A Bayesian framework for cell-level protein network analysis for multivariate proteomics image data

2014 ◽  
Author(s):  
Violet N. Kovacheva ◽  
Korsuk Sirinukunwattana ◽  
Nasir M. Rajpoot
Keyword(s):  
Network Analysis ◽  
Image Data ◽  
Bayesian Framework ◽  
Protein Network ◽  
Cell Level

scholarly journals DiSWOP: a novel measure for cell-level protein network analysis in localized proteomics image data

2013 ◽  
Vol 30 (3) ◽  
pp. 420-427 ◽  
Author(s):  
Violeta N. Kovacheva ◽  
Adnan M. Khan ◽  
Michael Khan ◽  
David B. A. Epstein ◽  
Nasir M. Rajpoot
Keyword(s):  
Network Analysis ◽  
Image Data ◽  
Protein Network ◽  
Cell Level

Protein Network Analysis of the Fifth Chromosome of Zebrafish

2020 ◽  
Vol 27 (5) ◽  
pp. 729-737
Author(s):  
Lei Li ◽  
Linhua Jiang ◽  
Sihua Peng
Keyword(s):  
Network Analysis ◽  
Protein Network

scholarly journals Combinatorial RNAi for quantitative protein network analysis

2007 ◽  
Vol 104 (16) ◽  
pp. 6579-6584 ◽  
Author(s):  
O. Sahin ◽  
C. Lobke ◽  
U. Korf ◽  
H. Appelhans ◽  
H. Sultmann ◽  
...  
Keyword(s):  
Network Analysis ◽  
Protein Network

scholarly journals Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis

2011 ◽  
Vol 40 (D1) ◽  
pp. D465-D471 ◽  
Author(s):  
J. Lees ◽  
C. Yeats ◽  
J. Perkins ◽  
I. Sillitoe ◽  
R. Rentzsch ◽  
...  
Keyword(s):  
Comparative Genomics ◽  
Network Analysis ◽  
Functional Annotation ◽  
Protein Network

scholarly journals A LIBRATION MODEL FOR ENCELADUS BASED ON GEODETIC CONTROL POINT NETWORK ANALYSIS

2016 ◽  
Vol XLI-B4 ◽  
pp. 459-462 ◽  
Author(s):  
I. E. Nadezhdina ◽  
A. E. Zubarev ◽  
E. S. Brusnikin ◽  
J. Oberst
Keyword(s):  
Network Analysis ◽  
Coordinate System ◽  
Control Point ◽  
Image Data ◽  
Control Points ◽  
Global Control ◽  
Cartesian Coordinates ◽  
Voyager 2 ◽  
Librational Motion ◽  
Geodetic Control

A new global control point network was derived for Enceladus, based on Cassini and Voyager-2 image data. Cassini images were taken from 2005 to 2014, for Voyager we have only one flyby in the middle of 1981. We have derived 3D Cartesian coordinates for 1128 control points as well as improved pointing data for 12 Voyager and 193 Cassini images in the Enceladus-fixed coordinate system. The point accuracies vary from 55 m to 2900 m (average point accuracy – 221 m). From tracking of the control points we detect a librational motion described by a model which includes 3 different periods and amplitudes (Rambaux et al., 2011). We determine the amplitudes for each term. Our new control point network has a higher number of point measurements and a higher accuracy than previous data (Giese et al., 2014).

scholarly journals Mapping Novel Copper-Regulated Signalling Pathways Using Antibody Arrays and in Silico Protein Network Analysis

2008 ◽  
Vol S2 (01) ◽  
pp. 056-057
Author(s):  
A. R. White ◽  
T. Du ◽  
L. Bica ◽  
A. Caragounis ◽  
K. A. Price ◽  
...  
Keyword(s):  
Network Analysis ◽  
In Silico ◽  
Protein Network ◽  
Signalling Pathways ◽  
Antibody Arrays

scholarly journals A Connectivity Map-Based Drug Repurposing Study and Integrative Analysis of Transcriptomic Profiling of SARS-CoV-2 Infection

2020 ◽  
Author(s):  
seyedeh zahra mousavi ◽  
mojdeh rahmanian ◽  
ashkan sami
Keyword(s):  
Network Analysis ◽  
Cell Line ◽  
Inhaled Corticosteroids ◽  
Drug Repurposing ◽  
Protein Network ◽  
New Drugs ◽  
Health Concern ◽  
Epithelial Cell Line ◽  
Connectivity Map ◽  
Pathway Enrichment

<div>Aims: The recent outbreak of COVID-19 has become a global health concern. There are currently no effective treatment strategies and vaccines for the treatment or prevention of this fatal disease. The current study aims to determine promising treatment options for the COVID-19 through a computational drug repurposing approach.</div><div>Materials and methods: In this study, we focus on differentially expressed genes (DEGs), detected in SARS-CoV-2 infected cell lines including “the primary human lung epithelial cell line NHBE” and “the transformed lung alveolar cell line A549”. Next, the identified DEGs are used in the connectivity map (CMap) analysis to identify similarly acting therapeutic candidates. Furthermore, to interpret lists of DEGs, pathway enrichment and protein network analysis are performed. Genes are categorized into easily interpretable pathways based on their biological functions, and overrepresentations of each pathway are tested in comparison to what is expected randomly.</div><div>Key findings: The results suggest the effectiveness of Saquinavir, lansoprazole, folic acid, ebselen, aminocaproic acid, simvastatin, surfactant stimulant drugs, heat shock protein 90 (HSP90) inhibitors, histone deacetylase (HDAC) inhibitors, metronidazole, inhaled corticosteroids (ICS) and many other clinically approved drugs and investigational compounds as potent drugs against COVID-19 outbreak.</div><div>Significance: Making new drugs remain a lengthy process, so the drug repurposing approach provides an insight into the therapeutics that might be helpful in this pandemic. In this study, pathway enrichment and protein network analysis are also performed, and the effectiveness of some drugs obtained from the CMap analysis has been investigated according to previous research.</div>

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