Functional Network Analysis with the Subcellular Location and Gene Ontology Information in Human Allergic Asthma

2012 ◽  
Vol 16 (11) ◽  
pp. 1287-1292 ◽  
Author(s):  
Bo Diao ◽  
Ying Liu ◽  
Yi Zhang ◽  
Qin Liu ◽  
Wen-Jie Lu ◽  
...  
Keyword(s):  
Gene Ontology ◽  
Network Analysis ◽  
Allergic Asthma ◽  
Subcellular Location ◽  
Functional Network ◽  
Gene Ontology Information

Discovering Therapeutic Protein Targets for Bladder Cancer Using Proteomic Data Analysis

2020 ◽  
Vol 13 (2) ◽  
pp. 150-172 ◽  
Author(s):  
Samira Bahrami ◽  
Bahram Kazemi ◽  
Hakimeh Zali ◽  
Peter C. Black ◽  
Abbas Basiri ◽  
...  
Keyword(s):  
Bladder Cancer ◽  
Gene Ontology ◽  
Monoclonal Antibodies ◽  
Membrane Proteins ◽  
Growth Factor Receptor ◽  
Subcellular Location ◽  
Cancer Tissue ◽  
Heat Shock Protein 60 ◽  
Absolute Quantitation ◽  
Muscle Invasive

Background: Bladder cancer accounts for almost 54% of urinary system cancer and is the second most frequent cause of death in genitourinary malignancies after prostate cancer. About 70% of bladder tumors are non-muscle-invasive, and the rest are muscle-invasive. Recurrence of the tumor is the common feature of bladder cancer. Chemotherapy is a conventional treatment for MIBC, but it cannot improve the survival rate of these patients sufficiently. Therefore, researchers must develop new therapies. Antibody-based therapy is one of the most important strategies for the treatment of solid tumors. Selecting a suitable target is the most critical step for this strategy. Objective: The aim of this study is to detect therapeutic cell surface antigen targets in bladder cancer using data obtained by proteomic studies. Methods: Isobaric tag for relative and absolute quantitation (iTRAQ) analysis had identified 131 overexpressed proteins in baldder cancer tissue and reverse-phase proteomic array (RPPA) analysis had been done for 343 tumor tissues and 208 antibodies. All identified proteins from two studies (131+208 proteins) were collected and duplicates were removed (331 unique proteins). Gene ontology study was performed using gene ontology (GO) and protein analysis through evolutionary relationships (PANTHER) databases. The Human Protein Atlas database was used to search the protein class and subcellular location of membrane proteins obtained from the PANTHER analysis. Results: Membrane proteins that could be suitable therapeutic targets for bladder cancer were selected. These included: Epidermal growth factor receptor (EGFR), Her2, Kinase insert domain receptor (KDR), Heat shock protein 60 (HSP60), HSP90, Transferrin receptor (TFRC), Activin A Receptor Like Type 1 (ACVRL1), and cadherin 2 (CDH2). Monoclonal antibodies against these proteins or their inhibitors were used for the treatment of different cancers in preclinical and clinical trials. Conclusion: These monoclonal antibodies and inhibitor molecules and also their combination can be used for the treatment of bladder cancer.

scholarly journals Functional Network Analysis Reveals Extended Gliomagenesis Pathway Maps and Three Novel MYC-Interacting Genes in Human Gliomas

2005 ◽  
Vol 65 (19) ◽  
pp. 8679-8689 ◽  
Author(s):  
Markus Bredel ◽  
Claudia Bredel ◽  
Dejan Juric ◽  
Griffith R. Harsh ◽  
Hannes Vogel ◽  
...  
Keyword(s):  
Network Analysis ◽  
Functional Network ◽  
Human Gliomas

CNTM-06. Individual Cerebrocerebellar Functional Network Analysis for Decoding the Symptomatological Dynamics of Posterior Fossa Syndrome

2021 ◽  
Vol 23 (Supplement_6) ◽  
pp. vi225-vi225
Author(s):  
Ko-Ting Chen ◽  
Sheng-Yao Huang
Keyword(s):  
Network Analysis ◽  
Posterior Fossa ◽  
Clinical Neurophysiology ◽  
Clinical Symptoms ◽  
Critical Role ◽  
Functional Network ◽  
Posterior Fossa Syndrome ◽  
Structural Abnormalities ◽  
Common Pathogenesis

Abstract Posterior fossa syndrome (PFS) consists of three types of symptom (motoric, linguistic, and neurobehavioral) in patients with posterior fossa pathologies. The evolutional mechanism of this high cognitive syndromic complex from cerebellar origin remains unconfirmed. Previous studies analyzing PFS patients mostly focused on the association between structural abnormalities that occur during PFS, of which proximal efferent cerebellar pathway (pECP) injury appears to be the most common pathogenesis. However, structural imaging may not be sensitive enough to determine the dynamic course of PFS, since the symptomatology is primarily an output of cerebral operation. On the other hand, a network neuroscience approach using a mathematical model to extract information from functional imaging to generate interregional connectivity provides abundant evidence that the cerebellum is influential in modulating cerebral functions. This study applied a network approach to children with PFS. Scaling of each symptom domain was used to quantify the dynamics of the syndrome. An individual cerebrocerebellar functional network analysis was then performed to determine the network dynamics during PFS. Cross-validation of clinical neurophysiology and functional neuroscience suggested the critical role of the pECP within PFS from the network analysis. The employed approach was therefore useful in determining the complex clinical symptoms using individual functional network analysis, which bridges the gap between structural neuroimaging and clinical neurophysiology.

Identification of key genes of hesperidin in inhibition of breast cancer stem cells by functional network analysis

2021 ◽  
Vol 90 ◽  
pp. 107427
Author(s):  
Adam Hermawan ◽  
Annisa Khumaira ◽  
Muthi Ikawati ◽  
Herwandhani Putri ◽  
Riris Istighfari Jenie ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Stem Cells ◽  
Network Analysis ◽  
Cancer Stem Cells ◽  
Functional Network ◽  
Breast Cancer Stem Cells ◽  
Key Genes
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