In-silico analysis of differentially expressed genes and their regulating microRNA involved in lymph node metastasis in invasive breast carcinoma

2021 ◽  
pp. 1-50
Author(s):  
Anupama Modi ◽  
Purvi Purohit ◽  
Ashita Gadwal ◽  
Shweta Ukey ◽  
Dipayan Roy ◽  
...  
Keyword(s):  
Lymph Node ◽  
Breast Carcinoma ◽  
Lymph Node Metastasis ◽  
Differentially Expressed Genes ◽  
In Silico ◽  
In Silico Analysis ◽  
Invasive Breast Carcinoma ◽  
Differentially Expressed ◽  
Node Metastasis ◽  
Silico Analysis

scholarly journals In-silico analysis of differentially expressed genes and their regulating microRNA involved in lymph node metastasis in invasive breast carcinoma

2020 ◽  
Author(s):  
Anupama Modi ◽  
Purvi Purohit ◽  
Ashita Gadwal ◽  
Shweta Ukey ◽  
Dipayan Roy ◽  
...  
Keyword(s):  
Gene Expression ◽  
Lymph Node ◽  
Lymph Node Metastasis ◽  
Candidate Genes ◽  
Differentially Expressed Genes ◽  
In Silico ◽  
Nodal Metastasis ◽  
Differentially Expressed ◽  
Hub Genes ◽  
Node Metastasis

AbstractIntroductionAxillary nodal metastasis is related to poor prognosis in breast cancer (BC). The metastatic progression in BC is related to molecular signatures. The currently popular methods to evaluate nodal status may give false negatives or give rise to secondary complications. In this study, key candidate genes in BC lymph node metastasis have been identified from publicly available microarray datasets and their roles in BC have been explored through survival analysis and target prediction.MethodsGene Expression Omnibus datasets have been analyzed for differentially expressed genes (DEGs) in lymph node-positive BC patients compared to nodal-negative and healthy tissues. The functional enrichment analysis was done in database for annotation, visualization and integrated discovery (DAVID). Protein-protein interaction (PPI) network was constructed in Search Tool for the Retrieval of Interacting Genes and proteins (STRING) and visualized on Cytoscape. The candidate hub genes were identified and their expression analyzed for overall survival (OS) in Gene Expression Profiling Interactive Analysis (GEPIA). The target miRNA and transcription factors were analyzed through miRNet.ResultsA total of 102 overlapping DEGs were found. Gene Ontology revealed eleven, seventeen, and three significant terms for cellular component, biological process, and molecular function respectively. Six candidate genes, DSC3, KRT5, KRT6B, KRT17, KRT81, and SERPINB5 were significantly associated with nodal metastasis and OS in BC patients. A total of 83 targeting miRNA were identified through miRNet and hsa-miR-155-5p was found to be the most significant miRNA which was targeting five out of six hub genes.ConclusionIn-silico survival and expression analyses revealed six candidate genes and 83 miRNAs, which may be potential diagnostic markers and therapeutic targets in BC patients and miR-155-5p shows promise as it targeted five important hub genes related to lymph-node metastasis.

STUDY ON RELATION BETWEEN TRADITIONAL PROGNOSIS FACTORS AND HORMONE RECEPTORS STATUS, KI-67, HER2 IN INVASIVE BREAST CARCINOMA

2017 ◽  
pp. 70-76
Author(s):  
Cong Thuan Dang ◽  
Thi Thu Thuy Phan ◽  
Nam Dong Tran ◽  
Cao Sach Ngo ◽  
Thi Hong Van Vo
Keyword(s):  
Lymph Node ◽  
Breast Carcinoma ◽  
Lymph Node Metastasis ◽  
Tumor Size ◽  
Hormone Receptors ◽  
Histological Grade ◽  
Invasive Breast Carcinoma ◽  
Disease Stage ◽  
Ki 67 ◽  
Node Metastasis

Objectives: To examine histopathologic features and hormone receptors status, Ki-67 and HER2 in invasive breast carcinoma at Hue University Hospital to evaluating the relation between tumor size, histological grade, lymph node metastasis status, disease stage and the expression of steroid hormone receptors status, Ki-67 and HER2 in invasive breast carcinoma. Materials and methods: From May 2015 to April 2016, samples were collected from 96 breast carcinoma patients. Histopathologic samples were stained by Hematoxylin-Eosin and immunohistochemistry staining at Pathology Department, Hue University Hospital. R esults: Most invasive breast carcinoma patients were among the age of 50-59 (39.6%), invasive ductal carcinoma (82.3%), tumor size ≤2cm (54.2%), histological grade II (60.2%), lymph node metastasis (53.1%), disease stage II (51%); ER(+) 46.9%, PR(+) 49.0%, Ki-67(+) 77.1%, HER2(+) 30.2% of cases. Conclusion: There were a positive correlation between histological grade with the HER2 expression (p<0.05) in invasive breast carcinoma. Key words: invasive breast carcinoma, immunohistochemistry, tumor size, histological grade, lymph node metastasis, disease stage

scholarly journals A Comparative Meta-Analysis and in silico Analysis of Differentially Expressed Genes and Proteins in Canine and Human Bladder Cancer

2020 ◽  
Vol 7 ◽  
Author(s):  
Victoria Vitti Gambim ◽  
Renee Laufer-Amorim ◽  
Ricardo Henrique Fonseca Alves ◽  
Valeria Grieco ◽  
Carlos Eduardo Fonseca-Alves
Keyword(s):  
Bladder Cancer ◽  
Differentially Expressed Genes ◽  
In Silico ◽  
Meta Analysis ◽  
In Silico Analysis ◽  
Differentially Expressed ◽  
Human Bladder Cancer ◽  
Human Bladder ◽  
Silico Analysis

scholarly journals Association of CXCR4 mRNA Expression with Clinicopathological Aspects of Invasive Breast Carcinoma

2021 ◽  
Vol 4 (1) ◽  
pp. 9
Author(s):  
Novan Adi Setyawan ◽  
Didik Setyo Heriyanto ◽  
Naomi Yoshuantari ◽  
Irianiwati Irianiwati
Keyword(s):  
Breast Cancer ◽  
Lymph Node ◽  
Breast Carcinoma ◽  
Lymph Node Metastasis ◽  
Mrna Expression ◽  
Ductal Carcinoma ◽  
Invasive Breast Carcinoma ◽  
Low Grade ◽  
Node Metastasis ◽  
Cxcr4 Mrna

<p class="Abstract">ABSTRACT</p><p><strong> </strong></p><p><strong>Background</strong></p><p>Breast cancer is the most common malignancy in women of which majority histological type is Invasive (Ductal) Carcinoma of No Special Type (NST). The prognosis in breast carcinoma is influenced by many factors such as age, tumor size, degree of histology, and lymph node metastasis. Another factor in the development and metastasis of breast cancer is the chemokine receptor CXCR4 and its ligand, CXCL12. Studies state that the expression of CXCR4 in Breast Invasive Carcinoma associated with clinicopathologic aspects remain unclear. This study aims to determine differences in the level of CXCR4 mRNA expression between clinicopathologic aspects in breast carcinoma..</p><p><strong>Method</strong></p><p>A total of 50 samples of formalin-fixed paraffin-embedded (FFPE) tissues diagnosed as invasive breast carcinoma (NST) are used in this study. Samples are divided into groups, namely with and without lymph node metastasis, age &lt;45 years and&gt; 45 years, small and large size, low grade and high grade. CXCR4 mRNA expression is quantitatively examined by qRT-PCR. CXCR4 mRNA expression differences between various clinicopathologic aspects were analyzed by One-Way ANOVA</p><p><strong>Result</strong></p><p>Of the 50 samples, 26 samples (52%) revealed increased expression of CXCR4 mRNA compared to normal tissue. There were no significant differences in mRNA expression of  CXCR4 between various prognostic factors (p&gt; 0.05) such as the status of lymph node metastasis, histologic grading, size, and age. However, the expression of CXCR4 mRNA is increased in breast carcinoma when compared to normal breast tissue. Nonetheless the level of CXCR4 expression alone is not associated to clinicopathologic aspects in invasive breast carcinoma.</p><p><strong>Conclusion</strong></p><p>CXCR4 mRNA expression did not differ significantly between the various clinicopathological aspects of invasive breast carcinoma.</p><p> </p><p><strong><em>Keyword</em></strong><strong>: </strong>invasive breast carcinoma, mRNA of CXCR4, Clinicopathologic aspects</p><p> </p>

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