Publications related to Directionality (molecular biology)

Molecular mechanism of plasmid elimination by the DdmDE defense system

Melanie Blokesch, Sandrine Stutzmann, David William Adams, Laurie Righi

Seventh pandemic Vibrio cholerae strains contain two pathogenicity islands that encode the DNA defense modules DdmABC and DdmDE. Here we use cryogenic electron microscopy to reveal the mechanistic basis for plasmid defense by DdmDE. A structure of the DdmD ...

2024

Fluid flow-induced left-right asymmetric decay of Dand5 mRNA in the mouse embryo requires a Bicc1-Ccr4 RNA degradation complex

Daniel Constam, Benjamin Marcel Daniel Rothé

Molecular left-right (L-R) asymmetry is established at the node of the mouse embryo as a result of the sensing of a leftward fluid flow by immotile cilia of perinodal crown cells and the consequent degradation of Dand5 mRNA on the left side. We here examin ...

NATURE PORTFOLIO2021

Generation of a Large Peptide Phage Display Library by Self-Ligation of Whole-Plasmid PCR Product

Christian Heinis, Xudong Kong, Vanessa Carle, Cristina Diaz Perlas, Kaycie Marie Butler

The success of phage display, used for developing target-specific binders based on peptides and proteins, depends on the size and diversity of the library screened, but generating large libraries of phage-encoded polypeptides remains challenging. New pepti ...

2020

Influence of Rotational Nucleosome Positioning on Transcription Start Site Selection in Animal Promoters

Giovanna Ambrosini, Philipp Bucher, René Dreos

The recruitment of RNA-Pol-II to the transcription start site (TSS) is an important step in gene regulation in all organisms. Core promoter elements (CPE) are conserved sequence motifs that guide Pol-II to the TSS by interacting with specific transcription ...

Public Library Science2016

An interplay between the p38 MAPK pathway and AUBPs regulates c-fos mRNA stability during mitogenic stimulation

Diego Chiappe, Tamara Tanos

Mitogen-activated protein kinase (MAPK) pathways constitute key regulatory elements linking extracellular stimuli to nuclear gene expression. Immediate-early responsive genes (IEGs) of the activator protein 1 (AP-1) family, such as fos, achieve peak expres ...

Portland Press Ltd2015

Regulation of the Corrinoid Metabolism in Desulfitobacteria

Christof Holliger, Julien Maillard, Emmanuelle Rohrbach, Aurélie Duret

The corrinoid cofactor is essential to organohalide respiration (OHR) as key element in virtually all reductive dehalogenases. Desulfitobacteria, and more particularly D. hafniense, represent a group of versatile OHR bacteria able to produce corrinoids de ...

2014

Probabilistic partitioning methods to find significant patterns in ChIP-Seq data

Bernard Moret, Philipp Bucher, Nishanth Ulhas Nair, Sunil Kumar

Motivation: We have witnessed an enormous increase in ChIP-Seq data for histone modifications in the past few years. Discovering significant patterns in these data is an important problem for understanding biological mechanisms. Results: We propose probabi ...

Oxford University Press2014

Structural Variation-Associated Expression Changes Are Paralleled by Chromatin Architecture Modifications

Jacques Rougemont, Marion Leleu, Nele Gheldof

Copy number variants (CNVs) influence the expression of genes that map not only within the rearrangement, but also to its flanks. To assess the possible mechanism(s) underlying this "neighboring effect", we compared intrachromosomal interactions and histon ...

Public Library of Science2013

Real-Time mRNA Measurement during an

Sebastian Maerkl, Henrike Marie Niederholtmeyer

In vitro transcription and translation reactions have become popular for a bottom-up approach to synthetic biology. Concentrations of the mRNA intermediate are rarely determined, although knowledge of synthesis and degradation rates could facilitate ration ...

Amer Chemical Soc2012

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Directionality (molecular biology)

Molecular mechanism of plasmid elimination by the DdmDE defense system

Fluid flow-induced left-right asymmetric decay of Dand5 mRNA in the mouse embryo requires a Bicc1-Ccr4 RNA degradation complex

Generation of a Large Peptide Phage Display Library by Self-Ligation of Whole-Plasmid PCR Product

Influence of Rotational Nucleosome Positioning on Transcription Start Site Selection in Animal Promoters

An interplay between the p38 MAPK pathway and AUBPs regulates c-fos mRNA stability during mitogenic stimulation

Regulation of the Corrinoid Metabolism in Desulfitobacteria

Probabilistic partitioning methods to find significant patterns in ChIP-Seq data

Genetic interplay between HLA-C and MIR148A in HIV control and Crohn disease

Structural Variation-Associated Expression Changes Are Paralleled by Chromatin Architecture Modifications

Real-Time mRNA Measurement during an

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Chat with Graph Search

Fluid flow-induced left-right asymmetric decay of Dand5 mRNA in the mouse embryo requires a Bicc1-Ccr4 RNA degradation complex

Genetic interplay between HLA-C and MIR148A in HIV control and Crohn disease

Generation of a Large Peptide Phage Display Library by Self-Ligation of Whole-Plasmid PCR Product

An interplay between the p38 MAPK pathway and AUBPs regulates c-fos mRNA stability during mitogenic stimulation

Molecular mechanism of plasmid elimination by the DdmDE defense system

Regulation of the Corrinoid Metabolism in Desulfitobacteria

Influence of Rotational Nucleosome Positioning on Transcription Start Site Selection in Animal Promoters

Probabilistic partitioning methods to find significant patterns in ChIP-Seq data

Structural Variation-Associated Expression Changes Are Paralleled by Chromatin Architecture Modifications

Real-Time mRNA Measurement during an