<i>In Silico</i>Study of miRNA Based Gene Regulation, Involved in Solid Cancer, by the Assistance of Argonaute Protein

Rath, Surya Narayan; Das, Debasrita; Konkimalla, V. Badireenath; Pradhan, Sukanta Kumar

doi:10.5808/gi.2016.14.3.112

Cited by 17 publications

(20 citation statements)

References 66 publications

(71 reference statements)

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“…The in silico analyses constitute an important element of therapeutic strategy planning which enables to determine potential directions of action at the first stage. These analyses are extremely important to starting research projects because they indicate which mechanisms are potentially involved in the regulation of signalling cascades and they help to express which genes should be upregulated or downregulated [ 19 , 20 ]. mRNA and miRNAs regulating their expression have to be expressed at the same time and in the same cell.…”

Section: Discussionmentioning

confidence: 99%

“…An important stage involves an in silico determination which of the signalling cascade constituents may serve as therapeutic objectives and which mechanisms may be used as the basis to modify expression of the specific genes. The in silico analyses are an extremely important first step to properly plan next work stages with the use of experimental study models [ 19 , 20 ].…”

Section: Introductionmentioning

confidence: 99%

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In silico analysis of CpG islands and miRNAs potentially regulating the JAK-STAT signalling pathway

Grabarek

Wcisło‐Dziadecka

Gola

2020

pdia

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Introduction Searching for new therapeutic possibilities constitutes a challenge for modern medicine and an answer to better understanding of molecular mechanisms of pro-inflammatory diseases. The JAK-STAT pathway plays an important role in the inflammatory processes, which is supported by the fact that its inhibitors are used to treat, for instance, psoriasis and rheumatoid arthritis. Aim To determine whether the epigenetic mechanisms – methylation of gene promotion regions and miRNAs may serve as a new therapeutic strategy for JAK-STAT pathway inhibition. Material and methods Basing on MethPrimer (plus CpG Island Prediction) program and microrna.org database of the said mechanism in the regulation of the JAK-STAT signalling pathway, the gene expression was performed, indicating or excluding the possibility of their use as new potential therapeutic strategies. Results A different number of CpG islands (CGI) for each gene (JAK1-4 CGI; JAK2-2 CGI; JAK3-5 CGI, TYK2-6 CGI; STAT1-2 CGI; STAT2-1 CGI; STAT3-3 CGI; STAT5A-4 CGI; STAT5B-3 CGI) might be a new therapeutic goal. What is more, our results show that genes associated with JAK-STAT signalling pathways can be regulated by miRNAs (JAK1-42 miRNAs; JAK2-47 miRNAs; JAK3-15 miRNAs, TYK2-4 miRNAs; STAT1-17 miRNAs; STAT2-30 miRNAs, STAT3-36 miRNAs, STAT4-15 miRNAs; STAT5A-10 miRNAs; STAT5B-23 miRNAs). Conclusions The epigenetic mechanisms of the regulation of the JAK-STAT signalling pathway gene expression constitute a promising new therapeutic strategy for treatment of those diseases, during which disorders are observed in gene expression models of the analysed signalling pathway.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

In silico analysis of CpG islands and miRNAs potentially regulating the JAK-STAT signalling pathway

Grabarek

Wcisło‐Dziadecka

Gola

2020

pdia

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“…Rath et al [97] reported that the presence of aliphatic amino acids such as, isoleucine, leucine, valine, and alanine, which are strong hydrophobic in nature, confer stability during molecular interaction in protein-ligand binding. Further, amino acid residues which are relatively hydrophobic with aromatic side chains such as tryptophan, tyrosine, and phenylalanine provide steadiness towards the binding stability within the binding pocket of a protein.…”

Section: Discussionmentioning

confidence: 99%

MicroRNA Assisted Gene Regulation in Colorectal Cancer

Fadaka

Pretorius

Klein

2019

IJMS

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Colorectal cancer (CRC) is the second-leading cause of cancer death and a major public health problem. Nearly 80% CRC cases are diagnosed after the disease have metastasized and are often too advanced for treatment. Small non-coding RNA guides argonaute protein to their specific target for regulation as the sole of RNA induced silencing complex for gene silencing. These non-coding RNA for example microRNA, are thought to play a key role in affecting the efficiency of gene regulation in cancer, especially CRC. Understanding the mechanism at the molecular level could lead to improved diagnosis, treatment, and management decisions for CRC. The study aimed to predict the molecular mechanism of gene regulation based microRNA-mRNA duplex as a lead in the silencing mechanism. Five candidate microRNAs were identified through the in silico approach. The MicroRNA target prediction and subsequent correlation, and prioritization were performed using miRTarBase, gbCRC and CoReCG, and DAVID databases respectively. Protein selection and preparation were carried out using PDB and Schrödinger suits. The molecular docking analysis was performed using PATCHDOCK webserver and visualized by discovery studio visualizer. The results of the study reveal that the candidate microRNAs have strong binding affinity towards their targets suggesting a crucial factor in the silencing mechanism. Furthermore, the molecular docking of the receptor to both the microRNA and microRNA-mRNA duplex were analyzed computationally to understand their interaction at the molecular level. Conclusively, the study provides an explanation for understanding the microRNAs-based gene regulation (silencing mechanism) in CRC.

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“…For in silico molecular docking investigation, we used Autodock Vina [6] and Discovery Studio 3.5 version [7] for 3D structure analysis and Discovery Studio 3.5 version for 2D structure analysis. The estrogen receptor utilized a 3D structure (PDB ID = 1R5K) registered at www.rcsb.org.…”

Section: In Silico Molecular Docking Studymentioning

confidence: 99%

Novel Compounds for Increasing Women's Breast Size

Song¹,

Kim²,

Kim³

2020

International Journal of Engineering Research and Technology

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This study aimed to elucidate compounds from natural plant extracts with the potential to expand women's breast size and boost growth. These compounds should also possess the ability to activate female hormone receptor without any adverse effects on the human body. Since it is traditionally known to be effective in female hormone control and health care, Leonurus japonicus was chosen as a source of compounds with potential female breast enlargement and skin's elasticity-enhancing activity. It was also expected that Leonurine, the main ingredient of the Leonurus japonicus, possessed such bioactivity. The L. japonicus extract was obtained using a polar solvent after hydrothermal extraction, and nano-micelling composition (NXCL-4950) was utilized to ensure penetration of the osmotic extract into the skin and increase blood circulation. Based on the composition of the extract, this study suggests the possibility of developing a new remedy, to be used in the beauty industry, that can improve skin health and elasticity and blood circulation for women, to particularly enhance the shape and texture of breasts.

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In SilicoStudy of miRNA Based Gene Regulation, Involved in Solid Cancer, by the Assistance of Argonaute Protein

Cited by 17 publications

References 66 publications

In silico analysis of CpG islands and miRNAs potentially regulating the JAK-STAT signalling pathway

In silico analysis of CpG islands and miRNAs potentially regulating the JAK-STAT signalling pathway

MicroRNA Assisted Gene Regulation in Colorectal Cancer

Novel Compounds for Increasing Women's Breast Size

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