Dec 19, 2019

Computational screening of potential regulators for mRNA-protein expression level discrepancy

Biochemical and Biophysical Research Communications
Xiaobin WuYuan Zhou


Complicated post-transcriptional and translational regulation processes contribute to the expression discrepancy between mRNA and protein in many tissues, but the underlying mechanisms have not been fully understood. In this study, we assessed to what extent and which RNA binding proteins (RBPs) contribute to mRNA-protein expression discrepancy. To this end, we exploited the RNA-seq transcriptome data and corresponding quantitative proteome data from the same set of human healthy tissues to estimate the mRNA-protein expression discrepancy, and observed that a considerable fraction of genes show obvious difference in expression rankings between transcriptome and proteome. We further assembled the latest CLIP-seq datasets from POSTAR2, ENCODE and GEO to map the binding profiles of known RBPs. A logistic regression model based on the RBP-binding features was established, which could predict the mRNA-protein expression discrepancy with acceptable performance. Finally, by applying two different feature selection methods on this logistic regression model, we identified a consensus set of known and putative translation regulators which may account for the expression level discrepancy, such as G3BP1, DGCR8, LARP4B, EIF4A3 and FXR2.

  • References
  • Citations


  • We're still populating references for this paper, please check back later.
  • References
  • Citations


  • This paper may not have been cited yet.

Mentioned in this Paper

RNA, Messenger
Protein Expression
EIF4A3 gene
G3BP protein, human
LARP4B gene

Trending Feeds


Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Synthetic Genetic Array Analysis

Synthetic genetic arrays allow the systematic examination of genetic interactions. Here is the latest research focusing on synthetic genetic arrays and their analyses.

Autism: Motor Learning

A common feature of autism spectrum disorder (ASD) is the impairment of motor control and learning, consistent with perturbation in cerebellar function. Find the latest research on ASD and motor learning here.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

Sexual Dimorphism in Neurodegeneration

There exist sex differences in neurodevelopmental and neurodegenerative disorders. For instance, multiple sclerosis is more common in women, whereas Parkinson’s disease is more common in men. Here is the latest research on sexual dimorphism in neurodegeneration

Protein Localization in Disease & Therapy

Localization of proteins is critical for ensuring the correct location for physiological functioning. If an error occurs, diseases such as cardiovascular, neurodegenerative disorders and cancers can present. Therapies are being explored to target this mislocalization. Here is the latest research on protein localization in disease and therapy.

Genetic Screens in Bacteria

Genetic screens can provide important information on gene function as well as the molecular events that underlie a biological process or pathway. Here is the latest research on genetic screens in bacteria.

Head And Neck Squamous Cell Carcinoma

Squamous cell carcinomas account for >90% of all tumors in the head and neck region. Head and neck squamous cell carcinoma incidence has increased dramatically recently with little improvement in patient outcomes. Here is the latest research on this aggressive malignancy.

Artificial Intelligence in Cardiac Imaging

Artificial intelligence (ai) techniques are increasingly applied to cardiovascular (cv) medicine in cardiac imaging analysis. Here is the latest research.