AIMC Topic: Ribosomes

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The hunt for sORFs: A multidisciplinary strategy.

Experimental cell research
Growing evidence illustrates the shortcomings on the current understanding of the full complexity of the proteome. Previously overlooked small open reading frames (sORFs) and their encoded microproteins have filled important gaps, exerting their func...

NeuRiPP: Neural network identification of RiPP precursor peptides.

Scientific reports
Significant progress has been made in the past few years on the computational identification of biosynthetic gene clusters (BGCs) that encode ribosomally synthesized and post-translationally modified peptides (RiPPs). This is done by identifying both...

Nervous-Like Circuits in the Ribosome Facts, Hypotheses and Perspectives.

International journal of molecular sciences
In the past few decades, studies on translation have converged towards the metaphor of a "ribosome nanomachine"; they also revealed intriguing ribosome properties challenging this view. Many studies have shown that to perform an accurate protein synt...

Machine Learning of Designed Translational Control Allows Predictive Pathway Optimization in Escherichia coli.

ACS synthetic biology
The field of synthetic biology aims to make the design of biological systems predictable, shrinking the huge design space to practical numbers for testing. When designing microbial cell factories, most optimization efforts have focused on enzyme and ...

LncRNA-ID: Long non-coding RNA IDentification using balanced random forests.

Bioinformatics (Oxford, England)
MOTIVATION: Long non-coding RNAs (lncRNAs), which are non-coding RNAs of length above 200 nucleotides, play important biological functions such as gene expression regulation. To fully reveal the functions of lncRNAs, a fundamental step is to annotate...

Exploring the potential of large language model-based chatbots in challenges of ribosome profiling data analysis: a review.

Briefings in bioinformatics
Ribosome profiling (Ribo-seq) provides transcriptome-wide insights into protein synthesis dynamics, yet its analysis poses challenges, particularly for nonbioinformatics researchers. Large language model-based chatbots offer promising solutions by le...

DM3Loc: multi-label mRNA subcellular localization prediction and analysis based on multi-head self-attention mechanism.

Nucleic acids research
Subcellular localization of messenger RNAs (mRNAs), as a prevalent mechanism, gives precise and efficient control for the translation process. There is mounting evidence for the important roles of this process in a variety of cellular events. Computa...

Schwann Cell and Axon: An Interlaced Unit-From Action Potential to Phenotype Expression.

Advances in experimental medicine and biology
Here we propose a model of a peripheral axon with a great deal of autonomy from its cell body-the autonomous axon-but with a substantial dependence on its ensheathing Schwann cell (SC), the axon-SC unit. We review evidence in several fields and show ...