Results 251 to 260 of about 47,955 (276)

Ribosome Profiling in Maize

2017
Ribosome profiling (also known as Ribo-seq) provides a genome-wide, high-resolution, and quantitative accounting of mRNA segments that are occupied by ribosomes in vivo. The method has been used to address numerous questions in bacteria, yeast, and metazoa, but its application to questions in plant biology is just beginning.
Prakitchai, Chotewutmontri, Nicholas, Stiffler, Kenneth P, Watkins, Alice, Barkan   +3 more
openaire   +2 more sources

Ribosome Profiling in Trypanosomatids

2019
Ribosomes are the machinery responsible for reading mRNAs and translating them into proteins. The ribosome profiling approach is based on high-throughput sequencing of ribosome-protected mRNAs. RNAs not harboring ribosomes are removed by nuclease digestion leaving the so-called ribosome "footprints." The purified "footprint" RNA molecules are processed
Amelie J, Kraus, Raúl O, Cosentino
openaire   +2 more sources

Tissue-Specific Ribosome Profiling in Drosophila

2021
Robust mechanisms exist that serve to dynamically regulate the translation of mRNA into proteins across heterogeneous tissues. These processes ensure timely generation of proteins in quantities that scale with the demands of specific cell types.
Xun, Chen, Dion, Dickman
openaire   +2 more sources

Increased ribosome density associated to positively charged residues is evident in ribosome profiling experiments performed in the absence of translation inhibitors

RNA Biology, 2016
It has been proposed that polybasic peptides cause slower movement of ribosomes through an electrostatic interaction with the highly negative ribosome exit tunnel.
Rodrigo D Requião, Silvana Rossetto, Tatiana Domitrovic   +2 more
exaly   +2 more sources

Exploring Ribosome Positioning on Translating Transcripts with Ribosome Profiling

2016
Recent technological advances (e.g., microarrays and massively parallel sequencing) have facilitated genome-wide measurement of many aspects of gene regulation. Ribosome profiling is a high-throughput sequencing method used to measure gene expression at the level of translation.
Pieter, Spealman, Hao, Wang, Gemma, May, Carl, Kingsford, C Joel, McManus   +4 more
openaire   +2 more sources

Choice of Ribonucleases for Ribosome Profiling Experiments

2021
In the past 10 years, standard transcriptome sequencing protocols were optimized so well that no prior experience is required to prepare the sequencing library. Often, all enzymatic steps are designed to work in the same reaction tube minimizing handling time and reducing human errors. Ribosome profiling stands out from these methods.
openaire   +2 more sources

Ribosomal Profiling by Gradient Fractionation of Cell Lysates

2023
Ribosomal profiling is a widely used technique for deep sequencing of ribosome-protected mRNA and for measuring ribosome status in cells. It is a powerful method that is typically employed for monitoring and measuring protein translation status and ribosome activity.
Nimisha, Bhattarai, Bo, Cao, Shelya X, Zeng, Hua, Lu   +3 more
openaire   +2 more sources

Controlling the ribosomal density profile in mRNA translation

2016 IEEE 55th Conference on Decision and Control (CDC), 2016
During mRNA translation, the ribosomal density profile along the coding region of the mRNA molecule affects various fundamental intracellular phenomena. Thus, steering this profile from a given to a desired density is an important biological problem. This paper studies this problem using a dynamical model for mRNA translation, called the ribosome flow ...
Yoram Zarai, Michael Margaliot, Eduardo D. Sontag, Tamir Tuller   +3 more
openaire   +1 more source

Ribosome Profiling as a Tool to Decipher Viral Complexity

Annual Review of Virology, 2015
Viral genomes harbor a variety of unusual translational phenomena that allow them to pack coding information more densely and evade host restriction mechanisms imposed by the cellular translational apparatus. Annotating translated sequences within these genomes thus poses particular challenges, but identifying the full complement of proteins encoded by
Noam, Stern-Ginossar, Nicholas T, Ingolia   +1 more
openaire   +2 more sources

Ribosome Profiling for Novel Antigen Discovery

The identification of targetable antigens is crucial for advancing cancer immunotherapy. While traditional methods focus on tumor-associated antigens and somatic variants, recent advancements have highlighted novel antigen classes such as splice isoforms, gene fusions, ribonucleic acid (RNA) editing, and novel or unannotated open reading frames (nuORFs)
Ana, Xavier-Magalhães, Susan, Klaeger
openaire   +2 more sources