scholarly journals Application of Mass Spectrometry for Signal Transduction Analysis

2015 ◽  
Vol 64 (3) ◽  
pp. 177-181
Author(s):  
Hiroko KISHI ◽  
Sei KOBAYASHI
Keyword(s):  
Mass Spectrometry ◽  
Signal Transduction ◽  
Signal Transduction Analysis

scholarly journals Integrative multi-omics landscape of non-structural protein 3 of severe acute respiratory syndrome coronaviruses

2021 ◽  
Author(s):  
Ruona Shi ◽  
Zhenhuan Feng ◽  
Xiaofei Zhang
Keyword(s):  
Mass Spectrometry ◽  
Signal Transduction ◽  
Immune Response ◽  
Severe Acute Respiratory Syndrome ◽  
Ribosomal Proteins ◽  
Structural Protein ◽  
Cellular Functions ◽  
Cellular Effects ◽  
Cellular Changes ◽  
Global Pandemic

The coronavirus disease 2019 (COVID-19) caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection is currently a global pandemic. Extensive investigations have been performed to study the clinical and cellular effects of SARS-CoV-2 infection. Mass spectrometry-based proteomics studies have revealed the cellular changes due to the infection and identified a plethora of interactors for all SARS-CoV-2 components, except for the longest non-structural protein 3 (NSP3). Here, we expressed the full-length NSP3 proteins of SARS-CoV and SARS-CoV-2 to investigate their unique and shared functions using multi-omics methods. We conducted interactome, phosphoproteome, ubiquitylome, transcriptome, and proteome analyses of NSP3-expressing cells. We found that NSP3 plays essential roles in cellular functions such as RNA metabolism and immune response such as NF-kB signal transduction. Interestingly, we showed that SARS-CoV-2 NSP3 has both endoplasmic reticulum and mitochondrial localizations. In addition, SARS-CoV-2 NSP3 is more closely related to mitochondrial ribosomal proteins, whereas SARS-CoV NSP3 is related to the cytosolic ribosomal proteins. In summary, our multi-omics studies of NSP3 enhance our understanding of the functions of NSP3 and offer valuable insights for the development of anti-SARS strategies.

scholarly journals PhosR enables processing and functional analysis of phosphoproteomic data

2020 ◽  
Author(s):  
Hani Jieun Kim ◽  
Taiyun Kim ◽  
Nolan J Hoffman ◽  
Di Xiao ◽  
David E James ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Signal Transduction ◽  
Functional Analysis ◽  
Global Scale ◽  
Comprehensive Analysis ◽  
Signalling Pathways ◽  
Biological Knowledge ◽  
Data Imputation ◽  
Collective Actions ◽  
R Packages

SUMMARYMass spectrometry (MS)-based phosphoproteomics has revolutionised our ability to profile phosphorylation-based signalling in cells and tissues on a global scale. To infer the action of kinases and signalling pathways in phosphoproteomic experiments, we present PhosR, a set of tools and methodologies implemented in a suite of R packages facilitating comprehensive analysis of phosphoproteomic data. By applying PhosR to both published and new phosphoproteomic datasets, we demonstrate capabilities in data imputation and normalisation using a novel set of ‘stably phosphorylated sites’, and in functional analysis for inferring active kinases and signalling pathways. In particular, we introduce a ‘signalome’ construction method for identifying a collection of signalling modules to summarise and visualise the interaction of kinases and their collective actions on signal transduction. Together, our data and findings demonstrate the utility of PhosR in processing and generating novel biological knowledge from MS-based phosphoproteomic data.

P37 Pro-apoptotic effect of hydrogen sulphide in human melanoma cell lines: A signal transduction analysis

Nitric Oxide ◽  
2012 ◽  
Vol 27 ◽  
pp. S28-S29
Author(s):  
Angela Ianaro ◽  
Elisabetta Panza ◽  
Maria Napolitano ◽  
Paola De Cicco ◽  
Mariarosaria Bucci ◽  
...  
Keyword(s):  
Signal Transduction ◽  
Cell Lines ◽  
Melanoma Cell ◽  
Hydrogen Sulphide ◽  
Human Melanoma ◽  
Human Melanoma Cell ◽  
Apoptotic Effect ◽  
Melanoma Cell Lines ◽  
Signal Transduction Analysis

Development of automated high throughput single molecular microfluidic detection platform for signal transduction analysis

2016 ◽  
Author(s):  
Po-Jung Huang ◽  
Sina Baghbani Kordmahale ◽  
Chao-Kai Chou ◽  
Hirohito Yamaguchi ◽  
Mien-Chie Hung ◽  
...  
Keyword(s):  
Signal Transduction ◽  
High Throughput ◽  
Signal Transduction Analysis

Glycome profiling using modern glycomics technology: technical aspects and applications

2010 ◽  
Vol 391 (2/3) ◽  
Author(s):  
Dieter Vanderschaeghe ◽  
Nele Festjens ◽  
Joris Delanghe ◽  
Nico Callewaert
Keyword(s):  
Mass Spectrometry ◽  
Signal Transduction ◽  
Liquid Chromatography Mass Spectrometry ◽  
Post Translational Modification ◽  
Technical Aspects ◽  
Glycome Profiling ◽  
The Past ◽  
Research Fields ◽  
Research Goal ◽  
Glycan Profiling

Abstract Glycomics research has become indispensable in many research fields such as immunity, signal transduction and development. Moreover, changes in the glycosylation of proteins and lipids have been reported in several diseases including cancer. The analysis of a complex post-translational modification such as glycosylation depends on the availability or development of appropriate analytical technologies. The research goal determines the sensitivity, resolution and throughput requirements and guides the choice of a particular technology. This review highlights the evolution of glycan profiling tools in the past 5 years. We focus on capillary electrophoresis, liquid chromatography, mass spectrometry and lectin microarrays.

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