Publication

PACCMIT/PACCMIT-CDS: identifying microRNA targets in 3′ UTRs and coding sequences

Related publications (40)

Diverse cell-specific patterns of alternative polyadenylation in Drosophila

Most genes in higher eukaryotes express isoforms with distinct 3' untranslated regions (3' UTRs), generated by alternative polyadenylation (APA). Since 3' UTRs are predominant locations of post-transcriptional regulation, APA can render such programs condi ...

NATURE PORTFOLIO2022

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

Circadian dynamics of RNA localisation in the mammalian liver

Clémence Yumie Syloun Hurni

Gene expression in eukaryotes is a complex multi-step process. It starts in the nucleus with transcription, the synthesis of a mRNA copy from a DNA template. While in the nucleus, the RNA transcript is subject to multiple co- and post-transcriptional modif ...

EPFL2021

Enteric infection induces Lark-mediated intron retention at the 5 ' end of Drosophila genes

Bart Deplancke, Maroun Bou Sleiman, Michael Vincent Frochaux, Dani Osman, Tommaso Andreani

Background RNA splicing is a key post-transcriptional mechanism that generates protein diversity and contributes to the fine-tuning of gene expression, which may facilitate adaptation to environmental challenges. Here, we employ a systems approach to study ...

2020

The yeast C/D box snoRNA U14 adopts a "weak" K-turn like conformation recognized by the Snu13 core protein in solution

Benjamin Marcel Daniel Rothé

Non-coding RNAs associate with proteins to form ribonucleoproteins (RNPs), such as ribosome, box C/D snoRNPs, H/ACA snoRNPs, ribonuclease P, telomerase and spliceosome to ensure cell viability. The assembly of these RNA-protein complexes relies on the abil ...

ELSEVIER FRANCE-EDITIONS SCIENTIFIQUES MEDICALES ELSEVIER2019

Why the World Reads Wikipedia: Beyond English Speakers

Robert West

As one of the Web's primary multilingual knowledge sources, Wikipedia is read by millions of people across the globe every day. Despite this global readership, little is known about why users read Wikipedia's various language editions. To bridge this gap, ...

ASSOC COMPUTING MACHINERY2019

Implementing recommendations from web accessibility guidelines : would they also provide benefits to nondisabled users

Andreas Sonderegger

Objective: We examined the consequences of implementing Web accessibility guidelines for nondisabled users. Background: Although there are Web accessibility guidelines for people with disabilities available, they are rarely used in practice, partly due to ...

2016

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

Predicting the genes regulated by microRNAs via binding sites in the 3' untranslated and coding regions

Jiri Vanicek

MicroRNAs form one of the groups of small noncoding RNA molecules that have completely changed our understanding of gene regulatory networks. Because microRNAs have been discovered only relatively recently, most of their functions remain unknown, providing ...

Swiss Chemical Soc2014

B-hist: Entity-centric search over personal web browsing history

Karl Aberer, Philippe Cudré-Mauroux, Michele Catasta, Jean-Eudes Marie Ranvier

Web Search is increasingly entity centric; as a large fraction of common queries target specific entities, search results get progressively augmented with semi-structured and multimedia information about those entities. However, search over personal web br ...

Elsevier2014

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