Results 41 to 50 of about 43,196 (233)
Decoding Viral Infection by Ribosome Profiling [PDF]
Journal of Virology, 2015 ABSTRACT Ribosome profiling is an emerging technique that uses deep sequencing to monitor translation in live cells. Studies using ribosome profiling have already provided novel insights into the identities and amounts of the proteins being produced in cells, as well as novel insights into the mechanism of protein synthesis and translation ...
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Predicting the Flexibility Profile of Ribosomal RNAs [PDF]
Molecular Informatics, 2010 AbstractFlexibility in biomolecules is an important determinant of biological functionality, which can be measured quantitatively by atomic Debye–Waller factor or B‐factor. Although numerous works have been addressed on theoretical and computational studies of the B‐factor profiles of proteins, the methods used for predicting B‐factor values of nucleic
Feifei, Tian +5 more
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Molecular Oncology, EarlyView.A mouse model for vascular normalization and a human breast cancer cohort were studied to understand the relationship between vascular leakage and tumor immune suppression. For this, endothelial and immune cell RNAseq, staining for vascular function, and immune cell profiling were employed.
Liqun He +8 more
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Ribosome recycling is not critical for translational coupling in Escherichia coli
eLife, 2020 We used ribosome profiling to characterize the biological role of ribosome recycling factor (RRF) in Escherichia coli. As expected, RRF depletion leads to enrichment of post-termination 70S complexes in 3′-UTRs.
Kazuki Saito +2 more
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Quantitative profiling of initiating ribosomes in vivo [PDF]
Nature Methods, 2014 Cells have evolved exquisite mechanisms to fine-tune the rate of protein synthesis in response to stress. Systemic mapping of start-codon positions and precise measurement of the corresponding initiation rate would transform our understanding of translational control.
Xiangwei Gao +5 more
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Molecular Oncology, EarlyView.Tumors contain diverse cellular states whose behavior is shaped by context‐dependent gene coordination. By comparing gene–gene relationships across biological contexts, we identify adaptive transcriptional modules that reorganize into distinct vulnerability axes.
Brian Nelson +9 more
wiley +1 more source
RiboA: a web application to identify ribosome A-site locations in ribosome profiling data
BMC Bioinformatics, 2021 Background Translation is a fundamental process in gene expression. Ribosome profiling is a method that enables the study of transcriptome-wide translation.
Danying Shao +3 more
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FEBS Open Bio, EarlyView.KHS‐Cnd peptide is able to impair biofilm formation and disaggregate mature biofilms in Acinetobacter baumannii clinical isolates. Differences in extracellular metabolites reflect changes in biofilm metabolism due to KHS‐Cnd treatment. Among the differentially represented extracellular metabolites upon KHS‐Cnd treatment, the significantly altered ...
Fernando Porcelli +9 more
wiley +1 more source
Codon Resolution Analysis of Ribosome Profiling Data
, 2021 Translation is a central biological process in living cells. Ribosome profiling approach enables assessing translation on a global, cell-wide level. Extracting versatile information from the ribosome profiling data usually requires specialized expertise for handling the sequencing data that is not available to the broad community of experimentalists ...
Bartholomäus, A., Ignatova, Z.
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FEBS Open Bio, EarlyView.Mouse pre‐implantation development involves a transition from totipotency to pluripotency. Integrating transcriptomics, epigenetic profiling, low‐input proteomics and functional assays, we show that eight‐cell embryos retain residual totipotency features, whereas cytoskeletal remodeling regulated by the ubiquitin‐proteasome system drives progression ...
Wanqiong Li +8 more
wiley +1 more source