DOT1L-mediated murine neuronal differentiation associates with H3K79me2 accumulation and preserves SOX2-enhancer accessibility

Autor: Francesco Ferrari, Laura Arrigoni, Henriette Franz, Annalisa Izzo, Ludmila Butenko, Eirini Trompouki, Tanja Vogel, Thomas Manke

Publikováno v: Nature Communications, Vol 11, Iss 1, Pp 1-13 (2020)

Neuronal differentiation requires rearrangement of the transcriptional and chromatin landscapes of neural cells. Here, the authors study in-vitro neuronal differentiation of murine embryonic stem cells (ESCs) to show that this process is modulated by

Externí odkaz: https://doaj.org/article/d822e6cfeb8648068ea652e7f3ceda8d

MAPCap allows high-resolution detection and differential expression analysis of transcription start sites

Autor: Vivek Bhardwaj, Giuseppe Semplicio, Niyazi Umut Erdogdu, Thomas Manke, Asifa Akhtar

Publikováno v: Nature Communications, Vol 10, Iss 1, Pp 1-15 (2019)

The position, shape and number of transcription start sites (TSS) regulate gene expression. Here authors present MAPCap, a method for high-resolution detection and differential expression analysis of TSS, and apply MAPCap to early fly development, de

Externí odkaz: https://doaj.org/article/6bf4f34d86bc45989b2c72fd98afe691

Integrative analysis of single-cell expression data reveals distinct regulatory states in bidirectional promoters

Autor: Fatemeh Behjati Ardakani, Kathrin Kattler, Karl Nordström, Nina Gasparoni, Gilles Gasparoni, Sarah Fuchs, Anupam Sinha, Matthias Barann, Peter Ebert, Jonas Fischer, Barbara Hutter, Gideon Zipprich, Charles D. Imbusch, Bärbel Felder, Jürgen Eils, Benedikt Brors, Thomas Lengauer, Thomas Manke, Philip Rosenstiel, Jörn Walter, Marcel H. Schulz

Publikováno v: Epigenetics & Chromatin, Vol 11, Iss 1, Pp 1-14 (2018)

Abstract Background Bidirectional promoters (BPs) are prevalent in eukaryotic genomes. However, it is poorly understood how the cell integrates different epigenomic information, such as transcription factor (TF) binding and chromatin marks, to drive

Externí odkaz: https://doaj.org/article/aeda19e919924fcba37b9cf5784814fb

High-resolution TADs reveal DNA sequences underlying genome organization in flies

Autor: Fidel Ramírez, Vivek Bhardwaj, Laura Arrigoni, Kin Chung Lam, Björn A. Grüning, José Villaveces, Bianca Habermann, Asifa Akhtar, Thomas Manke

Publikováno v: Nature Communications, Vol 9, Iss 1, Pp 1-15 (2018)

Although topologically associating domains (TADs) have been extensively investigated, it is not clear to what extent DNA sequence contributes to their formation. Here the authors develop software to identify high-resolution TAD boundaries and reveal

Externí odkaz: https://doaj.org/article/f48cef696c874fc680f5d90d7c13d700

Multimodal epigenetic changes and altered NEUROD1 chromatin binding in the mouse hippocampus underlie FOXG1 syndrome

Autor: Ipek Akol, Annalisa Izzo, Fabian Gather, Stefanie Strack, Stefanie Heidrich, Darren Ó hAilín, Alejandro Villarreal, Christine Hacker, Tudor Rauleac, Chiara Bella, Andre Fischer, Thomas Manke, Tanja Vogel

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America 120(2), e2122467120 (2023). doi:10.1073/pnas.2122467120
Proceedings of the National Academy of Sciences of the United States of America

Forkhead box G1 (FOXG1) has important functions in neuronal differentiation and balances excitatory/inhibitory network activity. Thus far, molecular processes underlying FOXG1 function are largely unexplored. Here, we present a multiomics data set ex

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8a63bc501a1af10cdc8ad232f77a2ac2
https://pub.dzne.de/record/169280