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Robert P. Zinzen, Ph.D. - Publications

Affiliations: 
BIMSB Max Delbrueck Centre (MDC) 
Area:
Development, transcriptional regulation, epigenetics
Website:
https://www.mdc-berlin.de/40467197/en/research/research_teams/systems_biology_of_neural_tissue_differentiation
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21 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Legnini I, Emmenegger L, Zappulo A, Rybak-Wolf A, Wurmus R, Martinez AO, Jara CC, Boltengagen A, Hessler T, Mastrobuoni G, Kempa S, Zinzen R, Woehler A, Rajewsky N. Spatiotemporal, optogenetic control of gene expression in organoids. Nature Methods. 20: 1544-1552. PMID 37735569 DOI: 10.1038/s41592-023-01986-w  0.341
2019 McCorkindale AL, Wahle P, Werner S, Jungreis I, Menzel P, Shukla CJ, Abreu RLP, Irizarry RA, Meyer IM, Kellis M, Zinzen RP. A gene expression atlas of embryonic neurogenesis in reveals complex spatiotemporal regulation of lncRNAs. Development (Cambridge, England). 146. PMID 30923056 DOI: 10.1242/Dev.175265  0.472
2018 Menzel P, McCorkindale AL, Stefanov SR, Zinzen RP, Meyer IM. Transcriptional dynamics of microRNAs and their targets during Drosophila neurogenesis. Rna Biology. PMID 30582411 DOI: 10.1080/15476286.2018.1558907  0.516
2018 Ibrahim MM, Karabacak A, Glahs A, Kolundzic E, Hirsekorn A, Carda A, Tursun B, Zinzen RP, Lacadie SA, Ohler U. Determinants of promoter and enhancer transcription directionality in metazoans. Nature Communications. 9: 4472. PMID 30367057 DOI: 10.1038/S41467-018-06962-Z  0.483
2017 Hafez D, Karabacak A, Krueger S, Hwang YC, Wang LS, Zinzen RP, Ohler U. McEnhancer: predicting gene expression via semi-supervised assignment of enhancers to target genes. Genome Biology. 18: 199. PMID 29070071 DOI: 10.1186/S13059-017-1316-X  0.457
2017 Karaiskos N, Wahle P, Alles J, Boltengagen A, Ayoub S, Kipar C, Kocks C, Rajewsky N, Zinzen RP. The Drosophila embryo at single-cell transcriptome resolution. Science (New York, N.Y.). PMID 28860209 DOI: 10.1126/Science.Aan3235  0.469
2017 Alles J, Karaiskos N, Praktiknjo SD, Grosswendt S, Wahle P, Ruffault PL, Ayoub S, Schreyer L, Boltengagen A, Birchmeier C, Zinzen R, Kocks C, Rajewsky N. Cell fixation and preservation for droplet-based single-cell transcriptomics. Bmc Biology. 15: 44. PMID 28526029 DOI: 10.1186/S12915-017-0383-5  0.321
2016 Glahs A, Zinzen RP. Putting chromatin in its place: the pioneer factor NeuroD1 modulates chromatin state to drive cell fate decisions. The Embo Journal. 35: 1-3. PMID 26567170 DOI: 10.15252/Embj.201593324  0.446
2014 Rembold M, Ciglar L, Yáñez-Cuna JO, Zinzen RP, Girardot C, Jain A, Welte MA, Stark A, Leptin M, Furlong EE. A conserved role for Snail as a potentiator of active transcription. Genes & Development. 28: 167-81. PMID 24402316 DOI: 10.1101/Gad.230953.113  0.638
2012 Bonn S, Zinzen RP, Perez-Gonzalez A, Riddell A, Gavin AC, Furlong EE. Cell type-specific chromatin immunoprecipitation from multicellular complex samples using BiTS-ChIP. Nature Protocols. 7: 978-94. PMID 22538849 DOI: 10.1038/Nprot.2012.049  0.601
2012 Bonn S, Zinzen RP, Girardot C, Gustafson EH, Perez-Gonzalez A, Delhomme N, Ghavi-Helm Y, WilczyÅ„ski B, Riddell A, Furlong EE. Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development. Nature Genetics. 44: 148-56. PMID 22231485 DOI: 10.1038/Ng.1064  0.619
2009 Zinzen RP, Girardot C, Gagneur J, Braun M, Furlong EE. Combinatorial binding predicts spatio-temporal cis-regulatory activity. Nature. 462: 65-70. PMID 19890324 DOI: 10.1038/Nature08531  0.633
2008 Zinzen RP, Furlong EE. Divergence in cis-regulatory networks: taking the 'species' out of cross-species analysis. Genome Biology. 9: 240. PMID 19012800 DOI: 10.1186/Gb-2008-9-11-240  0.594
2007 Goltsev Y, Fuse N, Frasch M, Zinzen RP, Lanzaro G, Levine M. Evolution of the dorsal-ventral patterning network in the mosquito, Anopheles gambiae. Development (Cambridge, England). 134: 2415-24. PMID 17522157 DOI: 10.1242/Dev.02863  0.413
2007 Zinzen RP, Papatsenko D. Enhancer responses to similarly distributed antagonistic gradients in development. Plos Computational Biology. 3: e84. PMID 17500585 DOI: 10.1371/Journal.Pcbi.0030084  0.465
2007 Zeitlinger J, Zinzen RP, Stark A, Kellis M, Zhang H, Young RA, Levine M. Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo. Genes & Development. 21: 385-90. PMID 17322397 DOI: 10.1101/Gad.1509607  0.441
2006 Zinzen RP, Cande J, Ronshaugen M, Papatsenko D, Levine M. Evolution of the ventral midline in insect embryos. Developmental Cell. 11: 895-902. PMID 17141163 DOI: 10.1016/J.Devcel.2006.10.012  0.47
2006 Zinzen RP, Senger K, Levine M, Papatsenko D. Computational models for neurogenic gene expression in the Drosophila embryo. Current Biology : Cb. 16: 1358-65. PMID 16750631 DOI: 10.1016/J.Cub.2006.05.044  0.455
2006 De Renzis S, Yu J, Zinzen R, Wieschaus E. Dorsal-ventral pattern of Delta trafficking is established by a snail-tom-neuralized pathway Developmental Cell. 10: 257-264. PMID 16459304 DOI: 10.1016/J.Devcel.2006.01.011  0.408
2005 Biemar F, Zinzen R, Ronshaugen M, Sementchenko V, Manak JR, Levine MS. Spatial regulation of microRNA gene expression in the Drosophila embryo. Proceedings of the National Academy of Sciences of the United States of America. 102: 15907-11. PMID 16249329 DOI: 10.1073/Pnas.0507817102  0.338
2004 Markstein M, Zinzen R, Markstein P, Yee KP, Erives A, Stathopoulos A, Levine M. A regulatory code for neurogenic gene expression in the Drosophila embryo. Development (Cambridge, England). 131: 2387-94. PMID 15128669 DOI: 10.1242/Dev.01124  0.493
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