دورية أكاديمية
iSanXoT: A standalone application for the integrative analysis of mass spectrometry-based quantitative proteomics data.
| العنوان: | iSanXoT: A standalone application for the integrative analysis of mass spectrometry-based quantitative proteomics data. |
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| المؤلفون: | Rodríguez JM; Proteomics Unit, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid 28029, Spain., Jorge I; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain.; CIBER de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain., Martinez-Val A; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain., Barrero-Rodríguez R; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain., Magni R; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain.; CIBER de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain., Núñez E; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain.; CIBER de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain., Laguillo A; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain., Devesa CA; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain., López JA; Proteomics Unit, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid 28029, Spain.; CIBER de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain., Camafeita E; Proteomics Unit, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid 28029, Spain.; CIBER de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain., Vázquez J; Laboratory of Cardiovascular Proteomics. Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid 28029, Spain.; CIBER de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain. |
| المصدر: | Computational and structural biotechnology journal [Comput Struct Biotechnol J] 2023 Dec 26; Vol. 23, pp. 452-459. Date of Electronic Publication: 2023 Dec 26 (Print Publication: 2024). |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology Country of Publication: Netherlands NLM ID: 101585369 Publication Model: eCollection Cited Medium: Print ISSN: 2001-0370 (Print) Linking ISSN: 20010370 NLM ISO Abbreviation: Comput Struct Biotechnol J Subsets: PubMed not MEDLINE |
| أسماء مطبوعة: | Publication: Amsterdam : Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology Original Publication: Gothenburg, Sweden : Research Network of Computational and Structural Biotechnology |
| مستخلص: | Many bioinformatics tools are available for the quantitative analysis of proteomics experiments. Most of these tools use a dedicated statistical model to derive absolute quantitative protein values from mass spectrometry (MS) data. Here, we present iSanXoT, a standalone application that processes relative abundances between MS signals and then integrates them sequentially to upper levels using the previously published Generic Integration Algorithm (GIA). iSanXoT offers unique capabilities that complement conventional quantitative software applications, including statistical weighting and independent modeling of error distributions in each integration, aggregation of technical or biological replicates, quantification of posttranslational modifications, and analysis of coordinated protein behavior. iSanXoT is a standalone, user-friendly application that accepts output from popular proteomics pipelines and enables unrestricted creation of quantification workflows and fully customizable reports that can be reused across projects or shared among users. Numerous publications attest the successful application of diverse integrative workflows constructed using the GIA for the analysis of high-throughput quantitative proteomics experiments. iSanXoT has been tested with the main operating systems. Download links for the corresponding distributions are available at https://github.com/CNIC-Proteomics/iSanXoT/releases. Competing Interests: The authors declare that they have no known competing financial interests or personal relationships that could influence the work reported in this paper. (© 2024 The Authors. Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.) |
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| فهرسة مساهمة: | Keywords: Generic integration algorithm; Mass spectrometry; Protein coordination; Proteomics pipeline; Quantitative proteomics; WSPP model |
| تواريخ الأحداث: | Date Created: 20240118 Latest Revision: 20240119 |
| رمز التحديث: | 20240119 |
| مُعرف محوري في PubMed: | PMC10792623 |
| DOI: | 10.1016/j.csbj.2023.12.034 |
| PMID: | 38235360 |
| قاعدة البيانات: | MEDLINE |
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