Computational identification of RNA functional determinants by three-dimensional quantitative structure–activity relationships

Blanchet, Marc-Frédérick; St-Onge, Karine; Lisi, Véronique; Robitaille, Julie; Hamel, Sylvie; Major, François

doi:10.1093/nar/gku816

Cited by 4 publications

(3 citation statements)

References 51 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This technology has changed the scenario of rational design in the anticancer drug discovery process. Various web‐based programs for QSAR [JRC QSAR Model Database, DemQSAR, OCHEM (Online Chemical Modeling Environment), and MC‐3DQSAR] are available for the generation of potential leads . For hit identification to lead optimization, structure and ligand‐based virtual screening, other web‐accessible servers and software (commercial/free versions; Supporting Information S2, Tables 1–3) are available.…”

Section: In Silico Approaches For Exploiting Anticancer Leads From Sasmentioning

confidence: 99%

“…Various web-based programs for QSAR [JRC QSAR Model Database, DemQSAR, OCHEM (Online Chemical Modeling Environment), and MC-3DQSAR] are available for the generation of potential leads. [153][154][155][156] For hit identification to lead optimization, structure and ligand-based virtual screening, other webaccessible servers and software (commercial/free versions; Supporting Information S2, Tables 1-3) are available. These computational methodologies provide a powerful toolbox for target identification, hit and lead generation and lead optimization.…”

Section: Toxicity Of Sasmentioning

confidence: 99%

See 1 more Smart Citation

Therapeutic value of steroidal alkaloids in cancer: Current trends and future perspectives

Dey

Kundu

Chakraborty

et al. 2019

Intl Journal of Cancer

View full text Add to dashboard Cite

Discovery and development of new potentially selective anticancer agents are necessary to prevent a global cancer health crisis. Currently, alternative medicinal agents derived from plants have been extensively investigated to develop anticancer drugs with fewer adverse effects. Among them, steroidal alkaloids are conventional secondary metabolites that comprise an important class of natural products found in plants, marine organisms and invertebrates, and constitute a judicious choice as potential anti‐cancer leads. Traditional medicine and modern science have shown that representatives from this compound group possess potential antimicrobial, analgesic, anticancer and anti‐inflammatory effects. Therefore, systematic and recapitulated information about the bioactivity of these compounds, with special emphasis on the molecular or cellular mechanisms, is of high interest. In this review, we methodically discuss the in vitro and in vivo potential of the anticancer activity of natural steroidal alkaloids and their synthetic and semi‐synthetic derivatives. This review focuses on cumulative and comprehensive molecular mechanisms, which will help researchers understand the molecular pathways involving steroid alkaloids to generate a selective and safe new lead compound with improved therapeutic applications for cancer prevention and therapy. In vitro and in vivo studies provide evidence about the promising therapeutic potential of steroidal alkaloids in various cancer cell lines, but advanced pharmacokinetic and clinical experiments are required to develop more selective and safe drugs for cancer treatment.

show abstract

Section: In Silico Approaches For Exploiting Anticancer Leads From Sasmentioning

confidence: 99%

Section: Toxicity Of Sasmentioning

confidence: 99%

Therapeutic value of steroidal alkaloids in cancer: Current trends and future perspectives

Dey

Kundu

Chakraborty

et al. 2019

Intl Journal of Cancer

View full text Add to dashboard Cite

show abstract

“…A number of computational methods have been developed to identify potential cis‐acting motifs from RNA datasets, such as MEME, HOMER and SeAMotE . Moreover, numerous prediction software have emerged that computationally evaluate RNA secondary structure features . These analyses hold the potential to be further compared to experimental approaches to uncover zipcode elements otherwise glossed over by sequence‐focused methods alone.…”

Section: Mechanisms Of Rna Localizationmentioning

confidence: 99%

Biological functions, regulatory mechanisms, and disease relevance of RNA localization pathways

et al. 2018

View full text Add to dashboard Cite

The asymmetric subcellular distribution of RNA molecules from their sites of transcription to specific compartments of the cell is an important aspect of post-transcriptional gene regulation. This involves the interplay of intrinsic cis-regulatory elements within the RNA molecules with trans-acting RNAbinding proteins and associated factors. Together, these interactions dictate the intracellular localization route of RNAs, whose downstream impacts have wide-ranging implications in cellular physiology. In this review, we examine the mechanisms underlying RNA localization and discuss their biological significance. We also review the growing body of evidence pointing to aberrant RNA localization pathways in the development and progression of diseases.Keywords: Cis-regulatory elements; RNA disease; RNA localization; RNA-binding proteinsThe asymmetric organization of cells is a pervasive feature that ensures the homeostasis of prokaryotic and eukaryotic organisms. This relies on the capacity of cells to organize their contents, including lipids, nucleic acids, and proteins, into specific subcellular structures and organelles. While much of this organization has been attributed to subcellular protein transport [1], a growing body of work indicates that the regulated localization of RNA molecules is also a key process observed across evolutionary timescales [2][3][4][5][6]. This form of post-transcriptional regulation where coding and noncoding RNA molecules actively associate with trans-acting partners, such as RNA-binding proteins (RBPs), serves to dictate both the function and intra-or extracellular destiny of the RNA. During RNA localization, cis-regulatory elements found within the RNA molecule, whether coding or noncoding, act as recognition sites for the recruitment of trans-acting RBPs, which dictate the intra-/extra-cellular fate of the RNA and, ultimately, its functional state. Over the years, the wide-ranging implications of RNA localization on cellular physiology have become apparent, affecting many aspects of cell organization and function. Indeed, RNA localization pathways have been linked to numerous important processes, including developmental patterning, cell polarity, spindle assembly, formation of nonmembranous compartments, localized translation, and cell motility [2][3][4][5][6].

show abstract

Advanced Approaches to Diagnose and Treat the Chronic Autoimmune Disorders

Sołtysiński¹

2016

Handbook of Research on Trends in the Diagnosis and Treatment of Chronic Conditions

View full text Add to dashboard Cite

Pathology and dynamics of particular cells and the molecular components of immune system is still challenging to be traced within living organisms. The techniques of molecular imaging (MI) are promising tools to monitor the immune system at work, to improve or allow personalized diagnostics and treatment, especially of the autoimmune diseases. In this study some possible targets for MI and biosensing are discussed. The personalized medicine, in addition to bioinformatics-based systemic approach, requires extensive research and novel high-throughput technologies like next generation of imaging, biosensing experimental systems based on microfluidics, nanotechnology, femtochemistry, superresolution (STED, STORM, PALM, SOFI, etc.), label-free imaging, spectroscopy (including TCSPC), MRI, multimodal optical methods, accoustic imaging through ultrasonic waves, nuclear medicine methods like SPECT and PET. Moreover, dedicated designs of modular Lab-on-Chip solutions are of high demand to perform multipurpose cell measurement and give a possibility to flexibly interact with sensed objects.

show abstract

Computational identification of RNA functional determinants by three-dimensional quantitative structure–activity relationships

Cited by 4 publications

References 51 publications

Therapeutic value of steroidal alkaloids in cancer: Current trends and future perspectives

Therapeutic value of steroidal alkaloids in cancer: Current trends and future perspectives

Biological functions, regulatory mechanisms, and disease relevance of RNA localization pathways

Advanced Approaches to Diagnose and Treat the Chronic Autoimmune Disorders

Contact Info

Product

Resources

About