همایش ملی بیوانفورماتیک ایران

صفحه اصلی / 4th international edition and 13th Iranian Conference on Bioinformatics

Identifying Key Genes, miRNAs, and lncRNAs in Lennert Lymphoma Through Comprehensive Network Analysis of Diverse Omics Data

نویسندگان :

Fatemeh Shadvar¹

1- دانشگاه الزهرا(س)

کلمات کلیدی :

Lennert lymphoma،protein-protein interaction،miRNA،lncRNA،immune system

چکیده :

Lennert lymphoma (LL) is a rare subtype of peripheral T-cell lymphoma, not otherwise specified (PTCL, NOS). This malignancy originates from T cells, which play a fundamental role in the immune system. Under normal conditions, T cells are responsible for protecting against malignancies; however, in this disease, they become malignant. This transformation creates a tumor-suppressive microenvironment, which can compromise immune function and promote tumor progression. This phenomenon underscores the dual role of T cells in pathogenesis. LL accounts for approximately 6% of non-Hodgkin lymphomas and is associated with an unfavorable prognosis, with a median overall survival of about 16 months (Patsouris et al., 1993). Consequently, understanding these dynamics is crucial for developing therapies aimed at enhancing or restoring the protective functions of the immune system. In this work, data from 10 normal samples and 12 patient samples retrieved from the GEO database (GSE132550) were analyzed to identify key biomarkers associated with Lennert lymphoma (Etebari et al., 2019). The analysis identified 405 genes with adjusted adj.P.Val<0.001 and |logFC |>8. Initially, a protein-protein interaction network for these genes was generated using the STRING database. From this network, 10 genes with the highest degree centrality FN1, VWF, MMP9, APOE, DCN, COL1A2, BGN, COL3A1, CXCL12, and LUM were identified as key hub genes. Next, miRNAs associated with these proteins were extracted from the mirDB database, and their corresponding lncRNAs were identified using the LncTarD database and a lncRNA-mRNA-miRNA network was constructed. This process resulted in the construction of a lncRNA-mRNA-miRNA triad network comprising 557 unique vertices and 1,244 edges. In the analysis of this network, miRNAs and lncRNAs with the strongest relationships to the hub proteins were identified as key biomarkers. These included microRNAs such as hsa-miR-607(associated with DCN, FN1, and COL1A2) and hsa-miR-298 (associated with DCN, FN1, and COL1A2); hsa-miR-153-5p (associated with COL1A2, COL3A1, and FN1); hsa-miR-3163 (associated with LUM, COL3A1, and FN1); and hsa-miR-4500 (associated with DCN, COL3A1, and COL1A2). Additionally, three lncRNAs AOC4P (associated with COL1A2 and MMP9), FENDRR (associated with FN1 and MMP9), and NEAT1 (associated with FN1 and MMP9) were identified as key biomarkers.This research provides valuable insights into the role of the immune system in the progression of Lennert lymphoma. Furthermore, the methodologies presented can be generalized to study other immune-related diseases and cancers.

لیست مقالات

لیست مقالات بایگانی شده

Reduced PINK1 Expression in Bladder Cancer: Insights into Autophagy Dysregulation and Therapeutic Potential

Shayan Jahangirzadeh - Mehdi Asghari Vostakolaei - Asadollah Asadi - Masoumeh Valipour

Innovative Multi-Epitope Vaccine for Breast Cancer Management: Utilizing MAGE-A, MAM-A, and Gal-3 through an In Silico Reverse Vaccinology Approach

Faranak Aali - Abbas Doosti - Mostafa Shakhsi-Niaei

Investigating the Potential of Natural Small Molecules as BDNF Mimetics for Neurodegenerative Disease Treatment: A Molecular Docking Study with TrkB Receptor

Sevil Babashpour - Dina Morshedi - Farhang Aliakbari

Integrating Biological Networks and Deep Learning for Microbe-Disease Prediction

Sobhan Ahmadian Moghadam - Zahra Ghorbanali - Fatemeh Zare-Mirakabad - Hesam Montazeri

Identification of a natural specific inhibitor for Akt1 protein through molecular docking studies and evaluation of DFT calculations and molecular dynamics simulations

Forough Pakzadi - Yaghub Pazhang - Ebrahim Nemati-Kande

Dissecting the impact of smoking on epigenetic mechanisms that influencing Lung cancer susceptibility

Mahboobeh Golchinpour - Alireza Fotuhi Siahpirani

ATIC as a Theranostic Biomarker in Gastrointestinal Cancers: Insights from Autophagy Pathway Analysis

Pooya Jalali - Maryam Eghbali - Zahra Eghabli - Yasaman Gholinezhad - Zahra Salehi

Structural and Biochemical Insights into Single-Stranded DNA-Binding Protein Complexes: A Comparative Study of DnaT, DnaBC, and Pab-RPA

Arshia Jahangiri - Maryam Azimzadeh Irani - Aida Arezoumandchafi

Enhancing NAFLD Diagnosis with AI: Insights from the Persian Fasa Cohort Through Advanced Machine Learning Techniques

Marzie Shadpirouz - Mohammad Reza Zabihi - Zahra Salehi - Kiarash Zare - Mohammad Mehdi Naghizadeh - Kaveh Kavousi

A New LDA-based Genetic Algorithm for Feature Selection and Classification in Gene Expression Data Analysis

Parisa Pouyamanesh - Mahdi Vasighi

بیشتر

ثمین همایش، سامانه مدیریت کنفرانس ها و جشنواره ها - نگارش 42.7.0