss become the accepted convention. © Author(s) 2018., Institute/Georges Lemaître Centre for Earth and Climate Research, Université Catholique de Louvain, Belgium), Hans W. Linderholm (Regional Climate Group, Department of Earth Sciences, University of Gothenburg, Sweden), Marie-France Loutre (PAGES International Science Office, Bern, Switzerland), Belen Martrat19 (Department of Environmental Chemistry, Institute of Environmental Assessment and Water Research, Spanish Council for Scientific Research, Barcelona, Spain), Helen V. McGregor (School of Earth & Environmental Sciences, University of Wollongong, Australia), Raphael Neukom (Oeschger Centre for Climate Change Research & Institute of Geography, University of Bern, Switzerland), Scott St. George19 (Department of Geography, Environment and Society, University of Minnesota, Minneapolis, USA), Chris Turney (School of Biological, Earth and Environmental Sciences, University of New South Wales, Sydney, Australia), Lucien von Gunten (PAGES International Science Office, Bern, Switzerland).Acknowledgements. We thank the authors of the PAGES 2k special issue, Copernicus Publications, and the paleo-data repositories, who worked with us to develop practices to help reduce the loss of valued data. We are grateful to those who reviewed an earlier version of the paper and contributed to the frank debate in the interactive discussion, including its spin-offs on social media. This paper is a contribution to the Past Global Changes (PAGES) Data Stewardship Integrative Activity. PAGES is supported by the US National Science Foundation, and the Swiss Academy of Sciences. Helen V. McGregor and Nerilie J. Abram are supported by ARC Future Fellowships. Darrell S. Kaufman is funded by NSF-AGS-1602105.
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- 2019
5. Consistent multidecadal variability in global temperature reconstructions and simulations over the Common Era
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Neukom, R, Barboza, LA, Erb, MP, Shi, F, Emile-Geay, J, Evans, MN, Franke, J, Kaufman, DS, Lucke, L, Rehfeld, K, Schurer, A, Zhu, F, Bronnimann, S, Hakim, GJ, Henley, BJ, Ljungqvist, FC, McKay, N, Valler, V, von Gunten, L, Neukom, R, Barboza, LA, Erb, MP, Shi, F, Emile-Geay, J, Evans, MN, Franke, J, Kaufman, DS, Lucke, L, Rehfeld, K, Schurer, A, Zhu, F, Bronnimann, S, Hakim, GJ, Henley, BJ, Ljungqvist, FC, McKay, N, Valler, V, and von Gunten, L
- Abstract
Multidecadal surface temperature changes may be forced by natural as well as anthropogenic factors, or arise unforced from the climate system. Distinguishing these factors is essential for estimating sensitivity to multiple climatic forcings and the amplitude of the unforced variability. Here we present 2,000-year-long global mean temperature reconstructions using seven different statistical methods that draw from a global collection of temperature-sensitive palaeoclimate records. Our reconstructions display synchronous multidecadal temperature fluctuations that are coherent with one another and with fully forced millennial model simulations from the Coupled Model Intercomparison Project Phase 5 across the Common Era. A substantial portion of pre-industrial (1300–1800 CE) variability at multidecadal timescales is attributed to volcanic aerosol forcing. Reconstructions and simulations qualitatively agree on the amplitude of the unforced global mean multidecadal temperature variability, thereby increasing confidence in future projections of climate change on these timescales. The largest warming trends at timescales of 20 years and longer occur during the second half of the twentieth century, highlighting the unusual character of the warming in recent decades.
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- 2019
6. Technical note: Open-paleo-data implementation pilot - The PAGES 2k special issue
- Author
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Kaufman, DS, Abram, NJ, Evans, MN, Francus, P, Goosse, H, Linderholm, HW, Loutre, MF, Martrat, B, McGregor, HV, Neukom, R, George, SS, Turney, C, Von Gunten, L, Kaufman, DS, Abram, NJ, Evans, MN, Francus, P, Goosse, H, Linderholm, HW, Loutre, MF, Martrat, B, McGregor, HV, Neukom, R, George, SS, Turney, C, and Von Gunten, L
- Abstract
Data stewardship is an essential element of the publication process. Knowing how to enact data polices that are described only in general terms can be difficult, however. Examples are needed to model the implementation of open-data polices in actual studies. Here we explain the procedure used to attain a high and consistent level of data stewardship across a special issue of the journal Climate of the Past. We discuss the challenges related to (1) determining which data are essential for public archival, (2) using data generated by others, and (3) understanding data citations. We anticipate that open-data sharing in paleo sciences will accelerate as the advantages become more evident and as practices that reduce data loss become the accepted convention.
- Published
- 2018
7. Building open data: Data stewards and community-curated data resources
- Author
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Williams, John W, primary, Kaufman, DS, additional, Newton, A, additional, and von Gunten, L, additional
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- 2018
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8. Building and harnessing open paleodata
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Williams, John W, primary, Kaufman, DS, additional, Newton, A, additional, and von Gunten, L, additional
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- 2018
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9. Data Descriptor: A global multiproxy database for temperature reconstructions of the Common Era
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Emile-Geay, J, McKay, NP, Kaufman, DS, von Gunten, L, Wang, J, Anchukaitis, KJ, Abram, NJ, Addison, JA, Curran, MAJ, Evans, MN, Henley, BJ, Hao, Z, Martrat, B, McGregor, HV, Neukom, R, Pederson, GT, Stenni, B, Thirumalai, K, Werner, JP, Xu, C, Divine, DV, Dixon, BC, Gergis, J, Mundo, IA, Nakatsuka, T, Phipps, SJ, Routson, CC, Steig, EJ, Tierney, JE, Tyler, JJ, Allen, KJ, Bertler, NAN, Bjorklund, J, Chase, BM, Chen, M-T, Cook, E, de Jong, R, DeLong, KL, Dixon, DA, Ekaykin, AA, Ersek, V, Filipsson, HL, Francus, P, Freund, MB, Frezzotti, M, Gaire, NP, Gajewski, K, Ge, Q, Goosse, H, Gornostaeva, A, Grosjean, M, Horiuchi, K, Hormes, A, Husum, K, Isaksson, E, Kandasamy, S, Kawamura, K, Kilbourne, KH, Koc, N, Leduc, G, Linderholm, HW, Lorrey, AM, Mikhalenko, V, Mortyn, PG, Motoyama, H, Moy, AD, Mulvaney, R, Munz, PM, Nash, DJ, Oerter, H, Opel, T, Orsi, AJ, Ovchinnikov, DV, Porter, TJ, Roop, HA, Saenger, C, Sano, M, Sauchyn, D, Saunders, KM, Seidenkrantz, M-S, Severi, M, Shao, X, Sicre, M-A, Sigl, M, Sinclair, K, St George, S, St Jacques, J-M, Thamban, M, Thapa, UK, Thomas, ER, Turney, C, Uemura, R, Viau, AE, Vladimirova, DO, Wahl, ER, White, JWC, Yu, Z, Zinke, J, Emile-Geay, J, McKay, NP, Kaufman, DS, von Gunten, L, Wang, J, Anchukaitis, KJ, Abram, NJ, Addison, JA, Curran, MAJ, Evans, MN, Henley, BJ, Hao, Z, Martrat, B, McGregor, HV, Neukom, R, Pederson, GT, Stenni, B, Thirumalai, K, Werner, JP, Xu, C, Divine, DV, Dixon, BC, Gergis, J, Mundo, IA, Nakatsuka, T, Phipps, SJ, Routson, CC, Steig, EJ, Tierney, JE, Tyler, JJ, Allen, KJ, Bertler, NAN, Bjorklund, J, Chase, BM, Chen, M-T, Cook, E, de Jong, R, DeLong, KL, Dixon, DA, Ekaykin, AA, Ersek, V, Filipsson, HL, Francus, P, Freund, MB, Frezzotti, M, Gaire, NP, Gajewski, K, Ge, Q, Goosse, H, Gornostaeva, A, Grosjean, M, Horiuchi, K, Hormes, A, Husum, K, Isaksson, E, Kandasamy, S, Kawamura, K, Kilbourne, KH, Koc, N, Leduc, G, Linderholm, HW, Lorrey, AM, Mikhalenko, V, Mortyn, PG, Motoyama, H, Moy, AD, Mulvaney, R, Munz, PM, Nash, DJ, Oerter, H, Opel, T, Orsi, AJ, Ovchinnikov, DV, Porter, TJ, Roop, HA, Saenger, C, Sano, M, Sauchyn, D, Saunders, KM, Seidenkrantz, M-S, Severi, M, Shao, X, Sicre, M-A, Sigl, M, Sinclair, K, St George, S, St Jacques, J-M, Thamban, M, Thapa, UK, Thomas, ER, Turney, C, Uemura, R, Viau, AE, Vladimirova, DO, Wahl, ER, White, JWC, Yu, Z, and Zinke, J
- Abstract
Reproducible climate reconstructions of the Common Era (1 CE to present) are key to placing industrial-era warming into the context of natural climatic variability. Here we present a community-sourced database of temperature-sensitive proxy records from the PAGES2k initiative. The database gathers 692 records from 648 locations, including all continental regions and major ocean basins. The records are from trees, ice, sediment, corals, speleothems, documentary evidence, and other archives. They range in length from 50 to 2000 years, with a median of 547 years, while temporal resolution ranges from biweekly to centennial. Nearly half of the proxy time series are significantly correlated with HadCRUT4.2 surface temperature over the period 1850-2014. Global temperature composites show a remarkable degree of coherence between high- and low-resolution archives, with broadly similar patterns across archive types, terrestrial versus marine locations, and screening criteria. The database is suited to investigations of global and regional temperature variability over the Common Era, and is shared in the Linked Paleo Data (LiPD) format, including serializations in Matlab, R and Python.
- Published
- 2017
10. A Community-Driven Framework for Climate Reconstructions
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Kaufman DS and PAGES 2k Consortium
- Subjects
Earth system science ,Meteorology ,13. Climate action ,Computer science ,Climatology ,General Earth and Planetary Sciences ,Future climate ,Proxy (climate) ,Downscaling - Abstract
A contribution to the PAGES 2k network. ABSTRACT : Proxy based reconstructions of past climate provide insights into externally forced and intrinsic variability over regional to global scales and can be used to place recent trends in a long term context. Comparisons between these reconstructions and the output of Earth system models provide evaluation opportunities to improve our understanding of climate forcings on time scales that are not adequately represented by the instrumental record. They also provide a heuristic tool to explore mechanisms of climate variability with implications for future climate projections [Schmidt et al. 2014].
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- 2014
- Full Text
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11. Holocene thermal maximum in the western Arctic (0-180 degrees W)
- Author
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Kaufman, Ds, Ager, Ta, Anderson, Nj, Anderson, Pm, Andrews, Jt, Bartlein, Pj, Brubaker, Lb, Coats, Ll, Cwynar, Lc, Duvall, Ml, Dyke, As, Edwards, Me, Eisner, Wr, Gajewski, K, Geirsdottir, A, Hu, Fs, Jennings, Ae, Kaplan, Mr, Kerwin, Mn, Lozhkin, Av, Macdonald, Gm, Miller, Gh, Mock, Cj, Oswald, Ww, Otto-bliesner, Bl, Porinchu, Df, Ruhland, K, Smol, Jp, Steig, Ej, and Wolfe, Bb
- Abstract
The spatio-temporal pattern of peak Holocene warmth (Holocene thermal maximum, HTM) is traced over 140 sites across the Western Hemisphere of the Arctic (0-180degreesW; north of similar to60degreesN). Paleoclimate inferences based on a wide variety of proxy indicators provide clear evidence for warmer-than-present conditions at 120 of these sites. At the 16 terrestrial sites where quantitative estimates have been obtained, local HTM temperatures (primarily summer estimates) were on average 1.6+/-0.8degreesC higher than present (approximate average of the 20th century), but the warming was time-transgressive across the western Arctic. As the precession-driven summer insolation anomaly peaked 12-10ka (thousands of calendar years ago), warming was concentrated in northwest North America, while cool conditions lingered in the northeast. Alaska and northwest Canada experienced the HTM between ca 11 and 9 ka, about 4000 yr prior to the HTM in northeast Canada. The delayed warming in Quebec and Labrador was linked to the residual Laurentide Ice Sheet, which chilled the region through its impact on surface energy balance and ocean circulation. The lingering ice also attests to the inherent asymmetry of atmospheric and oceanic circulation that predisposes the region to glaciation and modulates the pattern of climatic change. The spatial asymmetry of warming during the HTM resembles the pattern of warming observed in the Arctic over the last several decades. Although the two warmings are described at different temporal scales, and the HTM was additionally affected by the residual Laurentide ice, the similarities suggest there might be a preferred mode of variability in the atmospheric circulation that generates a recurrent pattern of warming under positive radiative forcing. Unlike the HTM, however, future warming will not be counterbalanced by the cooling effect of a residual North American ice sheet.
- Published
- 2004
12. Continental-scale temperature variability during the past two millennia
- Author
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Ahmed, M, Anchukaitis, KJ, Asrat, A, Borgaonkar, HP, Braida, M, Buckley, BM, Büntgen, U, Chase, BM, Christie, DA, Cook, ER, Curran, MAJ, Diaz, HF, Esper, J, Fan, ZX, Gaire, NP, Ge, Q, Gergis, J, González-Rouco, JF, Goosse, H, Grab, SW, Graham, N, Graham, R, Grosjean, M, Hanhijärvi, ST, Kaufman, DS, Kiefer, T, Kimura, K, Korhola, AA, Krusic, PJ, Lara, A, Lézine, AM, Ljungqvist, FC, Lorrey, AM, Luterbacher, J, Masson-Delmotte, V, McCarroll, D, McConnell, JR, McKay, NP, Morales, MS, Moy, AD, Mulvaney, R, Mundo, IA, Nakatsuka, T, Nash, DJ, Neukom, R, Nicholson, SE, Oerter, H, Palmer, JG, Phipps, SJ, Prieto, MR, Rivera, A, Sano, M, Severi, M, Shanahan, TM, Shao, X, Shi, F, Sigl, M, Smerdon, JE, Solomina, ON, Steig, EJ, Stenni, B, Thamban, M, Trouet, V, Turney, CSM, Umer, M, van Ommen, T, Verschuren, D, Viau, AE, Villalba, R, Vinther, BM, von Gunten, L, Wagner, S, Wahl, ER, Wanner, H, Werner, JP, White, JWC, Yasue, K, Zorita, E, Ahmed, M, Anchukaitis, KJ, Asrat, A, Borgaonkar, HP, Braida, M, Buckley, BM, Büntgen, U, Chase, BM, Christie, DA, Cook, ER, Curran, MAJ, Diaz, HF, Esper, J, Fan, ZX, Gaire, NP, Ge, Q, Gergis, J, González-Rouco, JF, Goosse, H, Grab, SW, Graham, N, Graham, R, Grosjean, M, Hanhijärvi, ST, Kaufman, DS, Kiefer, T, Kimura, K, Korhola, AA, Krusic, PJ, Lara, A, Lézine, AM, Ljungqvist, FC, Lorrey, AM, Luterbacher, J, Masson-Delmotte, V, McCarroll, D, McConnell, JR, McKay, NP, Morales, MS, Moy, AD, Mulvaney, R, Mundo, IA, Nakatsuka, T, Nash, DJ, Neukom, R, Nicholson, SE, Oerter, H, Palmer, JG, Phipps, SJ, Prieto, MR, Rivera, A, Sano, M, Severi, M, Shanahan, TM, Shao, X, Shi, F, Sigl, M, Smerdon, JE, Solomina, ON, Steig, EJ, Stenni, B, Thamban, M, Trouet, V, Turney, CSM, Umer, M, van Ommen, T, Verschuren, D, Viau, AE, Villalba, R, Vinther, BM, von Gunten, L, Wagner, S, Wahl, ER, Wanner, H, Werner, JP, White, JWC, Yasue, K, and Zorita, E
- Published
- 2013
13. The backbone of PAGES 2k: data management and archiving
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von Gunten, Lucien, primary, Anderson, DM, additional, Chase, B, additional, Curran, M, additional, Gergis, J, additional, Gille, EP, additional, Gross, W, additional, Hanhijärvi, S, additional, Kaufman, DS, additional, Kiefer, T, additional, McKay, NP, additional, Mundo, I, additional, Neukom, R, additional, Sano, M, additional, Shah, A, additional, Tyler, J, additional, Viau, A, additional, Wagner, S, additional, Wahl, ER, additional, and Willard, D, additional
- Published
- 2013
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14. Advancing North American climate field reconstructions: Data sources, methods development and comparisons
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Diaz, Henry F, primary, Wahl, ER, additional, and Kaufman, DS, additional
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- 2011
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15. Case records of the Massachusetts General Hospital. Case 9-2012. A 67-year-old man with a persistently elevated PSA level.
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Kaufman DS, Zietman AL, McDougal WS, Dahl DM, Harisinghani MG, Wu CL, Kaufman, Donald S, Zietman, Anthony L, McDougal, W Scott, Dahl, Douglas M, Harisinghani, Mukesh G, and Wu, Chin-Lee
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- 2012
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16. Case records of the Massachusetts General Hospital. Case 5-2011. A 65-year-old man with hematuria after treatment for prostate cancer.
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Kaufman DS, Zietman AL, Dahl DM, Harisinghani MG, and Wu CL
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- 2011
17. Case records of the Massachusetts General Hospital. Case 30-2009. A 77-year-old man with recurrent transitional-cell carcinoma of the ureter.
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Kaufman DS, McDougal WS, Harisinghani MG, and Wu CL
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- 2009
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18. Late pelvic toxicity after bladder-sparing therapy in patients with invasive bladder cancer: RTOG 89-03, 95-06, 97-06, 99-06.
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Efstathiou JA, Bae K, Shipley WU, Kaufman DS, Hagan MP, Heney NM, Sandler HM, Efstathiou, Jason A, Bae, Kyounghwa, Shipley, William U, Kaufman, Donald S, Hagan, Michael P, Heney, Niall M, and Sandler, Howard M
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- 2009
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19. Myeloablative hematopoietic cell transplantation for acute lymphoblastic leukemia: analysis of graft sources and long-term outcome.
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Tomblyn MB, Arora M, Baker KS, Blazar BR, Brunstein CG, Burns LJ, DeFor TE, Dusenbery KE, Kaufman DS, Kersey JH, MacMillan ML, McGlave PB, Miller JS, Orchard PJ, Slungaard A, Tomblyn MR, Vercellotti GM, Verneris MR, Wagner JE, and Weisdorf DJ
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- 2009
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20. Case records of the Massachusetts General Hospital. Case 15-2008. A 55-year-old man with an elevated prostate-specific antigen level and early-stage prostate cancer.
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Barry MJ, Kaufman DS, and Wu CL
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- 2008
21. Case 18-2007: a 54-year-old man with early-stage prostate cancer.
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Kaufman DS, McDougal WS, Zietman AL, and Young RH
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- 2007
22. Case records of the Massachusetts General Hospital. Case 6-2007. A 28-year-old man with a mass in the testis.
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Kaufman DS, Saksena MA, Young RH, Tabatabaei S, Kaufman, Donald S, Saksena, Mansi A, Young, Robert H, and Tabatabaei, Shahin
- Published
- 2007
23. Case records of the Massachusetts General Hospital. Weekly clinicopathological exercises. Case 21-2004. A 63-year-old man with metastatic prostate carcinoma refractory to hormone therapy.
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Kaufman DS, McDougal WS, Zietman AL, Harisinghani MG, Young RH, Kaufman, Donald S, McDougal, W Scott, Zietman, Anthony L, Harisinghani, Mukesh G, and Young, Robert H
- Published
- 2004
24. Case 3-2004: a 57-year-old man with invasive transitional-cell carcinoma of the bladder.
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Kaufman DS, Shipley WU, McDougal WS, and Young RH
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- 2004
25. Selective bladder preservation by combination treatment of invasive bladder cancer.
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Kaufman DS, Shipley WU, Griffin PP, Heney NM, Althausen AF, and Efird JT
- Published
- 1993
26. Surgery: selective bladder-preserving therapy for muscle-invasive cancer.
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Heney NM, Kaufman DS, Shipley WU, Heney, Niall M, Kaufman, Donald S, and Shipley, William U
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- 2009
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27. Does postoperative irradiation play a role in the adjuvant therapy of stage T4 colon cancer?
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Willett CG, Goldberg S, Shellito PC, Grossbard M, Clark J, Fung C, Proulx G, Daly M, and Kaufman DS
- Abstract
PURPOSE: This study analyzes the long-term outcome of patients with stage T4 colon cancer who receive postoperative irradiation. The purpose of the study is to define the potential role of this modality with current systemic therapies. PATIENTS AND METHODS: A retrospective analysis was performed of 152 patients undergoing resection of T4 colon cancer followed by moderate- to high-dose postoperative tumor bed irradiation with and without 5-fluorouracil-based chemotherapy. Of the 152 patients, 110 patients (T4N0 or T4N+) were treated adjuvantly, whereas 42 patients received irradiation for the control of gross or microscopic residual local tumor. RESULTS: For 79 adjuvantly treated patients with stage T4N0 or T4N+ cancer with one lymph node metastasis, the 10-year actuarial rates of local control and recurrence-free survival were 88% and 58%, respectively. Results were less satisfactory for patients with more extensive nodal involvement. The 10-year actuarial rates of local control and recurrence-free survival of 39 patients with T4 tumors complicated by perforation or fistulas were 81% and 53%, respectively. For 42 patients with incompletely resected tumors, the 10-year actuarial recurrence-free survival was 19%. CONCLUSIONS: In comparison with historical controls, postoperative tumor bed irradiation improves local control for some subsets of patients. In addition to standard 5-fluorouracil-based chemotherapy, adjuvant tumor bed irradiation should be considered when colon cancers invade adjoining structures, when they are complicated by perforation or fistulas, or when they are incompletely excised at the primary site. [ABSTRACT FROM AUTHOR]
- Published
- 1999
28. Case records of the Massachusetts General Hospital. Case 6-2006. A 71-year-old woman with urinary incontinence and a mass in the bladder.
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Ryan PD, Harisinghani M, Lerwill MF, Kaufman DS, Ryan, Paula D, Harisinghani, Mukesh, Lerwill, Melinda F, and Kaufman, Donald S
- Published
- 2006
29. Disruption of TGF-β signaling pathway is required to mediate effective killing of hepatocellular carcinoma by human iPSC-derived NK cells.
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Thangaraj JL, Coffey M, Lopez E, and Kaufman DS
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- Humans, Receptor, Transforming Growth Factor-beta Type II metabolism, Receptor, Transforming Growth Factor-beta Type II genetics, Animals, Cell Line, Tumor, Mice, Induced Pluripotent Stem Cells metabolism, Killer Cells, Natural immunology, Killer Cells, Natural metabolism, Carcinoma, Hepatocellular pathology, Carcinoma, Hepatocellular metabolism, Liver Neoplasms pathology, Liver Neoplasms metabolism, Liver Neoplasms immunology, Transforming Growth Factor beta metabolism, Signal Transduction
- Abstract
Hepatocellular carcinoma (HCC) is the most common type of primary liver cancer. Transforming growth factor beta (TGF-β) is highly expressed in the liver tumor microenvironment and is known to inhibit immune cell activity. Here, we used human induced pluripotent stem cells (iPSCs) to produce natural killer (NK) cells engineered to mediate improved anti-HCC activity. Specifically, we produced iPSC-NK cells with either knockout TGF-β receptor 2 (TGFBR2-KO) or expression of a dominant negative (DN) form of the TGF-β receptor 2 (TGFBR2-DN) combined with chimeric antigen receptors (CARs) that target either GPC3 or AFP. The TGFBR2-KO and TGFBR2-DN iPSC-NK cells are resistant to TGF-β inhibition and improved anti-HCC activity. However, expression of anti-HCC CARs on iPSC-NK cells did not lead to effective anti-HCC activity unless there was also inhibition of TGF-β activity. Our findings demonstrate that TGF-β signaling blockade is required for effective NK cell function against HCC and potentially other malignancies that express high levels of TGF-β., Competing Interests: Declaration of interests D.S.K. is a co-founder and advisor to Shoreline Biosciences and has an equity interest in the company. D.S.K. also consults VisiCELL Medical and RedC Bio for which he receives income and/or equity. Studies in this work are not related to the work of those companies. The terms of these arrangements have been reviewed and approved by the University of California, San Diego, in accordance with its conflict-of-interest policies., (Copyright © 2024 Elsevier Inc. All rights reserved.)
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- 2024
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30. XOL-1 regulates developmental timing by modulating the H3K9 landscape in C. elegans early embryos.
- Author
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Jash E, Azhar AA, Mendoza H, Tan ZM, Escher HN, Kaufman DS, and Csankovszki G
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- Animals, Male, Female, Histones metabolism, Histones genetics, Dosage Compensation, Genetic, Embryo, Nonmammalian metabolism, Transcription Factors genetics, Transcription Factors metabolism, Caenorhabditis elegans genetics, Caenorhabditis elegans growth & development, Caenorhabditis elegans Proteins genetics, Caenorhabditis elegans Proteins metabolism, Gene Expression Regulation, Developmental, Embryonic Development genetics, X Chromosome genetics, Sex Determination Processes genetics
- Abstract
Sex determination in the nematode C. elegans is controlled by the master regulator XOL-1 during embryogenesis. Expression of xol-1 is dependent on the ratio of X chromosomes and autosomes, which differs between XX hermaphrodites and XO males. In males, xol-1 is highly expressed and in hermaphrodites, xol-1 is expressed at very low levels. XOL-1 activity is known to be critical for the proper development of C. elegans males, but its low expression was considered to be of minimal importance in the development of hermaphrodite embryos. Our study reveals that XOL-1 plays an important role as a regulator of developmental timing during hermaphrodite embryogenesis. Using a combination of imaging and bioinformatics techniques, we found that hermaphrodite embryos have an accelerated rate of cell division, as well as a more developmentally advanced transcriptional program when xol-1 is lost. Further analyses reveal that XOL-1 is responsible for regulating the timing of initiation of dosage compensation on the X chromosomes, and the appropriate expression of sex-biased transcriptional programs in hermaphrodites. We found that xol-1 mutant embryos overexpress the H3K9 methyltransferase MET-2 and have an altered H3K9me landscape. Some of these effects of the loss of xol-1 gene were reversed by the loss of met-2. These findings demonstrate that XOL-1 plays an important role as a developmental regulator in embryos of both sexes, and that MET-2 acts as a downstream effector of XOL-1 activity in hermaphrodites., Competing Interests: The authors have declared that no competing interests exist., (Copyright: © 2024 Jash et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.)
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- 2024
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31. The 4.2 ka event is not remarkable in the context of Holocene climate variability.
- Author
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McKay NP, Kaufman DS, Arcusa SH, Kolus HR, Edge DC, Erb MP, Hancock CL, Routson CC, Żarczyński M, Marshall LP, Roberts GK, and Telles F
- Abstract
The "4.2 ka event" is a commonly described abrupt climate excursion that occurred about 4200 years ago. However, the extent to which this event is coherent across regional and larger scales is unclear. To objectively assess climate excursions in the Holocene we compile 1142 paleoclimate datasets that span all continents and oceans and include a wide variety of archive and proxy types. We analyze these data to determine the timing, significance and spatial imprint of climate excursions using an objective method that quantifies local, regional and global significance. Site-level excursions in temperature and hydroclimate are common throughout the Holocene, but significant global-scale excursions are rare. The most prominent excursion occurred 8200 years ago, when cold and dry conditions formed a large, significant excursion centered in the North Atlantic. We find additional significant excursions between 1600 and 1000 years ago, which agree with tree-ring data and annual-scale paleoclimate reconstructions, adding confidence and context to our findings. In contrast, although some datasets show significant climate excursions 4200 years ago, they do not occur in large, coherent spatial regions. Consequently, like most other periods in the Holocene, the "4.2 ka event" is not a globally significant climate excursion., (© 2024. The Author(s).)
- Published
- 2024
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32. Next-generation macrophages: repolarizing CAR-macrophages against cancer.
- Author
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Ebrahimabadi S and Kaufman DS
- Abstract
Competing Interests: Conflict of interest: D.S.K. is a co-founder and advisor to Shoreline Biosciences and has an equity interest in the company. D.S.K. also consults for RedC Biotech, Therapbest, and VisiCELL Medical for which he receives income and/or equity. Studies in this work are not related to the work of those companies. The terms of these arrangements have been reviewed and approved by the University of California, San Diego in accordance with its conflict-of-interest policies. S. E. receives support from grant #2023/12325-3, São Paulo Research Foundation (FAPESP).
- Published
- 2024
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33. Hemangiosarcoma Cells Promote Conserved Host-derived Hematopoietic Expansion.
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Kim JH, Schulte AJ, Sarver AL, Lee D, Angelos MG, Frantz AM, Forster CL, O'Brien TD, Cornax I, O'Sullivan MG, Cheng N, Lewellen M, Oseth L, Kumar S, Bullman S, Pedamallu CS, Goyal SM, Meyerson M, Lund TC, Breen M, Lindblad-Toh K, Dickerson EB, Kaufman DS, and Modiano JF
- Subjects
- Dogs, Animals, Humans, Mice, Tumor Microenvironment, Hematopoietic Stem Cells pathology, Hematopoiesis, Cell Differentiation, Hemangiosarcoma pathology, Hemangiosarcoma veterinary, Hemangiosarcoma genetics
- Abstract
Hemangiosarcoma and angiosarcoma are soft-tissue sarcomas of blood vessel-forming cells in dogs and humans, respectively. These vasoformative sarcomas are aggressive and highly metastatic, with disorganized, irregular blood-filled vascular spaces. Our objective was to define molecular programs which support the niche that enables progression of canine hemangiosarcoma and human angiosarcoma. Dog-in-mouse hemangiosarcoma xenografts recapitulated the vasoformative and highly angiogenic morphology and molecular characteristics of primary tumors. Blood vessels in the tumors were complex and disorganized, and they were lined by both donor and host cells. In a series of xenografts, we observed that the transplanted hemangiosarcoma cells created exuberant myeloid hyperplasia and gave rise to lymphoproliferative tumors of mouse origin. Our functional analyses indicate that hemangiosarcoma cells generate a microenvironment that supports expansion and differentiation of hematopoietic progenitor populations. Furthermore, gene expression profiling data revealed hemangiosarcoma cells expressed a repertoire of hematopoietic cytokines capable of regulating the surrounding stromal cells. We conclude that canine hemangiosarcomas, and possibly human angiosarcomas, maintain molecular properties that provide hematopoietic support and facilitate stromal reactions, suggesting their potential involvement in promoting the growth of hematopoietic tumors., Significance: We demonstrate that hemangiosarcomas regulate molecular programs supporting hematopoietic expansion and differentiation, providing insights into their potential roles in creating a permissive stromal-immune environment for tumor progression., (© 2024 The Authors; Published by the American Association for Cancer Research.)
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- 2024
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34. Induced pluripotent stem cell-derived engineered T cells, natural killer cells, macrophages, and dendritic cells in immunotherapy.
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Xue D, Lu S, Zhang H, Zhang L, Dai Z, Kaufman DS, and Zhang J
- Subjects
- Humans, Immunotherapy, Macrophages, Dendritic Cells, Immunotherapy, Adoptive, Induced Pluripotent Stem Cells metabolism, Natural Killer T-Cells metabolism, Neoplasms
- Abstract
T cells, natural killer (NK) cells, macrophages (Macs), and dendritic cells (DCs) are among the most common sources for immune-cell-based therapies for cancer. Antitumor activity can be enhanced in induced pluripotent stem cell (iPSC)-derived immune cells by using iPSCs as a platform for stable genetic modifications that impact immuno-activating or -suppressive signaling pathways, such as transducing a chimeric antigen receptor (CAR) or deletion of immunosuppressive checkpoint molecules. This review outlines the utility of four iPSC-derived immune-cell-based therapies, highlight the latest progress and future trends in the genome-editing strategies designed to improve efficacy, safety, and universality, and provides perspectives that compare different contexts in which each of these iPSC-derived immune cell types can be most effectively used., Competing Interests: Declaration of interests J.Z. is a cofounder of CellOrigin. D.S.K. is a cofounder and advisor to Shoreline Biosciences and has an equity interest in the company. The terms of these arrangements for D.S.K. have been reviewed and approved by the University of California, San Diego in accordance with its conflict-of-interest policies. The remaining authors have no interests to declare., (Copyright © 2023 Elsevier Ltd. All rights reserved.)
- Published
- 2023
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35. Revisiting the Holocene global temperature conundrum.
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Kaufman DS and Broadman E
- Subjects
- Greenhouse Effect, Feedback, Climate, Global Warming history, Temperature, Climate Models
- Abstract
Recent global temperature reconstructions for the current interglacial period (the Holocene, beginning 11,700 years ago) have generated contrasting trends. This Review examines evidence from indicators and drivers of global change, as inferred from proxy records and simulated by climate models, to evaluate whether anthropogenic global warming was preceded by a long-term warming trend or by global cooling. Multimillennial-scale cooling before industrialization requires extra climate forcing and major climate feedbacks that are not well represented in most climate models at present. Conversely, global warming before industrialization challenges proxy-based reconstructions of past climate. The resolution of this conundrum has implications for contextualizing post-industrial warming and for understanding climate sensitivity to several forcings and their attendant feedbacks, including greenhouse gases. From a large variety of available evidence, we find support for a relatively mild millennial-scale global thermal maximum during the mid-Holocene, but more research is needed to firmly resolve the conundrum and to advance our understanding of slow-moving climate variability., (© 2023. Springer Nature Limited.)
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- 2023
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36. Disease-associated mutations in topoisomerase IIβ result in defective NK cells.
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Broderick L, Clay GM, Blum RH, Liu Y, McVicar R, Papes F, Booshehri LM, Cowell IG, Austin CA, Putnam CD, and Kaufman DS
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- Animals, Cell Line, Craniofacial Abnormalities, Humans, Limb Deformities, Congenital, Mice, Mutation, Primary Immunodeficiency Diseases, Urogenital Abnormalities, Induced Pluripotent Stem Cells metabolism, Killer Cells, Natural
- Abstract
Background: Hoffman syndrome is a syndromic, inborn error of immunity due to autosomal-dominant mutations in TOP2B, an essential gene required to alleviate topological stress during DNA replication and gene transcription. Although mutations identified in patients lead to a block in B-cell development and the absence of circulating B cells, an effect on natural killer (NK) cells was not previously examined., Objective: We sought to determine whether disease-associated mutations in TOP2B impact NK-cell development and function., Methods: Using a knockin murine model and patient-derived induced pluripotent stem cells (iPSCs), we investigated NK-cell development in mouse bone marrow and spleen, and performed immunophenotyping by flow cytometry, gene expression, and functional assessment of cytotoxic activity in murine NK cells, and human IPSC-derived NK cells., Results: Mature NK cells were reduced in the periphery of TOP2B knockin mice consistent with patient reports, with reduced cytotoxicity toward target cell lines. IPSCs were successfully derived from patients with Hoffman syndrome, but under optimal conditions showed reduced cytotoxicity compared with iPSC-derived NK cells from healthy controls., Conclusions: Hoffman syndrome-associated mutations in TOP2B impact NK-cell development and function in murine and human models., (Copyright © 2022 The Authors. Published by Elsevier Inc. All rights reserved.)
- Published
- 2022
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37. CHMP2A regulates tumor sensitivity to natural killer cell-mediated cytotoxicity.
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Bernareggi D, Xie Q, Prager BC, Yun J, Cruz LS, Pham TV, Kim W, Lee X, Coffey M, Zalfa C, Azmoon P, Zhu H, Tamayo P, Rich JN, and Kaufman DS
- Subjects
- Animals, Apoptosis genetics, Cell Line, Tumor, Cytotoxicity, Immunologic, Endosomal Sorting Complexes Required for Transport, Humans, Immunotherapy, Mice, Squamous Cell Carcinoma of Head and Neck genetics, Head and Neck Neoplasms genetics, Killer Cells, Natural
- Abstract
Natural killer (NK) cells are known to mediate killing of various cancer types, but tumor cells can develop resistance mechanisms to escape NK cell-mediated killing. Here, we use a "two cell type" whole genome CRISPR-Cas9 screening system to discover key regulators of tumor sensitivity and resistance to NK cell-mediated cytotoxicity in human glioblastoma stem cells (GSC). We identify CHMP2A as a regulator of GSC resistance to NK cell-mediated cytotoxicity and we confirm these findings in a head and neck squamous cells carcinoma (HNSCC) model. We show that deletion of CHMP2A activates NF-κB in tumor cells to mediate increased chemokine secretion that promotes NK cell migration towards tumor cells. In the HNSCC model we demonstrate that CHMP2A mediates tumor resistance to NK cells via secretion of extracellular vesicles (EVs) that express MICA/B and TRAIL. These secreted ligands induce apoptosis of NK cells to inhibit their antitumor activity. To confirm these in vitro studies, we demonstrate that deletion of CHMP2A in CAL27 HNSCC cells leads to increased NK cell-mediated killing in a xenograft immunodeficient mouse model. These findings illustrate a mechanism of tumor immune escape through EVs secretion and identify inhibition of CHMP2A and related targets as opportunities to improve NK cell-mediated immunotherapy., (© 2022. The Author(s).)
- Published
- 2022
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38. iPSC-Derived Natural Killer Cell Therapies - Expansion and Targeting.
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Goldenson BH, Hor P, and Kaufman DS
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- Animals, Hematologic Neoplasms immunology, Humans, Immunotherapy, Adoptive methods, Killer Cells, Natural metabolism, Neoplasms immunology, Receptors, Chimeric Antigen genetics, Hematologic Neoplasms therapy, Induced Pluripotent Stem Cells cytology, Killer Cells, Natural immunology, Neoplasms therapy, Receptors, Chimeric Antigen metabolism
- Abstract
Treatment of cancer with allogeneic natural killer (NK) cell therapies has seen rapid development, especially use against hematologic malignancies. Clinical trials of NK cell-based adoptive transfer to treat relapsed or refractory malignancies have used peripheral blood, umbilical cord blood and pluripotent stem cell-derived NK cells, with each approach undergoing continued clinical development. Improving the potency of these therapies relies on genetic modifications to improve tumor targeting and to enhance expansion and persistence of the NK cells. Induced pluripotent stem cell (iPSC)-derived NK cells allow for routine targeted introduction of genetic modifications and expansion of the resulting NK cells derived from a clonal starting cell population. In this review, we discuss and summarize recent important advances in the development of new iPSC-derived NK cell therapies, with a focus on improved targeting of cancer. We then discuss improvements in methods to expand iPSC-derived NK cells and how persistence of iPSC-NK cells can be enhanced. Finally, we describe how these advances may combine in future NK cell-based therapy products for the treatment of both hematologic malignancies and solid tumors., Competing Interests: DK is a co-founder, board member and advisor to Shoreline Biosciences and has an equity interest in the company. DK also consults for Qihan Biotech and VisiCELL Medical for which he receives income and/or equity. DK also has patents in the area of iPSC-NK cells. The terms of these arrangements have been reviewed and approved by the University of California, San Diego in accordance with its conflict-of-interest policies. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2022 Goldenson, Hor and Kaufman.)
- Published
- 2022
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39. Into the multiverse of gene edited NK cell-based therapeutic strategies.
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Goldenson BH and Kaufman DS
- Subjects
- Cell Line, Tumor, Gene Editing, Humans, Killer Cells, Natural, Induced Pluripotent Stem Cells, Multiple Myeloma genetics, Multiple Myeloma therapy
- Abstract
In this issue of Cell Stem Cell, Woan et al., (2021) investigate the anti-cancer activity of triple gene edited iPSC-derived natural killer (NK) cells and demonstrate that expression of a modified CD16a and interleukin (IL)-15 receptor combined with knockout of CD38 improves NK cell-mediated activity against leukemia and multiple myeloma., Competing Interests: Declaration of interests D.S.K. is a co-founder, board member, and advisor to Shoreline Biosciences and has an equity interest in the company. D.S.K. also consults for Qihan Biotech and VisiCELL Medical, for which he receives income and/or equity. D.S.K. also has patents in the area of iPSC-NK cells. The terms of these arrangements have been reviewed and approved by the University of California, San Diego in accordance with its conflict-of-interest policies., (Copyright © 2021 Elsevier Inc. All rights reserved.)
- Published
- 2021
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40. Human induced pluripotent stem cell-derived macrophages ameliorate liver fibrosis.
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Pouyanfard S, Meshgin N, Cruz LS, Diggle K, Hashemi H, Pham TV, Fierro M, Tamayo P, Fanjul A, Kisseleva T, and Kaufman DS
- Subjects
- Animals, Cell Differentiation, Cytokines metabolism, Humans, Mice, Induced Pluripotent Stem Cells metabolism, Liver Cirrhosis therapy, Macrophages metabolism
- Abstract
With an increasing number of patients with degenerative hepatic diseases, such as liver fibrosis, and a limited supply of donor organs, there is an unmet need for therapies that can repair or regenerate damaged liver tissue. Treatment with macrophages that are capable of phagocytosis and anti-inflammatory activities such as secretion of matrix metalloproteinases (MMPs) provide an attractive cellular therapy approach. Human induced pluripotent stem cells (iPSCs) are capable of efficiently generating a large-scale, homogenous population of human macrophages using fully defined feeder- and serum-free differentiation protocol. Human iPSC-macrophages exhibit classical surface cell markers and phagocytic activity similar to peripheral blood-derived macrophages. Moreover, gene and cytokine expression analysis reveal that these macrophages can be efficiently polarized to pro-inflammatory M1 or anti-inflammatory M2 phenotypes in presence of LPS + IFN-γ and IL-4 + IL-13, respectively. M1 macrophages express high level of CD80, TNF-α, and IL-6 while M2 macrophages show elevated expression of CD206, CCL17, and CCL22. Here, we demonstrate that treatment of liver fibrosis with both human iPSC-derived macrophage populations and especially M2 subtype significantly reduces fibrogenic gene expression and disease associated histological markers including Sirius Red, αSMA and desmin in immunodeficient Rag2
-/- γc-/- mice model, making this approach a promising cell-based avenue to ameliorate fibrosis., (© 2021 AlphaMed Press.)- Published
- 2021
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41. Native biodiversity collapse in the eastern Mediterranean.
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Albano PG, Steger J, Bošnjak M, Dunne B, Guifarro Z, Turapova E, Hua Q, Kaufman DS, Rilov G, and Zuschin M
- Subjects
- Mediterranean Sea, Biodiversity, Ecosystem
- Abstract
Global warming causes the poleward shift of the trailing edges of marine ectotherm species distributions. In the semi-enclosed Mediterranean Sea, continental masses and oceanographic barriers do not allow natural connectivity with thermophilic species pools: as trailing edges retreat, a net diversity loss occurs. We quantify this loss on the Israeli shelf, among the warmest areas in the Mediterranean, by comparing current native molluscan richness with the historical one obtained from surficial death assemblages. We recorded only 12% and 5% of historically present native species on shallow subtidal soft and hard substrates, respectively. This is the largest climate-driven regional-scale diversity loss in the oceans documented to date. By contrast, assemblages in the intertidal, more tolerant to climatic extremes, and in the cooler mesophotic zone show approximately 50% of the historical native richness. Importantly, approximately 60% of the recorded shallow subtidal native species do not reach reproductive size, making the shallow shelf a demographic sink. We predict that, as climate warms, this native biodiversity collapse will intensify and expand geographically, counteracted only by Indo-Pacific species entering from the Suez Canal. These assemblages, shaped by climate warming and biological invasions, give rise to a 'novel ecosystem' whose restoration to historical baselines is not achievable.
- Published
- 2021
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42. Coupled impacts of sea ice variability and North Pacific atmospheric circulation on Holocene hydroclimate in Arctic Alaska.
- Author
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Broadman E, Kaufman DS, Henderson ACG, Malmierca-Vallet I, Leng MJ, and Lacey JH
- Abstract
Arctic Alaska lies at a climatological crossroads between the Arctic and North Pacific Oceans. The modern hydroclimate of the region is responding to rapidly diminishing sea ice, driven in part by changes in heat flux from the North Pacific. Paleoclimate reconstructions have improved our knowledge of Alaska's hydroclimate, but no studies have examined Holocene sea ice, moisture, and ocean-atmosphere circulation in Arctic Alaska, limiting our understanding of the relationship between these phenomena in the past. Here we present a sedimentary diatom assemblage and diatom isotope dataset from Schrader Pond, located ∼80 km from the Arctic Ocean, which we interpret alongside synthesized regional records of Holocene hydroclimate and sea ice reduction scenarios modeled by the Hadley Centre Coupled Model Version 3 (HadCM3). The paleodata synthesis and model simulations suggest the Early and Middle Holocene in Arctic Alaska were characterized by less sea ice, a greater contribution of isotopically heavy Arctic-derived moisture, and wetter climate. In the Late Holocene, sea ice expanded and regional climate became drier. This climatic transition is coincident with a documented shift in North Pacific circulation involving the Aleutian Low at ∼4 ka, suggesting a Holocene teleconnection between the North Pacific and Arctic. The HadCM3 simulations reveal that reduced sea ice leads to a strengthened Aleutian Low shifted west, potentially increasing transport of warm North Pacific water to the Arctic through the Bering Strait. Our findings demonstrate the interconnectedness of the Arctic and North Pacific on multimillennial timescales, and are consistent with future projections of less sea ice and more precipitation in Arctic Alaska., Competing Interests: The authors declare no competing interest.
- Published
- 2020
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43. iPSC-derived NK cells maintain high cytotoxicity and enhance in vivo tumor control in concert with T cells and anti-PD-1 therapy.
- Author
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Cichocki F, Bjordahl R, Gaidarova S, Mahmood S, Abujarour R, Wang H, Tuininga K, Felices M, Davis ZB, Bendzick L, Clarke R, Stokely L, Rogers P, Ge M, Robinson M, Rezner B, Robbins DL, Lee TT, Kaufman DS, Blazar BR, Valamehr B, and Miller JS
- Subjects
- Humans, Killer Cells, Natural, Programmed Cell Death 1 Receptor, T-Lymphocytes, Induced Pluripotent Stem Cells, Neoplasms drug therapy
- Abstract
The development of immunotherapeutic monoclonal antibodies targeting checkpoint inhibitory receptors, such as programmed cell death 1 (PD-1), or their ligands, such as PD-L1, has transformed the oncology landscape. However, durable tumor regression is limited to a minority of patients. Therefore, combining immunotherapies with those targeting checkpoint inhibitory receptors is a promising strategy to bolster antitumor responses and improve response rates. Natural killer (NK) cells have the potential to augment checkpoint inhibition therapies, such as PD-L1/PD-1 blockade, because NK cells mediate both direct tumor lysis and T cell activation and recruitment. However, sourcing donor-derived NK cells for adoptive cell therapy has been limited by both cell number and quality. Thus, we developed a robust and efficient manufacturing system for the differentiation and expansion of high-quality NK cells derived from induced pluripotent stem cells (iPSCs). iPSC-derived NK (iNK) cells produced inflammatory cytokines and exerted strong cytotoxicity against an array of hematologic and solid tumors. Furthermore, we showed that iNK cells recruit T cells and cooperate with T cells and anti-PD-1 antibody, further enhancing inflammatory cytokine production and tumor lysis. Because the iNK cell derivation process uses a renewable starting material and enables the manufacturing of large numbers of doses from a single manufacture, iNK cells represent an "off-the-shelf" source of cells for immunotherapy with the capacity to target tumors and engage the adaptive arm of the immune system to make a "cold" tumor "hot" by promoting the influx of activated T cells to augment checkpoint inhibitor therapies., (Copyright © 2020 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.)
- Published
- 2020
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44. Umbilical Cord Blood and iPSC-Derived Natural Killer Cells Demonstrate Key Differences in Cytotoxic Activity and KIR Profiles.
- Author
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Goldenson BH, Zhu H, Wang YM, Heragu N, Bernareggi D, Ruiz-Cisneros A, Bahena A, Ask EH, Hoel HJ, Malmberg KJ, and Kaufman DS
- Subjects
- Cell Differentiation genetics, Cell Line, Tumor, Cell Survival immunology, Genotype, HLA Antigens genetics, HLA Antigens immunology, Histocompatibility Antigens Class I genetics, Histocompatibility Antigens Class I immunology, Humans, Neuroblastoma pathology, Receptors, KIR genetics, Transfection, Cell Differentiation immunology, Fetal Blood cytology, Hematopoietic Stem Cells immunology, Induced Pluripotent Stem Cells cytology, Killer Cells, Natural immunology, Neuroblastoma immunology, Receptors, KIR immunology
- Abstract
Natural killer (NK) cells derived or isolated from different sources have been gaining in importance for cancer therapies. In this study, we evaluate and compare key characteristics between NK cells derived or isolated from umbilical cord blood, umbilical cord blood hematopoietic stem/progenitor cells, peripheral blood, and induced pluripotent stem cells (iPSCs). Specifically, we find CD56
+ NK cells isolated and expanded directly from umbilical cord blood (UCB56) and NK cells derived from CD34+ hematopoietic stem/progenitors in umbilical cord blood (UCB34) differ in their expression of markers associated with differentiation including CD16, CD2, and killer Ig-like receptors (KIRs). UCB56-NK cells also displayed a more potent cytotoxicity compared to UCB34-NK cells. NK cells derived from iPSCs (iPSC-NK cells) were found to have variable KIR expression, with certain iPSC-NK cell populations expressing high levels of KIRs and others not expressing KIRs. Notably, KIR expression on UCB56 and iPSC-NK cells had limited effect on cytotoxic activity when stimulated by tumor target cells that express high levels of cognate HLA class I, suggesting that in vitro differentiation and expansion may override the KIR-HLA class I mediated inhibition when used across HLA barriers. Together our results give a better understanding of the cell surface receptor, transcriptional, and functional differences between NK cells present in umbilical cord blood and hematopoietic progenitor-derived NK cells which may prove important in selecting the most active NK cell populations for treatment of cancer or other therapies., (Copyright © 2020 Goldenson, Zhu, Wang, Heragu, Bernareggi, Ruiz-Cisneros, Bahena, Ask, Hoel, Malmberg and Kaufman.)- Published
- 2020
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45. Lineage-specific differentiation of osteogenic progenitors from pluripotent stem cells reveals the FGF1-RUNX2 association in neural crest-derived osteoprogenitors.
- Author
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Kidwai F, Mui BWH, Arora D, Iqbal K, Hockaday M, de Castro Diaz LF, Cherman N, Martin D, Myneni VD, Ahmad M, Futrega K, Ali S, Merling RK, Kaufman DS, Lee J, and Robey PG
- Subjects
- Animals, Humans, MAP Kinase Signaling System, Male, Mice, Principal Component Analysis, Transcriptome genetics, Cell Differentiation, Cell Lineage, Core Binding Factor Alpha 1 Subunit metabolism, Fibroblast Growth Factor 1 metabolism, Neural Crest cytology, Osteogenesis, Pluripotent Stem Cells cytology, Pluripotent Stem Cells metabolism
- Abstract
Human pluripotent stem cells (hPSCs) can provide a platform to model bone organogenesis and disease. To reflect the developmental process of the human skeleton, hPSC differentiation methods should include osteogenic progenitors (OPs) arising from three distinct embryonic lineages: the paraxial mesoderm, lateral plate mesoderm, and neural crest. Although OP differentiation protocols have been developed, the lineage from which they are derived, as well as characterization of their genetic and molecular differences, has not been well reported. Therefore, to generate lineage-specific OPs from human embryonic stem cells and human induced pluripotent stem cells, we employed stepwise differentiation of paraxial mesoderm-like cells, lateral plate mesoderm-like cells, and neural crest-like cells toward their respective OP subpopulation. Successful differentiation, confirmed through gene expression and in vivo assays, permitted the identification of transcriptomic signatures of all three cell populations. We also report, for the first time, high FGF1 levels in neural crest-derived OPs-a notable finding given the critical role of fibroblast growth factors (FGFs) in osteogenesis and mineral homeostasis. Our results indicate that FGF1 influences RUNX2 levels, with concomitant changes in ERK1/2 signaling. Overall, our study further validates hPSCs' power to model bone development and disease and reveals new, potentially important pathways influencing these processes., (©2020 The Authors. Stem Cells published by Wiley Periodicals, Inc. on behalf of AlphaMed Press 2020.)
- Published
- 2020
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46. Review of radiographic findings in COVID-19.
- Author
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Kaufman AE, Naidu S, Ramachandran S, Kaufman DS, Fayad ZA, and Mani V
- Abstract
The purpose of this study is to review the published literature for the range of radiographic findings present in patients suffering from coronavirus disease 2019 infection. This novel corona virus is currently the cause of a worldwide pandemic. Pulmonary symptoms and signs dominate the clinical picture and radiologists are called upon to evaluate chest radiographs (CXR) and computed tomography (CT) images to assess for infiltrates and to define their extent, distribution and progression. Multiple studies attempt to characterize the disease course by looking at the timing of imaging relative to the onset of symptoms. In general, plain CXR show bilateral disease with a tendency toward the lung periphery and have an appearance most consistent with viral pneumonia. Chest CT images are most notable for showing bilateral and peripheral ground glass and consolidated opacities and are marked by an absence of concomitant pulmonary nodules, cavitation, adenopathy and pleural effusions. Published literature mentioning organ systems aside from pulmonary manifestations are relatively less common, yet present and are addressed in this review. Similarly, publications focusing on imaging modalities aside from CXR and chest CT are sparse in this evolving crisis and are likewise addressed in this review. The role of imaging is examined as it is currently being debated in the medical community, which is not at all surprising considering the highly infectious nature of Severe Acute Respiratory Syndrome coronavirus 2., Competing Interests: Conflict-of-interest statement: Authors declare no conflict of interests for this article., (©The Author(s) 2020. Published by Baishideng Publishing Group Inc. All rights reserved.)
- Published
- 2020
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47. Metabolic Reprograming via Deletion of CISH in Human iPSC-Derived NK Cells Promotes In Vivo Persistence and Enhances Anti-tumor Activity.
- Author
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Zhu H, Blum RH, Bernareggi D, Ask EH, Wu Z, Hoel HJ, Meng Z, Wu C, Guan KL, Malmberg KJ, and Kaufman DS
- Subjects
- Cell Line, Tumor, Cytokines, Humans, Interleukin-15, Killer Cells, Natural, Induced Pluripotent Stem Cells
- Abstract
Cytokine-inducible SH2-containing protein (CIS; encoded by the gene CISH) is a key negative regulator of interleukin-15 (IL-15) signaling in natural killer (NK) cells. Here, we develop human CISH-knockout (CISH
-/- ) NK cells using an induced pluripotent stem cell-derived NK cell (iPSC-NK cell) platform. CISH-/- iPSC-NK cells demonstrate increased IL-15-mediated JAK-STAT signaling activity. Consequently, CISH-/- iPSC-NK cells exhibit improved expansion and increased cytotoxic activity against multiple tumor cell lines when maintained at low cytokine concentrations. CISH-/- iPSC-NK cells display significantly increased in vivo persistence and inhibition of tumor progression in a leukemia xenograft model. Mechanistically, CISH-/- iPSC-NK cells display improved metabolic fitness characterized by increased basal glycolysis, glycolytic capacity, maximal mitochondrial respiration, ATP-linked respiration, and spare respiration capacity mediated by mammalian target of rapamycin (mTOR) signaling that directly contributes to enhanced NK cell function. Together, these studies demonstrate that CIS plays a key role to regulate human NK cell metabolic activity and thereby modulate anti-tumor activity., Competing Interests: Declaration of Interests D.S.K. is a consultant for Fate Therapeutics, has equity, and receives income. The terms of this arrangement have been reviewed and approved by the University of California, San Diego in accordance with its conflict of interest policies. He also has patents filed or issued related to this work. K.-J.M. consults for and receives research support from Fate Therapeutics. K.-L.G. is co-founder and has an equity interest in Vivace Therapeutics, Inc., and OncoImmune, Inc. H.Z. has a patent filed related to this work., (Copyright © 2020 Elsevier Inc. All rights reserved.)- Published
- 2020
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48. Pluripotent stem cell-derived NK cells with high-affinity noncleavable CD16a mediate improved antitumor activity.
- Author
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Zhu H, Blum RH, Bjordahl R, Gaidarova S, Rogers P, Lee TT, Abujarour R, Bonello GB, Wu J, Tsai PF, Miller JS, Walcheck B, Valamehr B, and Kaufman DS
- Subjects
- Animals, Antigens, CD20 immunology, Antineoplastic Agents, Immunological therapeutic use, Cell Line, Cell Line, Tumor, Female, Humans, Induced Pluripotent Stem Cells cytology, Induced Pluripotent Stem Cells immunology, Killer Cells, Natural cytology, Killer Cells, Natural immunology, Lymphoma, B-Cell immunology, Mice, Inbred NOD, Mice, SCID, Ovarian Neoplasms immunology, Antibodies, Monoclonal therapeutic use, Antibody-Dependent Cell Cytotoxicity, Killer Cells, Natural transplantation, Lymphoma, B-Cell therapy, Ovarian Neoplasms therapy, Receptors, IgG immunology
- Abstract
Antibody-dependent cellular cytotoxicity (ADCC) is a key effector mechanism of natural killer (NK) cells that is mediated by therapeutic monoclonal antibodies (mAbs). This process is facilitated by the Fc receptor CD16a on human NK cells. CD16a appears to be the only activating receptor on NK cells that is cleaved by the metalloprotease a disintegrin and metalloproteinase-17 upon stimulation. We previously demonstrated that a point mutation of CD16a prevents this activation-induced surface cleavage. This noncleavable CD16a variant is now further modified to include the high-affinity noncleavable variant of CD16a (hnCD16) and was engineered into human induced pluripotent stem cells (iPSCs) to create a renewable source for human induced pluripotent stem cell-derived NK (hnCD16-iNK) cells. Compared with unmodified iNK cells and peripheral blood-derived NK (PB-NK) cells, hnCD16-iNK cells proved to be highly resistant to activation-induced cleavage of CD16a. We found that hnCD16-iNK cells were functionally mature and exhibited enhanced ADCC against multiple tumor targets. In vivo xenograft studies using a human B-cell lymphoma demonstrated that treatment with hnCD16-iNK cells and anti-CD20 mAb led to significantly improved regression of B-cell lymphoma compared with treatment utilizing anti-CD20 mAb with PB-NK cells or unmodified iNK cells. hnCD16-iNK cells, combined with anti-HER2 mAb, also mediated improved survival in an ovarian cancer xenograft model. Together, these findings show that hnCD16-iNK cells combined with mAbs are highly effective against hematologic malignancies and solid tumors that are typically resistant to NK cell-mediated killing, demonstrating the feasibility of producing a standardized off-the-shelf engineered NK cell therapy with improved ADCC properties to treat malignancies that are otherwise refractory., (© 2020 by The American Society of Hematology.)
- Published
- 2020
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49. Outcomes and Cost-Effectiveness of Autologous Hematopoietic Cell Transplant for Multiple Sclerosis.
- Author
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Dunn-Pirio AM, Heyman BM, Kaufman DS, and Kinkel RP
- Abstract
Purpose of Review: This review presents a critical appraisal of the use of autologous hematopoietic cell transplant (AHCT) for the treatment of multiple sclerosis. We present the reader with a brief review on the AHCT procedure, its immunomodulatory mechanism of action in MS, the most recent evidence in support of its use in patients with relapsing-remitting multiple sclerosis (RRMS), as well as its cost considerations., Recent Findings: The first meta-analysis of clinical trials of AHCT for patients with MS demonstrated durable 5-year progression-free survival rates and low treatment-related mortality. Recently, the first randomized controlled phase III clinical trial demonstrated AHCT to be superior to best available therapy for a subset of patients with RRMS. This led to the American society for transplant and cellular therapies (ASTCT) to recommend AHCT "for patients with relapsing forms of MS who have prognostic factors that indicate a high risk of future disability." AHCT should be considered for patients with RRMS with evidence of clinical activity who have failed 2 lines of therapy or at least one highly active disease-modifying therapy.
- Published
- 2019
- Full Text
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50. Engineered human pluripotent stem cell-derived natural killer cells: the next frontier for cancer immunotherapy.
- Author
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Zhu H and Kaufman DS
- Abstract
Adoptive immunotherapy using immune effector cells has revolutionized cancer treatments with approval of two autologous chimeric antigen receptor (CAR) T cell therapies by the US FDA. Clinical trials using natural killer (NK) cell-based adoptive immunotherapy have been shown to be safe and effective for treatment of multiple malignancies, especially acute myelogenous leukemia. However, most of these trails use primary NK cells isolated from peripheral or cord blood which can have donor-dependent variability and can be challenging to genetic engineer to improve antitumor functions, limiting the widespread use of this promising new therapy. NK cells can now be routinely produced from human pluripotent stem cells, both human embryonic stem cells (hESCs) and induced pluripotent stem cells (iPSCs). These pluripotent stem cells are homogenous, easy to genetically modify on a clonal level and can be used as unlimited source of NK cells, making them ideal population to develop standardized, off-the-shelf adoptive NK cell therapy products. In this review, we discuss recent advances of obtaining and expanding hESC and iPSC-derived NK cells and novel genetic engineering strategies that are being applied to improve their antitumor functions., Competing Interests: Conflicts of interest: The authors declare no conflicts of interest., (Copyright © 2019 The Authors. Published by Wolters Kluwer Health Inc., on behalf of the Chinese Association for Blood Sciences.)
- Published
- 2019
- Full Text
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