Immunogenicity of the Multi-Epitopic Recombinant Glycoproteins of Newcastle Disease Virus: Implications for the Serodiagnosis Applications

Motamedi, Mohammad Javad; Shahsavandi, Shahla; Amani, Jafar; Kazemi, Rouhollah; Takrim, Somayeh; Jafari, Mahyat; Salmanian, Ali-Hatef

doi:10.21859/ijb.1749

Cited by 8 publications

(8 citation statements)

References 44 publications

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“…There are limitations to research on gene expression that researchers need to consider (35)(36)(37)(38)(39)(40)(41)(42)(43)(44)(45)(46)(47). In these regards immunogenicity of the multi-epitopic recombinant glycoproteins virus: implications may be concerned (48). There are also several biotechnological research on the virus (49)(50)(51)(52)(53)(54)(55)(56)(57)(58)(59)(60)(61), each of which can be helpful in applying the results.…”

Section: Discussionmentioning

confidence: 99%

Importance of miR-125a-5p and miR-122-5p expression in patients with HBV infection

Lak

Yaghobi

Garshasbi

2020

Cell Mol Biol (Noisy-le-grand)

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MicroRNAs (miRNAs) as a small RNA and post-transcriptional modulator are shown to have regulatory effects for different cellular activities and pathways, such as metabolism, virus replication and also cell growth. In addition, miRNAs can regulate the replication of the hepatitis B virus (HBV). Therefore, the expression profile of miRNAs was evaluated in HBV infected patient groups and healthy controls. The expression levels of following microRNAs (as noninvasive biomarkers) were compared in two experimental (those with various stages of HBV infection) and control groups to evaluate their diagnosis ability: miR-122-5p, miR-125a-5p, miR-199a-3p, miR-210-5p, miR-205-5p, miR-155-5p, miR-372-5p, and miR-1-5p. RNA extraction was performed for 45 serum samples. The miRCURY LNA™ Universal RT-miRNA-PCR system and miRNA PCR panels were used for measuring microRNA expression profiles. To normalize quantitative values, the endogenous reference by UniSp6 expression was used.Serum miR-125a-5p and miR-122-5p were significantly higher in patients in different stages of HBV infection (p<0.001) than in controls (p<0.001). Receiver operating characteristic (ROC) curve analyses suggested that serum miR-125a-5p and miR-122-5p have significant diagnostic value for HBV infection. A significant difference was not found in terms of serum levels of other miRs (miR-199a-3p, miR-210-5p, miR-205-5p, miR-155-5p, miR-372-5p and miR-1-5p). Results suggest that miR-125a-5p and miR-122-5p can be used as possible noninvasive biomarkers for monitoring of HBV infection need to confirm in future completed studies.

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Section: Discussionmentioning

confidence: 99%

Importance of miR-125a-5p and miR-122-5p expression in patients with HBV infection

Lak

Yaghobi

Garshasbi

2020

Cell Mol Biol (Noisy-le-grand)

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“…Immune Epitope Database or IEDB was used to predict the epitopes (https://www.iedb.org/), as it contain the vast amount of experimental on antibodies and cell epitopes (18). B-cell epitopes were also predicted using online tools ABCpred (http://webs.iiitd.edu.in/raghava/abcpred/) and Bcepred(https://webs.iiitd.edu.in/raghava/bcepred/) (19). Top quality 9-12 mers epitope were selected for further analysis.…”

Section: B-cell Epitopes Predictionmentioning

confidence: 99%

Omics Based Screening of novel inhibitors against malignant pleural mesothelioma

Saleem,

Waqas,

Ahmad

et al. 2024

Preprint

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Malignant pleural mesothelioma (MPM) is an aggressive cancer affecting the pleural membrane. It is characterized by its rarity and lethality, presenting limited treatment avenues. Vascular endothelial growth factor A (VEGF-A) is a crucial signaling protein that binds to and activates the VEGFR-2 (vascular endothelial growth factor receptor-2). This interaction initiates a signaling cascade promoting endothelial cell proliferation and migration, fostering the formation of new blood vessels and fueling tumor growth. In this study, immunogenic approaches were employed to predict potential antigenic epitopes targeting the VEGFR-2 receptor. These epitopes were utilized to construct a multi-epitope peptide, which was subsequently docked against VEGFR-2 receptors to assess binding capabilities and interactions. Three optimal epitopes from the vaccine construct were selected based on binding interactions. Peptides derived from these epitopes were then predicted and docked with VEGFR-2 receptors to analyze their binding abilities and interactions further. Moreover, three distinct datasets for MPM were selected, each representing a different condition: a normal dataset, a diseased dataset, and a dataset from treated individuals (using K-975 - Kirin). Common genes across these datasets were identified through Next-Generation Sequencing (NGS) analysis conducted on an online Galaxy server. Additionally, upregulated genes in malignant pleural mesothelioma were detected through NGS analysis, with sulf-1 identified as an upregulated gene protein. Molecular docking analysis against a phytochemical library was performed using sulf-1, leading to the selection of novel drugs acting as inhibitors against malignant pleural mesothelioma. Furthermore, the pharmacokinetic properties of selected compounds were analyzed. This study aims to screen potential inhibitors targeting VEGFA, block the VEGFR-2 receptor using immunogenic and non-toxic peptides derived from VEGFA, and identify differentially expressed genes in malignant mesothelioma through RNA sequencing for virtual screening of potential inhibitors.

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“…The number of neurons in the input layer is 9 5 × , 13 5 × and 17 5 × respectively. The number of neurons in the input layer was 9 20 × , 13 classification training, and the parameters of the neural network established will be calculated according to the training results, and the neural network classification model which can be used for training data classification relationship is consistent. In the second stage, the new protein molecular data are tested by the established data network classification model, and the rationality of data network design will be analyzed according to the classification results of these protein defect molecular sequences in the test process.…”

Section: Construction Of Grnn Predictormentioning

confidence: 99%

“…The most important thing is that it is related to life phenomena. Protein is the material basis of life, is an organic macromolecule, is the basic organic substance of the cell, and is the main undertaker of life activities (13)(14). There is no life without protein.…”

Section: Introductionmentioning

confidence: 99%

Protein molecular defect detection method based on a neural network algorithm

Zheng

Kahrizi²

2020

Cell Mol Biol (Noisy-le-grand)

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Proteins, as the largest macromolecules in the body, are among the most important components of the body and play very vital and important roles.These substances are made up of a series of amino acid chains that, depending on the type of protein, the number of these amino acids can reach several thousand.Proteins function differently depending on the type and location of their presence, including enzymatic activity to catalyze the process, identify microbes and cancer cells, transport substances such as respiratory gases, and signalize. In the biochemical experiment, the problem of optimizing the detection of protein molecular defects, because of the randomness of the information, parameters, selection and setting, limits the detection accuracy of protein molecular defects. Based on the characteristics of fast learning speed and a robust network of neural network algorithm, a protein molecular defect detection method based on a neural network algorithm was proposed. Firstly, the protein secondary structure was predicted by the method of protein secondary structure prediction based on the generalized regression neural network to obtain the protein structural features; secondly, the protein defective molecular sequence classification model based on the neural network was used to classify the protein defective molecular sequence to achieve the protein molecular defect detection. The results showed that the detection accuracy of the proposed method was very high, which meets the needs of protein molecular defect detection, and has some application advantages compared with similar detection methods.

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Immunogenicity of the Multi-Epitopic Recombinant Glycoproteins of Newcastle Disease Virus: Implications for the Serodiagnosis Applications

Cited by 8 publications

References 44 publications

Importance of miR-125a-5p and miR-122-5p expression in patients with HBV infection

Importance of miR-125a-5p and miR-122-5p expression in patients with HBV infection

Omics Based Screening of novel inhibitors against malignant pleural mesothelioma

Protein molecular defect detection method based on a neural network algorithm

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