{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,11]],"date-time":"2026-07-11T23:29:39Z","timestamp":1783812579738,"version":"3.55.0"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"9","license":[{"start":{"date-parts":[[2018,9,25]],"date-time":"2018-09-25T00:00:00Z","timestamp":1537833600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Spanish Ministry of Economy, Industry and Competitiveness","award":["BIO2012-37926"],"award-info":[{"award-number":["BIO2012-37926"]}]},{"name":"Spanish Ministry of Economy, Industry and Competitiveness","award":["BIO2015-67580-P"],"award-info":[{"award-number":["BIO2015-67580-P"]}]},{"name":"MEIC","award":["IPT13\/0001"],"award-info":[{"award-number":["IPT13\/0001"]}]},{"name":"ProteoRed"},{"name":"PRB2","award":["IPT17\/0019"],"award-info":[{"award-number":["IPT17\/0019"]}]},{"name":"ProteoRed"},{"name":"PRB3","award":["ISCIII-SGEFI\/ERDF"],"award-info":[{"award-number":["ISCIII-SGEFI\/ERDF"]}]},{"DOI":"10.13039\/100008666","name":"Fundaci\u00f3 La Marat\u00f3 de TV3","doi-asserted-by":"crossref","id":[{"id":"10.13039\/100008666","id-type":"DOI","asserted-by":"crossref"}]},{"name":"European Commission FP7","award":["FP7-PEOPLE-2013-ITN"],"award-info":[{"award-number":["FP7-PEOPLE-2013-ITN"]}]},{"DOI":"10.13039\/501100005884","name":"Centro Nacional de Investigaciones Cardiovasculares Carlos","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100005884","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Spanish Ministry of Economy, Industry and Competitiveness"},{"name":"MEIC"},{"name":"Pro-CNIC Foundation"},{"name":"Severo Ochoa Center of Excellence"},{"name":"MEIC","award":["SEV-2015-0505"],"award-info":[{"award-number":["SEV-2015-0505"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,5,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Mass spectrometry-based proteomics has had a formidable development in recent years, increasing the amount of data handled and the complexity of the statistical resources needed. Here we present SanXoT, an open-source, standalone software package for the statistical analysis of high-throughput, quantitative proteomics experiments. SanXoT is based on our previously developed weighted spectrum, peptide and protein statistical model and has been specifically designed to be modular, scalable and user-configurable. SanXoT allows limitless workflows that adapt to most experimental setups, including quantitative protein analysis in multiple experiments, systems biology, quantification of post-translational modifications and comparison and merging of experimental data from technical or biological replicates.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Download links for the SanXoT Software Package, source code and documentation are available at https:\/\/wikis.cnic.es\/proteomica\/index.php\/SSP.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Contact<\/jats:title>\n                  <jats:p>jvazquez@cnic.es or ebonzon@cnic.es<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary information is available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty815","type":"journal-article","created":{"date-parts":[[2018,9,24]],"date-time":"2018-09-24T19:13:19Z","timestamp":1537816399000},"page":"1594-1596","source":"Crossref","is-referenced-by-count":69,"title":["SanXoT: a modular and versatile package for the quantitative analysis of high-throughput proteomics experiments"],"prefix":"10.1093","volume":"35","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7129-0602","authenticated-orcid":false,"given":"Marco","family":"Trevisan-Herraz","sequence":"first","affiliation":[{"name":"Vascular Pathophysiology Area, Cardiovascular Proteomics Laboratory, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid, Spain"},{"name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3958-6382","authenticated-orcid":false,"given":"Navratan","family":"Bagwan","sequence":"additional","affiliation":[{"name":"Vascular Pathophysiology Area, Cardiovascular Proteomics Laboratory, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2105-2905","authenticated-orcid":false,"given":"Fernando","family":"Garc\u00eda-Marqu\u00e9s","sequence":"additional","affiliation":[{"name":"Vascular Pathophysiology Area, Cardiovascular Proteomics Laboratory, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid, Spain"},{"name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9948-5073","authenticated-orcid":false,"given":"Jose Manuel","family":"Rodriguez","sequence":"additional","affiliation":[{"name":"Vascular Pathophysiology Area, Cardiovascular Proteomics Laboratory, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8645-9477","authenticated-orcid":false,"given":"Inmaculada","family":"Jorge","sequence":"additional","affiliation":[{"name":"Vascular Pathophysiology Area, Cardiovascular Proteomics Laboratory, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid, Spain"},{"name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9074-5302","authenticated-orcid":false,"given":"Iakes","family":"Ezkurdia","sequence":"additional","affiliation":[{"name":"Vascular Pathophysiology Area, Cardiovascular Proteomics Laboratory, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid, Spain"},{"name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Cardiovasculares (CIBERCV), Madrid, Spain"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0852-7520","authenticated-orcid":false,"given":"Elena","family":"Bonzon-Kulichenko","sequence":"additional","affiliation":[{"name":"Vascular Pathophysiology Area, Cardiovascular Proteomics Laboratory, Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid, Spain"},{"name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Enfermedades Cardiovasculares (CIBERCV), Madrid, 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