Abstract
The impact of cancer in the society has created the necessity of new and faster theoretical models that may allow earlier cancer detection. The present review gives the prediction of cancer by using the star graphs of the protein sequences and proteome mass spectra by building a Quantitative Protein - Disease Relationships (QPDRs), similar to Quantitative Structure Activity Relationship (QSAR) models. The nodes of these star graphs are represented by the amino acids of each protein or by the amplitudes of the mass spectra signals and the edged are the geometric and/or functional relationships between the nodes. The star graphs can be numerically described by the invariant values named topological indices (TIs). The transformation of the star graphs (graphical representation) of proteins into TIs (numbers) facilitates the manipulation of protein information and the search for structure-function relationships in Proteomics. The advantages of this method include simplicity, fast calculations and free resources such as S2SNet and MARCH-INSIDE tools. Thus, this ideal theoretical scheme can be easily extended to other types of diseases or even other fields, such as Genomics or Systems Biology.
Keywords: Graphs, cancer prediction, linear discriminant analysis, complex network, quantitative protein - disease relationship
Current Proteomics
Title: Star Graphs of Protein Sequences and Proteome Mass Spectra in Cancer Prediction
Volume: 6 Issue: 4
Author(s): Jose M. Vazquez, Vanessa Aguiar, Jose A. Seoane, Ana Freire, Jose A. Serantes, Julian Dorado, Alejandro Pazos and Cristian R. Munteanu
Affiliation:
Keywords: Graphs, cancer prediction, linear discriminant analysis, complex network, quantitative protein - disease relationship
Abstract: The impact of cancer in the society has created the necessity of new and faster theoretical models that may allow earlier cancer detection. The present review gives the prediction of cancer by using the star graphs of the protein sequences and proteome mass spectra by building a Quantitative Protein - Disease Relationships (QPDRs), similar to Quantitative Structure Activity Relationship (QSAR) models. The nodes of these star graphs are represented by the amino acids of each protein or by the amplitudes of the mass spectra signals and the edged are the geometric and/or functional relationships between the nodes. The star graphs can be numerically described by the invariant values named topological indices (TIs). The transformation of the star graphs (graphical representation) of proteins into TIs (numbers) facilitates the manipulation of protein information and the search for structure-function relationships in Proteomics. The advantages of this method include simplicity, fast calculations and free resources such as S2SNet and MARCH-INSIDE tools. Thus, this ideal theoretical scheme can be easily extended to other types of diseases or even other fields, such as Genomics or Systems Biology.
Export Options
About this article
Cite this article as:
Vazquez M. Jose, Aguiar Vanessa, Seoane A. Jose, Freire Ana, Serantes A. Jose, Dorado Julian, Pazos Alejandro and Munteanu R. Cristian, Star Graphs of Protein Sequences and Proteome Mass Spectra in Cancer Prediction, Current Proteomics 2009; 6 (4) . https://dx.doi.org/10.2174/157016409789973752
DOI https://dx.doi.org/10.2174/157016409789973752 |
Print ISSN 1570-1646 |
Publisher Name Bentham Science Publisher |
Online ISSN 1875-6247 |
Call for Papers in Thematic Issues
Mass spectrometry data acquisition and analysis for proteomics
The Thematic Issue on "Mass spectrometry data acquisition and analysis for proteomics" aims to explore the latest advancements and challenges in the field of proteomics through the lens of mass spectrometry. Proteomics, the large-scale study of proteins and their functions, plays a crucial role in understanding various biological processes and ...read more
Peptides: State-of-Art and Commercialisation Hurdles
The Editors of the Current Proteomics (CP) journal are highly privileged to welcome scientists to submit their scientific research and review articles to be considered for publication in the upcoming thematic issue. The topics should cover various aspects of peptides in regard to their synthetic methodologies, formulation approaches, pharmacological challenges, ...read more
- Author Guidelines
- Graphical Abstracts
- Fabricating and Stating False Information
- Research Misconduct
- Post Publication Discussions and Corrections
- Publishing Ethics and Rectitude
- Increase Visibility of Your Article
- Archiving Policies
- Peer Review Workflow
- Order Your Article Before Print
- Promote Your Article
- Manuscript Transfer Facility
- Editorial Policies
- Allegations from Whistleblowers
- Announcements
Related Articles
-
Application of Diet-derived Taste Active Components for Clinical Nutrition: Perspectives from Ancient AyurvedicMedical Science, Space Medicine, and Modern Clinical Nutrition
Current Pharmaceutical Design Synthesis, Molecular Docking and Biological Evaluation of Novel Flavone Derivatives as Potential Anticancer Agents Targeting Akt
Medicinal Chemistry Pharmacogenomics: Dont Forget the Children
Current Pharmacogenomics and Personalized Medicine Strategies to Overcome Drug Resistance of Receptor Tyrosine Kinaseaddicted Cancer Cells
Current Medicinal Chemistry Biomedical Applications of Superparamagnetic Nanoparticles in Molecular Scale
Current Organic Chemistry Synthesis of New Curcumin-like Pentadienones by O- and C-glycosylation
Current Organic Chemistry ALK-Positive Non-Small Cell Lung Cancer; Potential Combination Drug Treatments
Current Cancer Drug Targets Role of Open Source Tools and Resources in Virtual Screening for Drug Discovery
Combinatorial Chemistry & High Throughput Screening The Role of PARP Inhibitors in the Treatment of Ovarian Carcinomas
Current Pharmaceutical Design Interactions of Iron Oxide Nanoparticles with the Immune System: Challenges and Opportunities for their Use in Nano-oncology
Current Pharmaceutical Design Purines and Pyrimidines: Metabolism, Function and Potential as Therapeutic Options in Neurodegenerative Diseases
Current Protein & Peptide Science Genetic Variants in Genes Involved in Mechanisms of Chemoresistance to Anticancer Drugs
Current Cancer Drug Targets Adenosine Receptors: What We Know and What We are Learning
Current Topics in Medicinal Chemistry Meet Our Editor-in-Chief
Clinical Cancer Drugs Signaling Molecules: The Pathogenic Role of the IL-6/STAT-3 Trans Signaling Pathway in Intestinal Inflammation and in Colonic Cancer
Current Drug Targets Effect of DNA Repair Deficiencies on the Cytotoxicity of Drugs Used in Cancer Therapy - A Review
Current Medicinal Chemistry Marine Natural Products and Related Compounds as Anticancer Agents: an Overview of their Clinical Status
Anti-Cancer Agents in Medicinal Chemistry Proteases and their Receptors as Mediators of Inflammation-Associated Colon Cancer
Current Pharmaceutical Design Cancer Stem Cells in Prostate Cancer Chemoresistance
Current Cancer Drug Targets Fluorinated Molecules as Drugs and Imaging Agents in the CNS
Current Topics in Medicinal Chemistry