{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,20]],"date-time":"2026-04-20T15:42:35Z","timestamp":1776699755628,"version":"3.51.2"},"reference-count":26,"publisher":"MDPI AG","issue":"7","license":[{"start":{"date-parts":[[2023,7,12]],"date-time":"2023-07-12T00:00:00Z","timestamp":1689120000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100006769","name":"Russian Science Foundation (RSF)","doi-asserted-by":"publisher","award":["21-74-00140"],"award-info":[{"award-number":["21-74-00140"]}],"id":[{"id":"10.13039\/501100006769","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Data"],"abstract":"<jats:p>Ferroptosis is a unique variety of non-apoptotic cell death, driven by massive lipid oxidation in an iron-dependent manner. Since ferroptosis was introduced as a concept in 2012, it has demonstrated its essential role in the pathogenesis in neurodegenerative diseases and an important role in therapy-resistant cancer cells. Thus, detailed molecular understanding of both canonical and alternative ferroptosis pathways is required. There is a set of widely used chemical agents to modulate ferroptosis using different pathway targets: erastin blocks cystine\u2013glutamate antiporter, system xc-; ML210 directly inactivates GPX4; and L-buthionine sulfoximine (BSO) inhibits \u03b3-glutamylcysteine synthetase, an essential enzyme for glutathione synthesis de novo. Most studies have focused on the lipidomic profiling of model systems undergoing death in a ferroptotic modality. In this study, we developed high-quality shotgun proteome sequencing during ferroptosis induction by three widely used chemical agents (erastin, ML210, and BSO) before and after 24 and 48 h of treatment. Chromato-mass spectra were registered in DDA mode and are suitable for further label-free quantification. Both processed and raw files are publicly available and could be a valuable dynamic proteome map for further ferroptosis investigation.<\/jats:p>","DOI":"10.3390\/data8070119","type":"journal-article","created":{"date-parts":[[2023,7,13]],"date-time":"2023-07-13T01:43:22Z","timestamp":1689212602000},"page":"119","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":2,"title":["Proteomic Shift in Mouse Embryonic Fibroblasts Pfa1 during Erastin, ML210, and BSO-Induced Ferroptosis"],"prefix":"10.3390","volume":"8","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3320-7764","authenticated-orcid":false,"given":"Olga M.","family":"Kudryashova","sequence":"first","affiliation":[{"name":"Neurotechnology Laboratory, Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, 117997 Moscow, Russia"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1592-257X","authenticated-orcid":false,"given":"Alexey M.","family":"Nesterenko","sequence":"additional","affiliation":[{"name":"Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, 117997 Moscow, Russia"}]},{"given":"Dmitry A.","family":"Korzhenevskii","sequence":"additional","affiliation":[{"name":"Neurotechnology Laboratory, Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, 117997 Moscow, Russia"}]},{"given":"Valeriy K.","family":"Sulyagin","sequence":"additional","affiliation":[{"name":"Faculty of Biology, Lomonosov Moscow State University, 119234 Moscow, Russia"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7902-9436","authenticated-orcid":false,"given":"Vasilisa M.","family":"Tereshchuk","sequence":"additional","affiliation":[{"name":"Neurotechnology Laboratory, Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, 117997 Moscow, Russia"},{"name":"Institute of Translational Medicine, Pirogov Russian National Research Medical University, 117997 Moscow, Russia"}]},{"given":"Vsevolod V.","family":"Belousov","sequence":"additional","affiliation":[{"name":"Neurotechnology Laboratory, Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, 117997 Moscow, Russia"},{"name":"Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, 117997 Moscow, Russia"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1769-4526","authenticated-orcid":false,"given":"Arina G.","family":"Shokhina","sequence":"additional","affiliation":[{"name":"Neurotechnology Laboratory, Federal Center of Brain Research and Neurotechnologies, Federal Medical Biological Agency, 117997 Moscow, Russia"},{"name":"Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Science, 117997 Moscow, Russia"},{"name":"Institute of Translational Medicine, Pirogov Russian National Research Medical University, 117997 Moscow, Russia"}]}],"member":"1968","published-online":{"date-parts":[[2023,7,12]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"266","DOI":"10.1038\/s41580-020-00324-8","article-title":"Ferroptosis: Mechanisms, Biology and Role in Disease","volume":"22","author":"Jiang","year":"2021","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"1021","DOI":"10.1038\/cr.2016.95","article-title":"Ferroptosis Is an Autophagic Cell Death Process","volume":"26","author":"Gao","year":"2016","journal-title":"Cell Res."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"1180","DOI":"10.1038\/ncb3064","article-title":"Inactivation of the Ferroptosis Regulator Gpx4 Triggers Acute Renal Failure in Mice","volume":"16","author":"Schneider","year":"2014","journal-title":"Nat. Cell Biol."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"920","DOI":"10.1016\/j.cmet.2020.10.011","article-title":"The Metabolic Underpinnings of Ferroptosis","volume":"32","author":"Zheng","year":"2020","journal-title":"Cell Metab."},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1016\/S1535-6108(03)00050-3","article-title":"Identification of Genotype-Selective Antitumor Agents Using Synthetic Lethal Chemical Screening in Engineered Human Tumor Cells","volume":"3","author":"Dolma","year":"2003","journal-title":"Cancer Cell"},{"key":"ref_6","doi-asserted-by":"crossref","first-page":"1060","DOI":"10.1016\/j.cell.2012.03.042","article-title":"Ferroptosis: An Iron-Dependent Form of Nonapoptotic Cell Death","volume":"149","author":"Dixon","year":"2012","journal-title":"Cell"},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"497","DOI":"10.1038\/s41589-020-0501-5","article-title":"Selective Covalent Targeting of GPX4 Using Masked Nitrile-Oxide Electrophiles","volume":"16","author":"Eaton","year":"2020","journal-title":"Nat. Chem. Biol."},{"key":"ref_8","doi-asserted-by":"crossref","unstructured":"Reichert, C.O., de Freitas, F.A., Sampaio-Silva, J., Rokita-Rosa, L., Barros, P.d.L., Levy, D., and Bydlowski, S.P. (2020). Ferroptosis Mechanisms Involved in Neurodegenerative Diseases. Int. J. Mol. Sci., 21.","DOI":"10.3390\/ijms21228765"},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"218","DOI":"10.3389\/fncel.2020.00218","article-title":"Ferroptosis in Neurological Diseases","volume":"14","author":"Ren","year":"2020","journal-title":"Front. Cell. Neurosci."},{"key":"ref_10","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1186\/s12943-022-01530-y","article-title":"Ferroptosis in Cancer Therapy: A Novel Approach to Reversing Drug Resistance","volume":"21","author":"Zhang","year":"2022","journal-title":"Mol. Cancer"},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/s12935-021-02366-0","article-title":"Induction and Application of Ferroptosis in Cancer Therapy","volume":"22","author":"Nie","year":"2022","journal-title":"Cancer Cell Int."},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"778","DOI":"10.1038\/s41586-022-05022-3","article-title":"A Non-Canonical Vitamin K Cycle Is a Potent Ferroptosis Suppressor","volume":"608","author":"Mishima","year":"2022","journal-title":"Nature"},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"603","DOI":"10.1038\/s41586-020-2732-8","article-title":"Plasticity of Ether Lipids Promotes Ferroptosis Susceptibility and Evasion","volume":"585","author":"Zou","year":"2020","journal-title":"Nature"},{"key":"ref_14","doi-asserted-by":"crossref","first-page":"237","DOI":"10.1016\/j.cmet.2008.07.005","article-title":"Glutathione Peroxidase 4 Senses and Translates Oxidative Stress into 12\/15-Lipoxygenase Dependent- and AIF-Mediated Cell Death","volume":"8","author":"Seiler","year":"2008","journal-title":"Cell Metab."},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"2397","DOI":"10.1021\/pr050160f","article-title":"Development and Evaluation of a Micro- and Nanoscale Proteomic Sample Preparation Method","volume":"4","author":"Wang","year":"2005","journal-title":"J. Proteome Res."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"537","DOI":"10.1021\/acs.jproteome.9b00328","article-title":"ThermoRawFileParser: Modular, Scalable, and Cross-Platform RAW File Conversion","volume":"19","author":"Hulstaert","year":"2020","journal-title":"J. Proteome Res."},{"key":"ref_17","doi-asserted-by":"crossref","first-page":"779","DOI":"10.1021\/ac051437y","article-title":"XCMS: Processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching and identification","volume":"78","author":"Smith","year":"2006","journal-title":"Anal. Chem."},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"1627","DOI":"10.1021\/ac60214a047","article-title":"Smoothing and differentiation of data by simplified least squares procedures","volume":"36","author":"Savitzky","year":"1964","journal-title":"Anal. Chem."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"513","DOI":"10.1038\/nmeth.4256","article-title":"MSFragger: Ultrafast and Comprehensive Peptide Identification in Mass Spectrometry\u2013Based Proteomics","volume":"14","author":"Kong","year":"2017","journal-title":"Nat. Methods"},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"869","DOI":"10.1038\/s41592-020-0912-y","article-title":"Philosopher: A Versatile Toolkit for Shotgun Proteomics Data Analysis","volume":"17","author":"Haynes","year":"2020","journal-title":"Nat. Methods"},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"5383","DOI":"10.1021\/ac025747h","article-title":"Empirical Statistical Model To Estimate the Accuracy of Peptide Identifications Made by MS\/MS and Database Search","volume":"74","author":"Keller","year":"2002","journal-title":"Anal. Chem."},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"4646","DOI":"10.1021\/ac0341261","article-title":"A Statistical Model for Identifying Proteins by Tandem Mass Spectrometry","volume":"75","author":"Nesvizhskii","year":"2003","journal-title":"Anal. Chem."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"100077","DOI":"10.1016\/j.mcpro.2021.100077","article-title":"IonQuant Enables Accurate and Sensitive Label-Free Quantification With FDR-Controlled Match-Between-Runs","volume":"20","author":"Yu","year":"2021","journal-title":"Mol. Cell. Proteomics"},{"key":"ref_24","doi-asserted-by":"crossref","first-page":"530","DOI":"10.1038\/nprot.2017.147","article-title":"Proteome-wide identification of ubiquitin interactions using UbIA-MS","volume":"13","author":"Zhang","year":"2018","journal-title":"Nat. Protocols"},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"109170","DOI":"10.1016\/j.dib.2023.109170","article-title":"Dataset on the proteomic response during ferroptosis induction via tamoxifen induced GPX4 KO in mouse embryonic fibroblasts","volume":"48","author":"Nesterenko","year":"2023","journal-title":"Data Brief"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"D543","DOI":"10.1093\/nar\/gkab1038","article-title":"The PRIDE Database Resources in 2022: A Hub for Mass Spectrometry-Based Proteomics Evidences","volume":"50","author":"Bai","year":"2022","journal-title":"Nucleic Acids Res."}],"container-title":["Data"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2306-5729\/8\/7\/119\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T20:11:43Z","timestamp":1760127103000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2306-5729\/8\/7\/119"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,7,12]]},"references-count":26,"journal-issue":{"issue":"7","published-online":{"date-parts":[[2023,7]]}},"alternative-id":["data8070119"],"URL":"https:\/\/doi.org\/10.3390\/data8070119","relation":{},"ISSN":["2306-5729"],"issn-type":[{"value":"2306-5729","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,7,12]]}}}