Universität zu Köln

Journal Article

Weiterer, Sinah-Sophia, Meier-Soelch, Johanna, Georgomanolis, Theodore, Mizi, Athanasia ORCID: 0000-0002-4313-491X, Beyerlein, Anna, Weiser, Hendrik, Brant, Lilija, Mayr-Buro, Christin, Jurida, Liane, Beuerlein, Knut, Mueller, Helmut, Weber, Axel, Tenekeci, Ulas, Dittrich-Breiholz, Oliver, Bartkuhn, Marek, Nist, Andrea, Stiewe, Thorsten ORCID: 0000-0003-0134-7826, van IJcken, Wilfred F. J., Riedlinger, Tabea, Schmitz, M. Lienhard ORCID: 0000-0002-6984-7192, Papantonis, Argyris ORCID: 0000-0001-7551-1073 and Kracht, Michael (2020). Distinct IL-1 alpha-responsive enhancers promote acute and coordinated changes in chromatin topology in a hierarchical manner. Embo J., 39 (1). HOBOKEN: WILEY. ISSN 1460-2075

Mizi, Athanasia ORCID: 0000-0002-4313-491X, Gusmao, Eduardo Gade and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2020). iHi-C 2.0: A simple approach for mapping native spatial chromatin organisation from low cell numbers. Methods, 170. S. 33 - 38. SAN DIEGO: ACADEMIC PRESS INC ELSEVIER SCIENCE. ISSN 1095-9130

Ahuja, Gaurav ORCID: 0000-0002-2837-9361, Bartsch, Deniz, Yao, Wenjie, Geissen, Simon, Frank, Stefan, Aguirre, Aitor ORCID: 0000-0002-1383-2792, Russ, Nicole, Messling, Jan-Erik ORCID: 0000-0003-3843-0041, Dodzian, Joanna, Lagerborg, Kim A., Vargas, Natalia Emilse, Muck, Joscha Sergej, Brodesser, Susanne, Baldus, Stephan, Sachinidis, Agapios, Hescheler, Juergen, Dieterich, Christoph, Trifunovic, Aleksandra, Papantonis, Argyris ORCID: 0000-0001-7551-1073, Petrascheck, Michael, Klinke, Anna, Jain, Mohit, Valenzano, Dario Riccardo and Kurian, Leo ORCID: 0000-0001-7466-5169 (2019). Loss of genomic integrity induced by lysosphingolipid imbalance drives ageing in the heart. EMBO Rep., 20 (4). HOBOKEN: WILEY. ISSN 1469-3178

Gothe, Henrike Johanna, Bouwman, Britta Annika Maria, Gusmao, Eduardo Gade, Piccinno, Rossana, Petrosino, Giuseppe ORCID: 0000-0002-2835-4308, Sayols, Sergi ORCID: 0000-0002-3877-4170, Drechsel, Oliver, Minneker, Vera, Josipovic, Natasa, Mizi, Athanasia ORCID: 0000-0002-4313-491X, Nielsen, Christian Friberg ORCID: 0000-0002-2886-317X, Wagner, Eva-Maria, Takeda, Shunichi, Sasanuma, Hiroyuki, Hudson, Damien Francis, Kindler, Thomas, Baranello, Laura, Papantonis, Argyris ORCID: 0000-0001-7551-1073, Crosetto, Nicola and Roukos, Vassilis ORCID: 0000-0002-5065-3937 (2019). Spatial Chromosome Folding and Active Transcription Drive DNA Fragility and Formation of Oncogenic MLL Translocations. Mol. Cell, 75 (2). S. 267 - 296. CAMBRIDGE: CELL PRESS. ISSN 1097-4164

Ubelmesser, Nadine and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2019). Technologies to study spatial genome organization: beyond 3C. Brief. Funct. Genomics, 18 (6). S. 395 - 402. OXFORD: OXFORD UNIV PRESS. ISSN 2041-2657

Frank, Stefan, Ahuja, Gaurav ORCID: 0000-0002-2837-9361, Bartsch, Deniz, Russ, Nicole, Yao, Wenjie, Kuo, Joseph Chao-Chung, Derks, Jens-Peter, Akhade, Vijay Suresh, Kargapolova, Yulia, Georgomanolis, Theodore, Messling, Jan-Erik ORCID: 0000-0003-3843-0041, Gramm, Marie, Brant, Lilija, Rehimi, Rizwan, Vargas, Natalia Emilse, Kuroczik, Alina, Yang, Tsun-Po, Sahito, Raja Ghazanfar Ali, Franzen, Julia, Hescheler, Juergen, Sachinidis, Agapios, Peifer, Martin, Rada-Iglesias, Alvaro ORCID: 0000-0001-7137-1341, Kanduri, Meena, Costa, Ivan G. ORCID: 0000-0003-2890-8697, Kanduri, Chandrasekhar, Papantonis, Argyris ORCID: 0000-0001-7551-1073 and Kurian, Leo ORCID: 0000-0001-7466-5169 (2019). yylncT Defines a Class of Divergently Transcribed lncRNAs and Safeguards the T-mediated Mesodermal Commitment of Human PSCs. Cell Stem Cell, 24 (2). S. 318 - 336. CAMBRIDGE: CELL PRESS. ISSN 1875-9777

Rada-Iglesias, Alvaro ORCID: 0000-0001-7137-1341, Grosveld, Frank G. and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2018). Forces driving the three-dimensional folding of eukaryotic genomes. Mol. Syst. Biol., 14 (6). HOBOKEN: WILEY. ISSN 1744-4292

Zirkel, Anne, Nikolic, Milos ORCID: 0000-0003-0029-7601, Sofiadis, Konstantinos, Mallm, Jan-Philipp, Brackley, Chris A., Gothe, Henrike, Drechsel, Oliver, Becker, Christian, Altmueller, Janine, Josipovic, Natasa, Georgomanolis, Theodore, Brant, Lilija, Franzen, Julia, Koker, Mirjam, Gusmao, Eduardo G., Costa, Ivan G. ORCID: 0000-0003-2890-8697, Ullrich, Roland T., Wagner, Wolfgang ORCID: 0000-0002-1971-3217, Roukos, Vassilis ORCID: 0000-0002-5065-3937, Nuernberg, Peter, Marenduzzo, Davide ORCID: 0000-0003-3974-4915, Rippe, Karsten ORCID: 0000-0001-9951-9395 and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2018). HMGB2 Loss upon Senescence Entry Disrupts Genomic Organization and Induces CTCF Clustering across Cell Types. Mol. Cell, 70 (4). S. 730 - 751. CAMBRIDGE: CELL PRESS. ISSN 1097-4164

Michieletto, Davide, Chiang, Michael, Coli, Davide, Papantonis, Argyris ORCID: 0000-0001-7551-1073, Orlandini, Enzo, Cook, Peter R. and Marenduzzo, Davide ORCID: 0000-0003-3974-4915 (2018). Shaping epigenetic memory via genomic bookmarking. Nucleic Acids Res., 46 (1). S. 83 - 94. OXFORD: OXFORD UNIV PRESS. ISSN 1362-4962

Nikolic, Milos ORCID: 0000-0003-0029-7601, Papantonis, Argyris ORCID: 0000-0001-7551-1073 and Rada-Iglesias, Alvaro ORCID: 0000-0001-7137-1341 (2017). GARLIC: a bioinformatic toolkit for aetiologically connecting diseases and cell type-specific regulatory maps. Hum. Mol. Genet., 26 (4). S. 742 - 753. OXFORD: OXFORD UNIV PRESS. ISSN 1460-2083

Gabriel, Elke, Ramani, Anand, Karow, Ulrike, Gottardo, Marco ORCID: 0000-0001-8649-7799, Natarajan, Karthick, Gooi, Li Ming, Goranci-Buzhala, Gladiola, Krut, Oleg, Peters, Franziska, Nikolic, Milos ORCID: 0000-0003-0029-7601, Kuivanen, Suvi, Korhonen, Essi ORCID: 0000-0003-4730-7715, Smura, Teemu ORCID: 0000-0002-9187-3151, Vapalahti, Olli ORCID: 0000-0003-2270-6824, Papantonis, Argyris ORCID: 0000-0001-7551-1073, Schmidt-Chanasit, Jonas, Riparbelli, Maria, Callaini, Giuliano ORCID: 0000-0003-2252-0309, Kroenke, Martin, Utermoehlen, Olaf and Gopalakrishnan, Jay (2017). Recent Zika Virus Isolates Induce Premature Differentiation of Neural Progenitors in Human Brain Organoids. Cell Stem Cell, 20 (3). S. 397 - 412. CAMBRIDGE: CELL PRESS. ISSN 1875-9777

Franzen, Julia, Zirkel, Anne, Blake, Jonathon, Rath, Bjoern, Benes, Vladimir, Papantonis, Argyris ORCID: 0000-0001-7551-1073 and Wagner, Wolfgang ORCID: 0000-0002-1971-3217 (2017). Senescence-associated DNA methylation is stochastically acquired in subpopulations of mesenchymal stem cells. Aging Cell, 16 (1). S. 183 - 192. HOBOKEN: WILEY. ISSN 1474-9726

Kolovos, Petros ORCID: 0000-0002-0787-6158, Georgomanolis, Theodore, Koeferle, Anna, Larkin, Joshua D., Brant, Lilija, Nikolic, Milos ORCID: 0000-0003-0029-7601, Gusmao, Eduardo G., Zirkel, Anne, Knoch, Tobias A., van Ijcken, Wilfred F., Cook, Peter R., Costa, Ivan G. ORCID: 0000-0003-2890-8697, Grosveld, Frank G. and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2016). Binding of nuclear factor kappa B to noncanonical consensus sites reveals its multimodal role during the early inflammatory response. Genome Res., 26 (11). S. 1478 - 1490. COLD SPRING HARBOR: COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT. ISSN 1549-5469

Georgomanolis, Theodore, Sofiadis, Konstantinos and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2016). Cutting a Long Intron Short : Recursive Splicing and Its Implications. Front. Physiol., 7. LAUSANNE: FRONTIERS MEDIA SA. ISSN 1664-042X

Brant, Lilija, Georgomanolis, Theodore, Nikolic, Milos ORCID: 0000-0003-0029-7601, Brackley, Chris A., Kolovos, Petros ORCID: 0000-0002-0787-6158, van Ijcken, Wilfred, Grosveld, Frank G., Marenduzzo, Davide ORCID: 0000-0003-3974-4915 and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2016). Exploiting native forces to capture chromosome conformation in mammalian cell nuclei. Mol. Syst. Biol., 12 (12). HOBOKEN: WILEY. ISSN 1744-4292

Melnik, Svitlana, Caudron-Herger, Maiwen ORCID: 0000-0002-7030-8153, Brant, Lilija, Carr, Ian M., Rippe, Karsten ORCID: 0000-0001-9951-9395, Cook, Peter R. and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2016). Isolation of the protein and RNA content of active sites of transcription from mammalian cells. Nat. Protoc., 11 (3). S. 553 - 566. LONDON: NATURE PUBLISHING GROUP. ISSN 1750-2799

Caudron-Herger, Maiwen ORCID: 0000-0002-7030-8153, Cook, Peter R., Rippe, Karsten ORCID: 0000-0001-9951-9395 and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2015). Dissecting the nascent human transcriptome by analysing the RNA content of transcription factories. Nucleic Acids Res., 43 (14). OXFORD: OXFORD UNIV PRESS. ISSN 1362-4962

Kelly, Steven ORCID: 0000-0001-8583-5362, Greenman, Chris, Cook, Peter R. and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2015). Exon Skipping Is Correlated with Exon Circularization. J. Mol. Biol., 427 (15). S. 2414 - 2418. LONDON: ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD. ISSN 1089-8638

Diermeier, Sarah ORCID: 0000-0002-6120-2744, Kolovos, Petros ORCID: 0000-0002-0787-6158, Heizinger, Leonhard ORCID: 0000-0002-9766-7471, Schwartz, Uwe, Georgomanolis, Theodore, Zirkel, Anne, Wedemann, Gero ORCID: 0000-0001-7869-774X, Grosveld, Frank, Knoch, Tobias A., Merkl, Rainer, Cook, Peter R., Laengst, Gernot and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2014). TNF alpha signalling primes chromatin for NF-kappa B binding and induces rapid and widespread nucleosome repositioning. Genome Biol., 15 (12). LONDON: BMC. ISSN 1474-760X

Zirkel, Anne and Papantonis, Argyris ORCID: 0000-0001-7551-1073 (2014). Transcription as a force partitioning the eukaryotic genome. Biol. Chem., 395 (11). S. 1301 - 1306. BERLIN: WALTER DE GRUYTER GMBH. ISSN 1437-4315

Brackley, Chris A., Taylor, Stephen, Papantonis, Argyris ORCID: 0000-0001-7551-1073, Cook, Peter R. and Marenduzzo, Davide ORCID: 0000-0003-3974-4915 (2013). Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization. Proc. Natl. Acad. Sci. U. S. A., 110 (38). S. E3605 - 7. WASHINGTON: NATL ACAD SCIENCES. ISSN 0027-8424

Papantonis, Argyris ORCID: 0000-0001-7551-1073 and Cook, Peter R. (2013). Transcription Factories: Genome Organization and Gene Regulation. Chem. Rev., 113 (11). S. 8683 - 8706. WASHINGTON: AMER CHEMICAL SOC. ISSN 1520-6890

Book Section, Proceedings Item or annotation in a legal commentary

Papantonis, Argyris ORCID: 0000-0001-7551-1073, Swevers, Luc and Iatrou, Kostas (2015). Chorion Genes: A Landscape of Their Evolution, Structure, and Regulation. In: Annual Review of Entomology, S. 177 - 195. PALO ALTO: ANNUAL REVIEWS. ISBN 978-0-8243-0160-6