Publisher Correction: Peptide-centric local stability assay (PELSA) for sensitive identification of ligand-targeting proteins and binding sites at proteome scale.

Wang K, Li K, Yan J, Xue L, Ma Y, Zhu H, Yu T, Wang Y, Savitski M, Ye M.

Nature protocols, 2026

doi:10.1038/s41596-026-01381-7.

Peptide-centric local stability assay (PELSA) for sensitive identification of ligand-targeting proteins and binding sites at proteome scale.

Wang K, Li K, Yan J, Xue L, Ma Y, Zhu H, Yu T, Wang Y, Savitski M, Ye M.

Nature protocols, 2026

doi:10.1038/s41596-026-01354-w.

Benchmarking EGF signaling pathway inference using phosphoproteomics and kinase-substrate interactions.

Garrido-Rodriguez M, Potel C, Burtscher ML, Becher I, Rodriguez-Mier P, Müller-Dott S, Savitski MM, Saez-Rodriguez J.

Nature communications, 2026

doi:10.1038/s41467-026-69332-0.

TRIM2 E3 ligase substrate discovery reveals zinc-mediated regulation of TMEM106B in the endolysosomal pathway.

Perez-Borrajero C, Stein F, Schweimer K, Rettel M, Schwarz JJ, Haberkant P, Lapouge K, Gayk J, Hoffmann T, Bhogaraju S, Noh KM, Savitski M, Mahamid J, Hennig J.

EMBO reports, 2026

doi:10.1038/s44319-025-00667-3.

High-throughput peptide-centric local stability assay extends protein-ligand identification to membrane proteins, tissues and bacteria.

Li K, Potel CM, Becher I, Hüttmann N, Garrido-Rodriguez M, Schwarz J, Burtscher ML, Savitski MM.

Nature structural & molecular biology, 2025

doi:10.1038/s41594-025-01699-y.

Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances.

Lindell AE, Grießhammer A, Michaelis L, Papagiannidis D, Ochner H, Kamrad S, Guan R, Blasche S, Ventimiglia LN, Ramachandran B, Ozgur H, Zelezniak A, Beristain-Covarrubias N, Yam-Puc JC, Roux I, Barron LP, Richardson AK, Martin MG, Benes V, Morone N, Thaventhiran JED, Bharat TAM, Savitski MM, Maier L, Patil KR.

Nature microbiology, 2025

doi:10.1038/s41564-025-02032-5.

Dynamic multi-omics and mechanistic modeling approach uncovers novel mechanisms of kidney fibrosis progression.

Tuechler N, Burtscher ML, Garrido-Rodriguez M, Khan MM, Türei D, Tischer C, Kaspar S, Schwarz JJ, Stein F, Rettel M, Kramann R, Savitski MM, Saez-Rodriguez J, Pepperkok R.

Molecular systems biology, 2025

doi:10.1038/s44320-025-00116-2.

Small-molecule dissolution of stress granules by redox modulation benefits ALS models.

Uechi H, Sridharan S, Nijssen J, Bilstein J, Iglesias-Artola JM, Kishigami S, Casablancas-Antras V, Poser I, Martinez EJ, Boczek E, Wagner M, Tomschke N, de Jesus Domingues AM, Pal A, Doeleman T, Kour S, Anderson EN, Stein F, Lee HO, Zhang X, Fritsch AW, Jahnel M, Fürsch J, Murthy AC, Alberti S, Bickle M, Fawzi NL, Nadler A, David DC, Pandey UB, Hermann A, Stengel F, Davis BG, Baldwin AJ, Savitski MM, Hyman AA, Wheeler RJ.

Nature chemical biology, 2025

doi:10.1038/s41589-025-01893-5.

Uncovering nitroxoline activity spectrum, mode of action and resistance across Gram-negative bacteria.

Cacace E, Tietgen M, Steinhauer M, Mateus A, Schultze TG, Eckermann M, Galardini M, Varik V, Koumoutsi A, Parzeller JJ, Corona F, Orakov A, Knopp M, Brauer-Nikonow A, Bork P, Romao CV, Zimmermann M, Cloetens P, Savitski MM, Typas A, Göttig S.

Nature communications, 2025

doi:10.1038/s41467-025-58730-5.

Uncovering protein glycosylation dynamics and heterogeneity using deep quantitative glycoprofiling (DQGlyco).

Potel CM, Burtscher ML, Garrido-Rodriguez M, Brauer-Nikonow A, Becher I, Le Sueur C, Typas A, Zimmermann M, Savitski MM.

Nature structural & molecular biology, 2025

doi:10.1038/s41594-025-01485-w.

Longitudinal omics data and preclinical treatment suggest the proteasome inhibitor carfilzomib as therapy for ibrutinib-resistant CLL.

Arseni L, Sigismondo G, Yazdanparast H, Hermansen JU, Mack N, Ohl S, Kalter V, Iskar M, Kalxdorf M, Friedel D, Rettel M, Paul Y, Ringshausen I, Eldering E, Dubois J, Kater AP, Zapatka M, Roessner PM, Tausch E, Stilgenbauer S, Dietrich S, Savitski MM, Skånland SS, Krijgsveld J, Lichter P, Seiffert M.

Nature communications, 2025

doi:10.1038/s41467-025-56318-7.

Dextromethorphan inhibits collagen and collagen-like cargo secretion to ameliorate lung fibrosis.

Khan MM, Galea G, Jung J, Zukowska J, Lauer D, Tuechler N, Halavatyi A, Tischer C, Haberkant P, Stein F, Jung F, Landry JJM, Khan AM, Oorschot V, Becher I, Neumann B, Muley T, Winter H, Duerr J, Mall MA, Grassi A, de la Cueva E, Benes V, Gote-Schniering J, Savitski M, Pepperkok R.

Science translational medicine, 2024

doi:10.1126/scitranslmed.adj3087.

Pervasive sublethal effects of agrochemicals on insects at environmentally relevant concentrations.

Gandara L, Jacoby R, Laurent F, Spatuzzi M, Vlachopoulos N, Borst NO, Ekmen G, Potel CM, Garrido-Rodriguez M, Böhmert AL, Misunou N, Bartmanski BJ, Li XC, Kutra D, Hériché JK, Tischer C, Zimmermann-Kogadeeva M, Ingham VA, Savitski MM, Masson JB, Zimmermann M, Crocker J.

Science (New York, N.Y.), 2024

doi:10.1126/science.ado0251.

Systematic analysis of drug combinations against Gram-positive bacteria.

Cacace E, Kim V, Varik V, Knopp M, Tietgen M, Brauer-Nikonow A, Inecik K, Mateus A, Milanese A, Mårli MT, Mitosch K, Selkrig J, Brochado AR, Kuipers OP, Kjos M, Zeller G, Savitski MM, Göttig S, Huber W, Typas A.

Nature microbiology, 2023

doi:10.1038/s41564-023-01486-9.

D-amino acids signal a stress-dependent run-away response in Vibrio cholerae.

Irazoki O, Ter Beek J, Alvarez L, Mateus A, Colin R, Typas A, Savitski MM, Sourjik V, Berntsson RP, Cava F.

Nature microbiology, 2023

doi:10.1038/s41564-023-01419-6.

Defining basic rules for hardening influenza A virus liquid condensates.

Etibor TA, Vale-Costa S, Sridharan S, Brás D, Becher I, Mello VH, Ferreira F, Alenquer M, Savitski MM, Amorim MJ.

eLife, 2023

doi:10.7554/elife.85182.

Deep thermal profiling for detection of functional proteoform groups.

Kurzawa N, Leo IR, Stahl M, Kunold E, Becher I, Audrey A, Mermelekas G, Huber W, Mateus A, Savitski MM, Jafari R.

Nature chemical biology, 2023

doi:10.1038/s41589-023-01284-8.

Control of protein stability by post-translational modifications.

Lee JM, Hammarén HM, Savitski MM, Baek SH.

Nature communications, 2023

doi:10.1038/s41467-023-35795-8.

Protein-Peptide Turnover Profiling reveals the order of PTM addition and removal during protein maturation.

Hammarén HM, Geissen EM, Potel CM, Beck M, Savitski MM.

Nature communications, 2022

doi:10.1038/s41467-022-35054-2.

Comparative chromatin accessibility upon BDNF stimulation delineates neuronal regulatory elements.

Ibarra IL, Ratnu VS, Gordillo L, Hwang IY, Mariani L, Weinand K, Hammarén HM, Heck J, Bulyk ML, Savitski MM, Zaugg JB, Noh KM.

Molecular systems biology, 2022

doi:10.15252/msb.202110473.

Systematic discovery of biomolecular condensate-specific protein phosphorylation.

Sridharan S, Hernandez-Armendariz A, Kurzawa N, Potel CM, Memon D, Beltrao P, Bantscheff M, Huber W, Cuylen-Haering S, Savitski MM.

Nature chemical biology, 2022

doi:10.1038/s41589-022-01062-y.

Bacterial retrons encode phage-defending tripartite toxin-antitoxin systems.

Bobonis J, Mitosch K, Mateus A, Karcher N, Kritikos G, Selkrig J, Zietek M, Monzon V, Pfalz B, Garcia-Santamarina S, Galardini M, Sueki A, Kobayashi C, Stein F, Bateman A, Zeller G, Savitski MM, Elfenbein JR, Andrews-Polymenis HL, Typas A.

Nature, 2022

doi:10.1038/s41586-022-05091-4.

Dendritic autophagy degrades postsynaptic proteins and is required for long-term synaptic depression in mice.

Kallergi E, Daskalaki AD, Kolaxi A, Camus C, Ioannou E, Mercaldo V, Haberkant P, Stein F, Sidiropoulou K, Dalezios Y, Savitski MM, Bagni C, Choquet D, Hosy E, Nikoletopoulou V.

Nature communications, 2022

doi:10.1038/s41467-022-28301-z.

Author Correction: A computational method for detection of ligand-binding proteins from dose range thermal proteome profiles.

Kurzawa N, Becher I, Sridharan S, Franken H, Mateus A, Anders S, Bantscheff M, Huber W, Savitski MM.

Nature communications, 2021

doi:10.1038/s41467-021-27561-5.

High-throughput functional characterization of protein phosphorylation sites in yeast.

Viéitez C, Busby BP, Ochoa D, Mateus A, Memon D, Galardini M, Yildiz U, Trovato M, Jawed A, Geiger AG, Oborská-Oplová M, Potel CM, Vonesch SC, Szu Tu C, Shahraz M, Stein F, Steinmetz LM, Panse VG, Noh KM, Savitski MM, Typas A, Beltrao P.

Nature biotechnology, 2021

doi:10.1038/s41587-021-01051-x.

Bioaccumulation of therapeutic drugs by human gut bacteria.

Klünemann M, Andrejev S, Blasche S, Mateus A, Phapale P, Devendran S, Vappiani J, Simon B, Scott TA, Kafkia E, Konstantinidis D, Zirngibl K, Mastrorilli E, Banzhaf M, Mackmull MT, Hövelmann F, Nesme L, Brochado AR, Maier L, Bock T, Periwal V, Kumar M, Kim Y, Tramontano M, Schultz C, Beck M, Hennig J, Zimmermann M, Sévin DC, Cabreiro F, Savitski MM, Bork P, Typas A, Patil KR.

Nature, 2021

doi:10.1038/s41586-021-03891-8.

The rise of proteome-wide biophysics.

Mateus A, Savitski MM, Piazza I.

Molecular systems biology, 2021

doi:10.15252/msb.202110442.

Structure of the mycobacterial ESX-5 type VII secretion system pore complex.

Beckham KSH, Ritter C, Chojnowski G, Ziemianowicz DS, Mullapudi E, Rettel M, Savitski MM, Mortensen SA, Kosinski J, Wilmanns M.

Science advances, 2021

doi:10.1126/sciadv.abg9923.

Impact of phosphorylation on thermal stability of proteins.

Potel CM, Kurzawa N, Becher I, Typas A, Mateus A, Savitski MM.

Nature methods, 2021

doi:10.1038/s41592-021-01177-5.

SARS-CoV-2 infection remodels the host protein thermal stability landscape.

Selkrig J, Stanifer M, Mateus A, Mitosch K, Barrio-Hernandez I, Rettel M, Kim H, Voogdt CGP, Walch P, Kee C, Kurzawa N, Stein F, Potel C, Jarzab A, Kuster B, Bartenschlager R, Boulant S, Beltrao P, Typas A, Savitski MM.

Molecular systems biology, 2021

doi:10.15252/msb.202010188.

Cell surface thermal proteome profiling tracks perturbations and drug targets on the plasma membrane.

Kalxdorf M, Günthner I, Becher I, Kurzawa N, Knecht S, Savitski MM, Eberl HC, Bantscheff M.

Nature methods, 2021

doi:10.1038/s41592-020-01022-1.

The functional proteome landscape of Escherichia coli.

Mateus A, Hevler J, Bobonis J, Kurzawa N, Shah M, Mitosch K, Goemans CV, Helm D, Stein F, Typas A, Savitski MM.

Nature, 2020

doi:10.1038/s41586-020-3002-5.

A computational method for detection of ligand-binding proteins from dose range thermal proteome profiles.

Kurzawa N, Becher I, Sridharan S, Franken H, Mateus A, Anders S, Bantscheff M, Huber W, Savitski MM.

Nature communications, 2020

doi:10.1038/s41467-020-19529-8.

Aggregation and disaggregation features of the human proteome.

Määttä TA, Rettel M, Sridharan S, Helm D, Kurzawa N, Stein F, Savitski MM.

Molecular systems biology, 2020

doi:10.15252/msb.20209500.

Dissecting the sequence determinants for dephosphorylation by the catalytic subunits of phosphatases PP1 and PP2A.

Hoermann B, Kokot T, Helm D, Heinzlmeir S, Chojnacki JE, Schubert T, Ludwig C, Berteotti A, Kurzawa N, Kuster B, Savitski MM, Köhn M.

Nature communications, 2020

doi:10.1038/s41467-020-17334-x.

Spatiotemporal proteomics uncovers cathepsin-dependent macrophage cell death during Salmonella infection.

Selkrig J, Li N, Hausmann A, Mangan MSJ, Zietek M, Mateus A, Bobonis J, Sueki A, Imamura H, El Debs B, Sigismondo G, Florea BI, Overkleeft HS, Kopitar-Jerala N, Turk B, Beltrao P, Savitski MM, Latz E, Hardt WD, Krijgsveld J, Typas A.

Nature microbiology, 2020

doi:10.1038/s41564-020-0736-7.

Meltome atlas-thermal proteome stability across the tree of life.

Jarzab A, Kurzawa N, Hopf T, Moerch M, Zecha J, Leijten N, Bian Y, Musiol E, Maschberger M, Stoehr G, Becher I, Daly C, Samaras P, Mergner J, Spanier B, Angelov A, Werner T, Bantscheff M, Wilhelm M, Klingenspor M, Lemeer S, Liebl W, Hahne H, Savitski MM, Kuster B.

Nature methods, 2020

doi:10.1038/s41592-020-0801-4.

Thermal proteome profiling for interrogating protein interactions.

Mateus A, Kurzawa N, Becher I, Sridharan S, Helm D, Stein F, Typas A, Savitski MM.

Molecular systems biology, 2020

doi:10.15252/msb.20199232.

Outer membrane lipoprotein NlpI scaffolds peptidoglycan hydrolases within multi-enzyme complexes in Escherichia coli.

Banzhaf M, Yau HC, Verheul J, Lodge A, Kritikos G, Mateus A, Cordier B, Hov AK, Stein F, Wartel M, Pazos M, Solovyova AS, Breukink E, van Teeffelen S, Savitski MM, den Blaauwen T, Typas A, Vollmer W.

The EMBO journal, 2020

doi:10.15252/embj.2019102246.

Thermal proteome profiling in bacteria: probing protein state in vivo.

Mateus A, Bobonis J, Kurzawa N, Stein F, Helm D, Hevler J, Typas A, Savitski MM.

Molecular systems biology, 2018

doi:10.15252/msb.20188242.

TRRAP is essential for regulating the accumulation of mutant and wild-type p53 in lymphoma.

Jethwa A, Słabicki M, Hüllein J, Jentzsch M, Dalal V, Rabe S, Wagner L, Walther T, Klapper W, MMML Network Project, Bohnenberger H, Rettel M, Lu J, Smits AH, Stein F, Savitski MM, Huber W, Aylon Y, Oren M, Zenz T.

Blood, 2018

doi:10.1182/blood-2017-09-806679.