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Related publications (30)

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Lossy compression of quality scores in differential gene expression: A first assessment and impact analysis

Ana Angelica Hernandez Lopez

High-throughput sequencing of RNA molecules has enabled the quantitative analysis of gene expression at the expense of storage space and processing power. To alleviate these prob- lems, lossy compression methods of the quality scores associated to RNA sequ ...

2018

Distribution of the ribosome associated endonuclease Rae1 and the potential role of conserved amino acids in codon recognition

Jérémie Piton

We recently identified a novel ribonuclease in Bacillus subtilis called Rae1 that cleaves mRNAs in a translation-dependent manner. Rae1 is a member of the NYN/PIN family of ribonucleases and is highly conserved in the Firmicutes, the Cyanobacteria and the ...

TAYLOR & FRANCIS INC2018

The fitness landscape of the codon space across environments

Jeffrey David Jensen, Claudia Bank, Sebastian Matuszewski

Fitness landscapes map the relationship between genotypes and fitness. However, most fitness landscape studies ignore the genetic architecture imposed by the codon table and thereby neglect the potential role of synonymous mutations. To quantify the fitnes ...

NATURE PUBLISHING GROUP2018

Properties of LINE-1 proteins and repeat element expression in the context of amyotrophic lateral sclerosis

Didier Trono, Priscilla Turelli, Evaristo Jose Planet Letschert

BackgroundAmyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease involving loss of motor neurons and having no known cure and uncertain etiology. Several studies have drawn connections between altered retrotransposon expression and ALS. C ...

2018

Implication of the box C/D snoRNP assembly factor Rsa1p in U3 snoRNP assembly

Benjamin Marcel Daniel Rothé

The U3 box C/D snoRNA is one key element of 90S pre-ribosome. It contains a 5' domain pairing with pre-rRNA and the U3(B/C) and U3(C'/D) motifs for U3 packaging into a unique small nucleolar ribonucleoprotein particle (snoRNP). The RNA-binding protein Snu1 ...

Oxford University Press (OUP)2017

Ribosome profiling and dynamic regulation of translation in mammals

Felix Naef, Cédric Gobet

Protein synthesis is an energy-demanding cellular process. Consequently, a well-timed, fine-tuned and plastic regulation of translation is needed to adjust and maintain cell states under dynamically changing environments. Genome-wide monitoring of translat ...

Elsevier2017

Rae1/YacP, a new endoribonuclease involved in ribosome-dependent mRNA decay in Bacillus subtilis

Jérémie Piton

The PIN domain plays a central role in cellular RNA biology and is involved in processes as diverse as rRNA maturation, mRNA decay and telomerase function. Here, we solve the crystal structure of the Rae1 (YacP) protein of Bacillus subtilis, a founding mem ...

Wiley2017

The effects of mitochondrial- and histone stress on the C. elegans transcriptome

Johan Auwerx, Maroun Bou Sleiman, Pedro Moral Quiros, Olli Juhani Matilainen

The aim of this study was to explore whether mitochondrial- and histone stress cause any common changes in global gene expression. For this experiment, we performed RNA sequencing from control RNAi, cco-1 RNAi (mitochondrial stress) and his-3 RNAi (histone ...

EPFL Infoscience2017

WDR79/TCAB1 plays a conserved role in the control of locomotion and ameliorates phenotypic defects in SMA models

Brian Donal McCabe

SMN (Survival Motor Neuron) deficiency is the predominant cause of spinal muscular atrophy (SMA), a severe neurodegenerative disorder that can lead to progressive paralysis and death. Although SMN is required in every cell for proper RNA metabolism, the re ...

Academic Press Inc Elsevier Science2017

Placeholder factors in ribosome biogenesis: please, pave my way

The synthesis of cytoplasmic eukaryotic ribosomes is an extraordinarily energy-demanding cellular activity that occurs progressively from the nucleolus to the cytoplasm. In the nucleolus, precursor rRNAs associate with a myriad of trans-acting factors and ...

Shared Science Publishers OG2017