| Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development S Bonn, RP Zinzen, C Girardot, EH Gustafson, A Perez-Gonzalez, ... Nature genetics 44 (2), 148-156, 2012 | 602 | 2012 |
| Combinatorial binding predicts spatio-temporal cis-regulatory activity RP Zinzen, C Girardot, J Gagneur, M Braun, EEM Furlong Nature 462 (7269), 65-70, 2009 | 471 | 2009 |
| The Drosophila embryo at single-cell transcriptome resolution N Karaiskos, P Wahle, J Alles, A Boltengagen, S Ayoub, C Kipar, C Kocks, ... Science 358 (6360), 194-199, 2017 | 398 | 2017 |
| Fly Cell Atlas: A single-nucleus transcriptomic atlas of the adult fruit fly H Li, J Janssens, M De Waegeneer, SS Kolluru, K Davie, V Gardeux, ... Science 375 (6584), eabk2432, 2022 | 394 | 2022 |
| Whole-genome ChIP–chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo J Zeitlinger, RP Zinzen, A Stark, M Kellis, H Zhang, RA Young, M Levine Genes & development 21 (4), 385-390, 2007 | 357 | 2007 |
| Cell fixation and preservation for droplet-based single-cell transcriptomics J Alles, N Karaiskos, SD Praktiknjo, S Grosswendt, P Wahle, PL Ruffault, ... BMC biology 15, 1-14, 2017 | 227 | 2017 |
| Computational models for neurogenic gene expression in the Drosophila embryo RP Zinzen, K Senger, M Levine, D Papatsenko Current Biology 16 (13), 1358-1365, 2006 | 193 | 2006 |
| A regulatory code for neurogenic gene expression in the Drosophila embryo M Markstein, R Zinzen, P Markstein, KP Yee, A Erives, A Stathopoulos, ... Oxford University Press for The Company of Biologists Limited 131 (10), 2387 …, 2004 | 170 | 2004 |
| Oxidative metabolism drives immortalization of neural stem cells during tumorigenesis F Bonnay, A Veloso, V Steinmann, T Köcher, MD Abdusselamoglu, ... Cell 182 (6), 1490-1507. e19, 2020 | 125 | 2020 |
| Spatial regulation of microRNA gene expression in the Drosophila embryo F Biemar, R Zinzen, M Ronshaugen, V Sementchenko, JR Manak, ... Proceedings of the National Academy of Sciences 102 (44), 15907-15911, 2005 | 113 | 2005 |
| Cell type–specific chromatin immunoprecipitation from multicellular complex samples using BiTS-ChIP S Bonn, RP Zinzen, A Perez-Gonzalez, A Riddell, AC Gavin, EEM Furlong Nature Protocols 7 (5), 978-994, 2012 | 108 | 2012 |
| A conserved role for Snail as a potentiator of active transcription M Rembold, L Ciglar, JO Yáñez-Cuna, RP Zinzen, C Girardot, A Jain, ... Genes & development 28 (2), 167-181, 2014 | 93 | 2014 |
| Dorsal-ventral pattern of Delta trafficking is established by a Snail-Tom-Neuralized pathway S De Renzis, J Yu, R Zinzen, E Wieschaus Developmental cell 10 (2), 257-264, 2006 | 91 | 2006 |
| Evolution of the dorsal-ventral patterning network in the mosquito, Anopheles gambiae Y Goltsev, N Fuse, M Frasch, RP Zinzen, G Lanzaro, M Levine Development 134 (13), 2415-2424, 2007 | 90 | 2007 |
| miR-184 regulates pancreatic β-cell function according to glucose metabolism SG Tattikota, T Rathjen, J Hausser, A Khedkar, UD Kabra, V Pandey, ... Journal of Biological Chemistry 290 (33), 20284-20294, 2015 | 66 | 2015 |
| Evolution of the ventral midline in insect embryos RP Zinzen, J Cande, M Ronshaugen, D Papatsenko, M Levine Developmental cell 11 (6), 895-902, 2006 | 66 | 2006 |
| Enhancer responses to similarly distributed antagonistic gradients in development RP Zinzen, D Papatsenko PLoS computational biology 3 (5), e84, 2007 | 49 | 2007 |
| Determinants of promoter and enhancer transcription directionality in metazoans MM Ibrahim, A Karabacak, A Glahs, E Kolundzic, A Hirsekorn, A Carda, ... Nature communications 9 (1), 4472, 2018 | 33 | 2018 |
| McEnhancer: predicting gene expression via semi-supervised assignment of enhancers to target genes D Hafez, A Karabacak, S Krueger, YC Hwang, LS Wang, RP Zinzen, ... Genome biology 18, 1-21, 2017 | 30 | 2017 |
| Spatiotemporal, optogenetic control of gene expression in organoids I Legnini, L Emmenegger, A Zappulo, A Rybak-Wolf, R Wurmus, ... Nature Methods 20 (10), 1544-1552, 2023 | 27 | 2023 |
