Concept
Boîte TATA
Publications associées (65)
Systematic analysis of low-affinity transcription factor binding site clusters in vitro and in vivo establishes their functional relevance
Sebastian Maerkl, Shiyu Cheng, Ivan Istomin, Maria Lopez Malo, Amir Shahein, Evan James Olson
Binding to binding site clusters has yet to be characterized in depth, and the functional relevance of low-affinity clusters remains uncertain. We characterized transcription factor binding to low-affinity clusters in vitro and found that transcription fac ...
NATURE PORTFOLIO2022Computational identification and experimental characterization of preferred downstream positions in human core promoters
Author summary Transcription of genes by the RNA polymerase II enzyme initiates at a genomic region termed the core promoter. The core promoter is a regulatory region that may contain diverse short DNA sequence motifs/elements that confer specific properti ...
PUBLIC LIBRARY SCIENCE2021The box C/D snoRNP assembly factor Bcd1 interacts with the histone chaperone Rtt106 and controls its transcription dependent activity
Biogenesis of eukaryotic box C/D small nucleolar ribonucleoproteins initiates co-transcriptionally and requires the action of the assembly machinery including the Hsp90/R2TP complex, the Rsa1p:Hit1p heterodimer and the Bcd1 protein. We present genetic inte ...
NATURE RESEARCH2021Transcription Factors and DNA Play Hide and Seek
Transcription factors (TFs) bind to specific DNA motifs to regulate the expression of target genes. To reach their binding sites, TFs diffuse in 3D and perform local motions such as 1D sliding, hopping, or intersegmental transfer. TF-DNA interactions depen ...
2020Opposing chromatin remodelers control transcription initiation frequency and start site selection
Precise nucleosome organization at eukaryotic promoters is thought to be generated by multiple chromatin remodeler (CR) enzymes and to affect transcription initiation. Using an integrated analysis of chromatin remodeler binding and nucleosome occupancy fol ...
NATURE PUBLISHING GROUP2019Single-molecule dynamics and genome-wide transcriptomics reveal that NF-kB (p65)-DNA binding times can be decoupled from transcriptional activation
Suliana Manley, Beat Fierz, David Michael Suter, Christian Sieben, Aleksandr Benke, Andrea Callegari
Transcription factors (TFs) regulate gene expression in both prokaryotes and eukaryotes by recognizing and binding to specific DNA promoter sequences. In higher eukaryotes, it remains unclear how the duration of TF binding to DNA relates to downstream tran ...
2019Learning Intelligent Dialogs for Bounding Box Annotation
Ksenia Konyushkova, Vittorio Ferrari
We introduce Intelligent Annotation Dialogs for bounding box annotation. We train an agent to automatically choose a sequence of actions for a human annotator to produce a bounding box in a minimal amount of time. Specifically, we consider two actions: box ...
IEEE2018