Biology subjects

Gupta, K. K.

Publications and source records attributed to Gupta, K. K..

4 recordsLinked to original sources

bioRxiv2022

USAG1 protein: An important drug target in teeth regeneration

The BMP antagonist and Wnt signaling modulator, USAG-1 (uterine sensitization associated gene-1) is mostly expressed in the kidneys and suppresses BMP7 bioactivity, which is crucial for tooth development. The homodimeric 35-kDa protein known as bone morphogenetic protein-7 is essential for the specification and patterning of the early embryo and controls apoptosis in a variety of developmental events. A single-gene knockout (KO) mouse model for Usag-1, also known as Sclerostin domain containing 1 (SOSTDC1), ectodin, Wnt modulator in surface ectoderm (WISE), CCAAT/enhancer-binding protein beta (CEBPB), Sprouty homolog 2 (SPRY2), Sprouty homolog 3 (SPRY3), or Epiprofin (EPFN), has demonstrated that Usag1 inhibition is important for teeth regeneration in mice. Anti Usag1 method was done by other scientists outside India. Tideglusib when placed at damaged teeth, it increases WNT signaling by inhibiting GSK-3.It results into teeth repair .Suginami et al proposed USAG-1 as a promising drug target for teeth regeneration .They proposed anti-USAG-1 approach to induce teeth regeneration but it has been associated with many sideaffects. This study aims to provide a natural lead molecule as a therapeutic drug for teeth regeneration.

bioinformatics↗

bioRxiv2021

A miRNAs Based Exploration of promising Biomarkers in Cervical Cancer using Bioinformatic Methods

Cervical Cancer (CC) is a gynecologic cancer. In this cancer early detection is incredibly tough because most of the patients are not have any specific symptoms that results in suspending the proper identification. In this work, we selected TCGA CESC datasets and miRNA Seq analysis was done. The expression profiles of miRNAs in cervical cancer datasets were investigated using bioinformatics tools. The expression profiles of miRNA in Normal tissue, primary tumor and metastatic samples were analyzed. Based on p-value, principal component analysis and comparative literature survey, we reported 6 over-expressed (5X) miRNA at metastatic stage namely, hsa-mir-363, hsa-mir-429, hsa-mir-141, hsa-mir-93, hsa-mir-203b and hsa-mir-18a. Expression profiles were compared in heatmap. The target genes for the selected miRNAs were investigated for interaction and pathway details. The identification of two hub proteins (PTEN and MYC) in Protein-Protein Interaction Network was followed by pathway analysis. Our results indicate that hsa-mir-363, hsa-mir-429, hsa-mir-141, hsa-mir-93, hsa-mir-203b and hsa-mir-18a could be a potential diagnostic biomarkers for early-stage CESC and serve as prognostic predictors for patients with CESC.

bioinformatics↗

bioRxiv2021

Eudesmol-A promising inhibitor for glucosyltransferase: Docking and Molecular dynamics study

The loss of natural teeth can be avoided by invoking the molecular signal behind teeth regeneration. The destruction of the connective tissues is mainly due to bacterial origin which reacts to dental caries, a multifactorial disease. Glycosyl transferase is the enzyme which is involved in the glycosidic linkage. Glucosyltransferase inactivation reduces dental caries. This enzyme is a crucial virulence factor of Streptococcus mutans, a major pathogen that causes dental caries. In this present work, screening was done with library of anti-oxidant and anti-inflammatory molecules against the crystal structure of the target protein. Based on the predicted binding affinities, small molecules were selected and evaluated for their activity. Further, attempts were done to evaluate the toxicity of the lead compounds and compounds with no toxicity and good binding affinity were subjected for simulation and compared with reference complex. The potential energy of Glycosyl transferase-Eudesmol (proposed compound) (-1500 kj/mol) indicates its higher stability as compared to Glycosyl tranferase-G43 (reference) complex (-1100kj/mol).The inactives and actives compound for Glycosyl transferase was predicted from DeepScreening server.

bioinformatics↗

bioRxiv2021

Peptide-based epitope design on non-structural proteins of SARS-CoV-2

The SARS-CoV-2 virus has caused the severe pandemic, COVID19 and since then its been critical to produce a potent vaccine to prevent the quick transmission and also to avoid alarming deaths. Among all type of vaccines peptide based epitope design tend to outshine with respect to low cost production and more efficacy. Therefore, we started with obtaining the necessary protein sequences from NCBI database of SARS-CoV-2 virus and filtered with respect to antigenicity, virulency, pathogenicity and non-homologous nature with human proteome using different available online tools and servers. The promising proteins was checked for containing common B and T-cell epitopes. The structure for these proteins were modeled from I-TASSER server followed by its refinement and validation. The predicted common epitopes were mapped on modeled structures of proteins by using Pepitope server. The surface exposed epitopes were docked with the most common allele DRB1*0101 using the GalaxyPepDock server. The epitopes, ELEGIQYGRS from Leader protein (NSP1), YGPFVDRQTA from 3c-like proteinase (nsp5), DLKWARFPKS from NSP9 and YQDVNCTEVP from Surface glycoprotein (spike protein) are the epitopes which has more hydrogen bonds. Hence these four epitopes could be considered as a more promising epitopes and these epitopes can be used for future studies.

bioinformatics↗