The commitment of the human cell atlas to humanity

Autor: Ido Amit, Kristin Ardlie, Fabiana Arzuaga, Gordon Awandare, Gary Bader, Alexander Bernier, Piero Carninci, Stacey Donnelly, Roland Eils, Alistair R. R. Forrest, Henry T. Greely, Roderic Guigo, Nir Hacohen, Muzlifah Haniffa, Emily Sarah Kirby, Bartha Maria Knoppers, Arnold Kriegstein, Ed S. Lein, Sten Linnarsson, Partha P. Majumder, Miriam Merad, Kerstin Meyer, Musa M. Mhlanga, Garry Nolan, Ntobeko A. B. Ntusi, Dana Pe’er, Shyam Prabhakar, Maili Raven-Adams, Aviv Regev, Orit Rozenblatt-Rosen, Senjuti Saha, Andrea Saltzman, Alex K. Shalek, Jay W. Shin, Henk Stunnenberg, Sarah A. Teichmann, Timothy Tickle, Alexandra-Chloe Villani, Christine Wells, Barbara Wold, Huanming Yang, Xiaowei Zhuang

Publikováno v: Nature Communications, Vol 15, Iss 1, Pp 1-7 (2024)

Abstract The Human Cell Atlas (HCA) is a global partnership “to create comprehensive reference maps of all human cells—the fundamental units of life – as a basis for both understanding human health and diagnosing, monitoring, and treating disea

Externí odkaz: https://doaj.org/article/f71d8167c39a41c8a3df2a2b706d5aba

Predicting stimulation-dependent enhancer-promoter interactions from ChIP-Seq time course data

Autor: Tomasz Dzida, Mudassar Iqbal, Iryna Charapitsa, George Reid, Henk Stunnenberg, Filomena Matarese, Korbinian Grote, Antti Honkela, Magnus Rattray

Publikováno v: PeerJ, Vol 5, p e3742 (2017)

We have developed a machine learning approach to predict stimulation-dependent enhancer-promoter interactions using evidence from changes in genomic protein occupancy over time. The occupancy of estrogen receptor alpha (ERα), RNA polymerase (Pol II)

Externí odkaz: https://doaj.org/article/5dc10e70fa8d487fb5f9f7630200b349

Trained immunity, tolerance, priming and differentiation: distinct immunological processes

Autor: Boris Novakovic, Andreas Schlitzer, Giuseppe Matarese, Zahi A. Fayad, Willem J. M. Mulder, Henk Stunnenberg, Andrew R. DiNardo, Niels P. Riksen, Joachim L. Schultze, Christine Stabell Benn, Joseph C. Sun, Eva Kaufmann, Shabaana A. Khader, Michael H. Sieweke, Siroon Bekkering, Stephanie Fanucchi, Luis B. Barreiro, Maziar Divangahi, Mihai G. Netea, Reinout van Crevel, Jordi Ochando, Peter Aaby, Shruti Naik, Leo A. B. Joosten, Triantafyllos Chavakis, Musa M. Mhlanga, Eicke Latz, David L. Williams, Jos W. M. van der Meer, Luke A. J. O'Neill, Ramnik J. Xavier, Nigel Curtis, Robert W. Sauerwein, Kate L. Jeffrey, Edward R. Sherwood, Elaine Fuchs, Sebastian Weis, Nargis Khan, Melanie Hamon, Raphael Duivenwoorden, Keiko Ozato, Simone J.C.F.M. Moorlag, Jorge Domínguez-Andrés, Frank L. van de Veerdonk

Publikováno v: Nature Immunology, 22(1), 2-6. Nature Publishing Group
Nat Immunol
Nature Immunology
Nature Immunology, 2021, 22 (1), pp.2-6. ⟨10.1038/s41590-020-00845-6⟩
Nature Immunology, 22, 2-6
Nature Immunology, 22, 1, pp. 2-6
Divangahi, M, Aaby, P, Khader, S A, Barreiro, L B, Bekkering, S, Chavakis, T, van Crevel, R, Curtis, N, DiNardo, A R, Dominguez-Andres, J, Duivenwoorden, R, Fanucchi, S, Fayad, Z, Fuchs, E, Hamon, M, Jeffrey, K L, Khan, N, Joosten, L A B, Kaufmann, E, Latz, E, Matarese, G, van der Meer, J W M, Mhlanga, M, Moorlag, S J C F M, Mulder, W J M, Naik, S, Novakovic, B, O’Neill, L, Ochando, J, Ozato, K, Riksen, N P, Sauerwein, R, Sherwood, E R, Schlitzer, A, Schultze, J L, Sieweke, M H, Benn, C S, Stunnenberg, H, Sun, J, van de Veerdonk, F L, Weis, S, Williams, D L, Xavier, R & Netea, M G 2021, ' Trained immunity, tolerance, priming and differentiation : distinct immunological processes ', Nature Immunology, vol. 22, no. 1, pp. 2–6 . https://doi.org/10.1038/s41590-020-00845-6
Nature Immunology, Nature Publishing Group, 2021, 22 (1), pp.2-6. ⟨10.1038/s41590-020-00845-6⟩
Nature immunology 22(1), 2-6 (2021). doi:10.1038/s41590-020-00845-6
Nature immunology, 22(1), 2-6. Nature Publishing Group

The similarities and differences between trained immunity and other immune processes are the subject of intense interrogation. Therefore, a consensus on the definition of trained immunity in both in vitro and in vivo settings, as well as in experimen

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f885f45a692b7911f7d93395e1feadca
http://www.scopus.com/inward/record.url?scp=85097285095&partnerID=8YFLogxK

Behavioral-transcriptomic landscape of engineered T cells targeting human cancer organoids

Autor: van Vliet Ej, Hans Clevers, Wehrens Ej, Alieva M, Oded Kopper, Rebel Hg, Kai Kretzschmar, A. D. Meringa, Rios Ac, Yotam E. Bar-Ephraim, van Ineveld Rl, Peter Brazda, Domenico Fasci, Ariese Hc, Farid Keramati, Inez Johanna, Buchholz M, Henk Stunnenberg, Johanna F. Dekkers, J. Kuball, Karaiskaki E, Eggermont Am, Zsolt Sebestyén, Wezenaar Ak, Maarten H. Geurts, Román Mb, Jens Puschhof, Cleven A

SummaryCellular immunotherapies are rapidly gaining clinical importance, yet predictive platforms for modeling their mode of action are lacking. Here, we developed a dynamic immuno-organoid 3D imaging-transcriptomics platform; BEHAV3D, to unravel the

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::3a3449ee2bfa7051e711bd3325bf3838
https://doi.org/10.1101/2021.05.05.442764

Genes Involved in Energy Metabolism Are Differentially Expressed During the Day-Night Cycle in Murine Retinal Pigment Epithelium

Autor: Henk Stunnenberg, Claudia Carmone, Guoqiang Yi, Elja Louer, Anneke I. den Hollander, Peter M.T. Deen, Joris H. Robben

Publikováno v: Investigative Ophthalmology and Visual Science, 61
Investigative Ophthalmology & Visual Science
Investigative Ophthalmology and Visual Science, 61, 5

Purpose The functional interaction between photoreceptors and retinal pigment epithelium (RPE) cells is essential for vision. Phagocytosis of photoreceptor outer segments (POSs) by the RPE follows a circadian pattern; however, it remains unknown whet

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f68baff73b9023d10d2b386bbd2224e3
https://doi.org/10.1167/iovs.61.5.49