Zobrazeno 1 - 10
of 20
pro vyhledávání: '"Judith F, Kribelbauer"'
Autor:
Gerard Llimos, Vincent Gardeux, Ute Koch, Judith F. Kribelbauer, Antonina Hafner, Daniel Alpern, Joern Pezoldt, Maria Litovchenko, Julie Russeil, Riccardo Dainese, Riccardo Moia, Abdurraouf Mokhtar Mahmoud, Davide Rossi, Gianluca Gaidano, Christoph Plass, Pavlo Lutsik, Clarissa Gerhauser, Sebastian M. Waszak, Alistair Boettiger, Freddy Radtke, Bart Deplancke
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-21 (2022)
Non-coding variants can regulate transcription factor binding and gene expression at variable chromatin modules. Here, the authors show that a germline variant induces transcription factor nucleation through chromatin compaction leading to AXIN2 up-r
Externí odkaz:
https://doaj.org/article/a45f0167b2ac4647bf70d5df2f44a6e7
Publikováno v:
Molecular Systems Biology, Vol 14, Iss 2, Pp 1-16 (2018)
Abstract Transcription factors (TFs) interpret DNA sequence by probing the chemical and structural properties of the nucleotide polymer. DNA shape is thought to enable a parsimonious representation of dependencies between nucleotide positions. Here,
Externí odkaz:
https://doaj.org/article/6b073aaf4c5b431b9f62a60fbd45f73c
Autor:
Satyanarayan Rao, Tsu-Pei Chiu, Judith F. Kribelbauer, Richard S. Mann, Harmen J. Bussemaker, Remo Rohs
Publikováno v:
Epigenetics & Chromatin, Vol 11, Iss 1, Pp 1-11 (2018)
Abstract Background DNA shape analysis has demonstrated the potential to reveal structure-based mechanisms of protein–DNA binding. However, information about the influence of chemical modification of DNA is limited. Cytosine methylation, the most f
Externí odkaz:
https://doaj.org/article/fd1540a0a7e54197bf016c4da6e51072
Autor:
Judith F. Kribelbauer, Oleg Laptenko, Siying Chen, Gabriella D. Martini, William A. Freed-Pastor, Carol Prives, Richard S. Mann, Harmen J. Bussemaker
Publikováno v:
Cell Reports, Vol 19, Iss 11, Pp 2383-2395 (2017)
Although DNA modifications play an important role in gene regulation, the underlying mechanisms remain elusive. We developed EpiSELEX-seq to probe the sensitivity of transcription factor binding to DNA modification in vitro using massively parallel s
Externí odkaz:
https://doaj.org/article/96450b41b63b4adabe6fbb346d6d73d5
Autor:
Judith F. Kribelbauer, Olga Pushkarev, Vincent Gardeux, Julie Russeil, Guido van Mierlo, Bart Deplancke
Many enhancers play a crucial role in regulating gene expression by assembling regulatory factor (RF) clusters, also referred to as condensates. This process is essential for facilitating enhancer communication and establishing cellular identity. How
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::0d9d076172924c37f103676d6d791ac0
https://doi.org/10.1101/2023.05.05.539543
https://doi.org/10.1101/2023.05.05.539543
Autor:
H. Tomas Rube, Chaitanya Rastogi, Siqian Feng, Judith F. Kribelbauer, Allyson Li, Basheer Becerra, Lucas A. N. Melo, Bach Viet Do, Xiaoting Li, Hammaad H. Adam, Neel H. Shah, Richard S. Mann, Harmen J. Bussemaker
Publikováno v:
Nature Biotechnology. 40:1520-1527
Protein–ligand interactions are increasingly profiled at high throughput using affinity selection and massively parallel sequencing. However, these assays do not provide the biophysical parameters that most rigorously quantify molecular interaction
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::ae4f5077e7f7c4609da2b02958cb7895
https://doi.org/10.1038/s41587-022-01307-0
https://doi.org/10.1038/s41587-022-01307-0
Autor:
Xuechen Li, Melo Lan, Chaitanya Rastogi, Tomas Rube H, Li A, Judith F. Kribelbauer, Richard S. Mann, Do Bv, Harmen J. Bussemaker, Adam Hh, Siqian Feng, Becerra B, Neel H. Shah
Quantifying sequence-specific protein-ligand interactions is critical for understanding and exploiting numerous cellular processes, including gene regulation and signal transduction. Next-generation sequencing (NGS) based assays are increasingly bein
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::7dff998bc38d1b4aeaf667611629d20a
https://doi.org/10.1101/2021.06.30.450414
https://doi.org/10.1101/2021.06.30.450414
Autor:
H Tomas, Rube, Chaitanya, Rastogi, Siqian, Feng, Judith F, Kribelbauer, Allyson, Li, Basheer, Becerra, Lucas A N, Melo, Bach Viet, Do, Xiaoting, Li, Hammaad H, Adam, Neel H, Shah, Richard S, Mann, Harmen J, Bussemaker
Publikováno v:
Nature biotechnology. 40(10)
Protein-ligand interactions are increasingly profiled at high throughput using affinity selection and massively parallel sequencing. However, these assays do not provide the biophysical parameters that most rigorously quantify molecular interactions.
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=pmid________::9581201e316924c217a247da0b881032
https://pubmed.ncbi.nlm.nih.gov/35606422
https://pubmed.ncbi.nlm.nih.gov/35606422
Publikováno v:
Annual Review of Cell and Developmental Biology. 35:357-379
Eukaryotic transcription factors (TFs) from the same structural family tend to bind similar DNA sequences, despite the ability of these TFs to execute distinct functions in vivo. The cell partly resolves this specificity paradox through combinatorial
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a52c077a90171b61f3c3be59e45ea06a
https://doi.org/10.1146/annurev-cellbio-100617-062719
https://doi.org/10.1146/annurev-cellbio-100617-062719
Autor:
Richard S. Mann, H. Tomas Rube, Justin Crocker, Gabriella Martini, Ryan Loker, Oleg Laptenko, David L. Stern, Judith F. Kribelbauer, Carol Prives, Harmen J. Bussemaker, Chaitanya Rastogi, William A. Freed-Pastor
Publikováno v:
Proceedings of the National Academy of Sciences of the United States of America
Significance One-tenth of human genes produce proteins called transcription factors (TFs) that bind to our genome and read the local DNA sequence. They work together to regulate the degree to which each gene is expressed. The affinity with which DNA
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5992e7007d3079824736a387f0f8bbf0
http://europepmc.org/articles/PMC5910815
http://europepmc.org/articles/PMC5910815