Showing 6 results for Rezaei-Tavirani
Melika Abrishami, Mostafa Rezaei-Tavirani,
Volume 0, Issue 0 (Accepted Articles 2018)
Abstract
Introduction: Multiple sclerosis (MS) is a chronic autoimmune disease affecting the central nervous system. The diagnosis and monitoring of MS progression is challenging because of its complex pathogenesis and the lack of specific biomarkers. Introducing related microRANs and associated proteins with MS is aim of this study.
Methods: MS-related miRNA data of 4 peripheral blood profiles from relapsing-remitting MS (RRMS) patients and 8 healthy controls were extracted from the GEO database. Their related proteins were analyzed using bioinformatics methods, such as protein-protein interaction (PPI) network and action map.
Results: Numbers of 18 differentially microRNA were detected which discriminate the patient samples from controls. The 31 related proteins were identified and assessed via PPI network analysis and action map evaluation.
Conclusion: In conclusion, a protein panel of NCL, NOP58, SNRNP70, U2AF2, YBX1, PRPF8, BOP1, and PIK3K as the crucial individuals which are associated with MS was suggested for further investigation.
Dr Vahid Mansouri, Dr Babak Arjmand, Ms Nastaran Asri, Dr Zahra Razzaghi, Dr Mostafa Rezaei-Tavirani, Dr Farideh Razi, Dr Fatemeh Bandarian, Dr Reza M Robati, Dr Mitra Rezaei,
Volume 0, Issue 0 (Accepted Articles 2018)
Abstract
Background: Sleep is an essential process for restoring brain function and is recognized as a fundamental aspect of physical and mental health. The aim of this study is to assess the molecular mechanisms of insomnia disorder and to identify the key dysregulated genes associated with it.
Methods: To study molecular mechanisms of insomnia, GSE208668 was selected from the Gene Expression Omnibus (GEO) database. Total RNA from peripheral blood mononuclear cells (PBMCs) of 17 individuals with insomnia disorder was analyzed and compared to 25 controls using the GEO2R program. The gene expression profiles were assessed using box plot, Uniform Manifold Approximation and Projection (UMAP) plot, expression density diagram, and Venn diagram. The significant differentially expressed genes (DEGs) were evaluated through a directed protein-protein interaction (PPI) network using the CluePedia plugin of Cytoscape software, considering co-expression interactions. The central nodes were identified as the most influential and regulated genes.
Results: Pre-evaluation analysis revealed that insomnia exhibits heterogeneity and can be divided into two groups. The gene expression profiles of the first group were similar to those of the insomnia group, while the second group of controls was distinguished from the insomnia group by genes such as TP53, CCND1, IL1B, SOX1, and NOTCH1, which were identified as key actor genes. Additionally, IL10, IL6, TP53, PTGS2, ESR1, PTEN, JUN, CREB1, CDKN1ACDKN2A, CXCR4, and GATA3 were identified as important regulatory genes.
Conclusion: It can be concluded that many individuals may be potentially involved in insomnia disorder as pre-insomnia. The findings demonstrate that pre-insomnia and insomnia share very similar molecular mechanisms. The critical genes TP53, CCND1, IL1B, SOX1, and NOTCH1, along with pathways related to apoptosis, inflammation, immunological response, and changes in sleep quality, are emphasized as particularly relevant to insomnia disorder.
Mona Zamanian-Azodi, Mostafa Rezaei-Tavirani, Naser Nejadi, Afsaneh Arefi Oskouie, Faird Zayeri, Mostafa Hamdieh, Akram Safaei, Majid Rezaei-Tavirani, Alireza Ahmadzadeh, Alireza Amouzandeh-Nobaveh, Farshad Okhovatian,
Volume 8, Issue 4 (July & August 2017 -- 2017)
Abstract
Introduction: Obsessive-Compulsive Disorder (OCD) is a disabling mental condition that its proteomic profiling is not yet investigated. Proteomics is a valuable tool to discover biomarker approaches. It can be helpful to detect protein expression changes in complex disorders such as OCD.
Methods: Here, by the application of 2D gel electrophoresis (2DE), a pilot study of serum proteome profile of females with washing subtype of OCD was performed. Serum samples were obtained from females with washing subtype of OCD. Following the protein extraction from the serum with acetone perception, the samples were subjected to 2DE for separation based on pI and molecular weight (MW) with triple replications. Finally, the protein spots were visualized using Coomassie blue staining method and analyzed by Progenesis SameSpots software. Furthermore, protein-protein interaction (PPI) network analysis was handled by the application of Cytoscape software.
Results: The results suggested that 41 matched spots demonstrated significant expression alterations among which 5 proteins including immunoglobulin heavy constant alpha-1 (IGHA1), apolipoprotein A-4 (APOA4), haptoglobin (HP), protein α-1-antitrypsin (SERPINA1), and component 3 (C3) were identified by database query. Additionally, PPI network analysis indicated the central role of SERPINA1 and C3 in the network integrity. However, albumin (ALB), amyloid precursor protein (APP), and protein α-1-antitrypsin (APOA1) proteins were important in OCD PPI network as well. The identified proteins were related to 3 processes: acute-phase response, hydrogen peroxide catabolic process, and regulation of triglyceride metabolic process.
Conclusion: It was concluded that these proteins may have a fundamental role in OCD pathogenesis. Moreover, the dysregulation of inflammatory and antioxidant systems in OCD risk was suggested by the current study. However, evaluation of bigger sample sizes and application of mass spectrometry are essential requirements to confirm this preliminary evaluation.
Mona Zamanian-Azodi, Mostafa Rezaei-Tavirani, Mohammad Mahboubi, Mohsen Hamidpour, Majid Rezaei Tavirani, Mostafa Hamdieh, Mohammad Rostami-Nejad, Naser Nejadi, Mohammad Kamran Derakhshan,
Volume 9, Issue 5 (September & October 2018 2018)
Abstract
Introduction: Many genetic studies are conducted on Obsessive-Compulsive Disorder (OCD). however, a high-throughput examination of proteome profile of this severe disease has not been performed yet.
Methods: Here, the proteomic study of OCD patients’ serum samples was conducted by the application of Two-Dimensional Electrophoresis (2DE) followed by Mass Spectrometry (MALDI-TOF-TOF).
Results: A total of 240 protein spots were detected and among them, five significant differentially expressed protein spots with the fold change of ≥1.5 were considered for further evaluations. These proteins include IGKC, GC, HPX, and two isoforms of HP. While IGKC and HP show down-regulation, GC and HPX indicate up-regulation. Moreover, a validation study of overall HP levels in patients’ serum via nephelometric quantification confirmed the lower levels of this protein in the serum of OCD patients. Additionally, enrichment analysis and validation test revealed that inflammation is one of most dominant processes in OCD.
Conclusion: It is suggested that these candidate proteins and their underlying processes (especially, inflammation) may be linked to OCD pathophysiology and can promise a clinical use after extensive validation studies.
Mona Zamanian-Azodi, Mostafa Rezaei-Tavirani, Reza Mahmoud Robati,
Volume 10, Issue 4 (July & August 2019)
Abstract
Introduction: Migraine is a severe kind of headache with the chance hereditary of 50%. Molecular studies can promote understanding of migraine pathophysiology. One of which is bioinformatics approach that could provide additional information related to the identified biomarkers.
Methods: In this research, migraine genes are studies in terms of interaction pattern to introduce important individuals. Through STRING database Plug-in in Cytoscape, candidate genes for migraine were retrieved and analyzed by related applications. Based on centrality and action types (expression, activation, and inhibition) genes were screened.
Results: Numbers of 33 central genes including seven hub-bottlenecks were identified which 70% of central genes were involved in expression action with each other. Activation was dominate action relative to inhibition between the central genes.
Conclusion: The finding indicates that insulin is the most important gene relative to migraine. It seems regulation of metabolism play critical role in control of migraine.
Mona Zamanian-Azodi, Mostafa Rezaei-Tavirani, Majid Rezaei Tavirani,
Volume 12, Issue 2 (March & April 2021)
Abstract
Introduction: Obsessive-Compulsive Disorder (OCD) is one of the complex neuropsychiatric conditions. This disorder disables individuals in many different aspects of their personal and social life. Interactome analysis may provide a better understanding of this disorder’s molecular origin and its underlying mechanisms.
Methods: In this study, the OCD-associated genes were extracted from the literature. The criterion for gene selection was to choose genes with at least one significant report. Furthermore, by applying Cytoscape and its plugins, protein-protein interaction network, and gene ontology of the 31 candidate genes related to OCD from genetic association studies is examined. The cross-validation method was used for network centrality assessment.
Results: A scale-free network, including 1940 nodes and 3269 edges for 31 genes, was constructed. According to the network centrality evaluation, ESR1, TNFα, DRD2, DRD4, HTR1B, HTR2A, and CDH2 showed the highest values and can be considered hub-bottlenecks elements. It is also confirmed by the number of 123 cross-validation tests that the frequency of these essential genes remains unaltered against the initial seed genes’ changes with the accuracy of 0.962. Besides, enrichment analysis identified four highlighted biological processes related to the 31 candidate genes. The top biological processes are determined as dopamine transport, learning, memory, and monoamine transport.
Conclusion: Among 31 initial genes, 7 were introduced as crucial elements for onset and development in OCD and can be suggested for further investigations. Furthermore, the complex molecular origin of OCD requires high-throughput screening for diagnosis and treatment goals. The findings are a possible valuable source to establish molecular-based diagnostic tools for OCD.
