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
-
Xanthohumol, a Prenylated Chalcone Derived from Hops, Suppresses Cancer Cell Invasion through Inhibiting the Expression of CXCR4 Chemokine Receptor
Current Molecular Medicine Synthesis of Novel Fused Heterocyclic Compounds from 7-amino-[1,2,4]triazino[3,4- b][1,3,4]thiadiazine-8-carbonitrile
Current Organic Synthesis Development of a High Throughput Drug Screening Assay for the Detection of Changes in Tau Levels - Proof of Concept with HSP90 inhibitors
Current Alzheimer Research Therapeutic Potential of Targeting Transforming Growth Factor-beta in Colorectal Cancer: Rational and Progress
Current Pharmaceutical Design Cytotoxic Constituents from the Bark of Erythrina poeppigiana Against the MCF-7 Breast Cancer Cell Lines
The Natural Products Journal Therapeutic Intervention in Cancer and Chronic Viral Infections: Antibody Mediated Manipulation of PD-1/PD-L1 Interaction
Reviews on Recent Clinical Trials Cellular Therapy for Treatment of Stress Urinary Incontinence
Current Stem Cell Research & Therapy Expression and Function of the Endocannabinoid System in Glial Cells
Current Pharmaceutical Design Melanin Biosynthesis Inhibitors from Wood of Artocarpus heterophyllus: The Effect of Isoprenoid Substituent of Flavone with 4-Substituted Resorcinol Moiety at B Ring
Letters in Drug Design & Discovery Paving the Way to Personalized Genomic Medicine: Steps to Successful Implementation
Current Pharmacogenomics and Personalized Medicine Use of Trastuzumab for Breast Cancer: The Role of Age
Current Pharmaceutical Design Natural Products Targeting Cancer Stem Cells: A Revisit
Current Medicinal Chemistry CD95 Signaling in Cancer Treatment
Current Pharmaceutical Design Gedunin, A Neem Limonoid in Combination with Epalrestat Inhibits Cancer Hallmarks by Attenuating Aldose Reductase-Driven Oncogenic Signaling in SCC131 Oral Cancer Cells
Anti-Cancer Agents in Medicinal Chemistry Silybin and Silymarin - New and Emerging Applications in Medicine
Current Medicinal Chemistry Bone Marker in Women with Breast Cancer
Current Biomarkers (Discontinued) Probiotic Lactobacilli: A New Perspective for the Treatment of Inflammatory Bowel Disease
Current Pharmaceutical Design The Effects of Tamoxifen on Immunity
Current Medicinal Chemistry Targeted Therapies in Breast Cancer: Established Drugs and Recent Developments
Current Clinical Pharmacology Towards a Metadata Model for Mass-Spectrometry Based Clinical Proteomics
Current Bioinformatics