Chemical Proteomics

Hepatocyte Thorns, A Novel Drug-Induced Stress Response in Human and Mouse Liver Spheroids.

Pridgeon CS, Bolhuis DP, Milosavljević F, ..., Jukić MM, Ingelman-Sundberg M

Cells 11 (10) - [2022-05-10; online 2022-05-10]

Ultrafast and selective labeling of endogenous proteins using affinity-based benzotriazole chemistry

Xin X, Zhang Y, Gaetani M, ..., Corkery DP, Wu YW

Chem. Sci. - (-) - [2022-00-00; online 2022-00-00] Open Access

Year 2021

The antimicrobial drug pyrimethamine inhibits STAT3 transcriptional activity by targeting the enzyme dihydrofolate reductase.

Heppler LN, Attarha S, Persaud R, ..., Page BDG, Frank DA

J. Biol. Chem. - (-) 101531 [2021-12-22; online 2021-12-22] Open Access

Ultralight ultrafast enzymes

Zhang X, Meng Z, Beusch C, ..., Gaetani M, Zubarev R

- - (-) - [2021-12-15; online 2021-12-15] Open Access

Proteome Integral Solubility Alteration (PISA) for High-Throughput Ligand Target Deconvolution with Increased Statistical Significance and Reduced Sample Amount (Book chapter)

Gaetani_M_and_Zubarev_RA

Methods in Molecular Biology in press (-) - [2021-12-09]

An integrative proteomics method identifies a regulator of translation during stem cell maintenance and differentiation.

Sabatier P, Beusch CM, Saei AA, ..., Rodin S, Zubarev RA

Nat Commun 12 (1) 6558 [2021-11-12; online 2021-11-12] Open Access

O-145 Green Tea catechins EGCG and pro-drug of EGCG (Pro-EGCG) inhibit endometriosis through targeting molecules regulating macrophages and B cells

Hung SW, Gaetani M, Tan ZYR, ..., Zubarev RA, Wang CC

Hum. Reprod. 36 (Supplement_1) - [2021-08-06; online 2021-08-06]

System-wide identification and prioritization of enzyme substrates by thermal analysis.

Saei AA, Beusch CM, Sabatier P, ..., Schüler H, Zubarev RA

Nat Commun 12 (1) 1296 [2021-02-26; online 2021-02-26] Open Access

Year 2020

Capillary leakage provides nutrients and antioxidants for rapid pneumococcal proliferation in influenza-infected lower airways.

Sender V, Hentrich K, Pathak A, ..., Normark S, Henriques-Normark B

Proc. Natl. Acad. Sci. U.S.A. 117 (49) 31386-31397 [2020-12-08; online 2020-11-23]

Bioinformatics Compute and Storage [Service] Chemical Proteomics [Collaborative]

Lysine-specific demethylase 1A restricts ex vivo propagation of human HSCs and is a target of UM171.

Subramaniam A, Žemaitis K, Talkhoncheh MS, ..., Zubarev RA, Larsson J

Blood 136 (19) 2151-2161 [2020-11-05; online 2020-06-26]

Bioinformatics Compute and Storage [Service] Chemical Proteomics [Collaborative]

Thermal Proteome Profiling Identifies Oxidative-Dependent Inhibition of the Transcription of Major Oncogenes as a New Therapeutic Mechanism for Select Anticancer Compounds.

Peuget S, Zhu J, Sanz G, ..., Zubarev R, Selivanova G

Cancer Res. 80 (7) 1538-1550 [2020-04-01; online 2020-02-04]

DAF-16/FOXO requires Protein Phosphatase 4 to initiate transcription of stress resistance and longevity promoting genes.

Sen I, Zhou X, Chernobrovkin A, ..., Zubarev RA, Riedel CG

Nat Commun 11 (1) 138 [2020-01-09; online 2020-01-09]

Bioinformatics Compute and Storage [Service] Chemical Proteomics [Service]

Tailoring subtractive cell biopanning to identify diffuse gastric adenocarcinoma-associated antigens via human scFv antibodies.

Mehdipour T, Tohidkia MR, Ata Saei A, ..., Zubarev RA, Nouri M

Immunology 159 (1) 96-108 [2020-01-00; online 2019-11-08]

Chemical Proteomics [Service]

Year 2019

ProTargetMiner as a proteome signature library of anticancer molecules for functional discovery

Saei AA, Beusch CM, Chernobrovkin A, ..., Végvári Á, Zubarev RA

Nat Commun 10 (1) 5715 [2019-12-00; online 2019-12-16]

Anticancer Effect of Deuterium Depleted Water - Redox Disbalance Leads to Oxidative Stress.

Zhang X, Gaetani M, Chernobrovkin A, Zubarev RA

Mol. Cell Proteomics 18 (12) 2373-2387 [2019-12-00; online 2019-09-13]

Proteome Integral Solubility Alteration: A High-Throughput Proteomics Assay for Target Deconvolution.

Gaetani M, Sabatier P, Saei AA, ..., Lundström SL, Zubarev RA

J. Proteome Res. 18 (11) 4027-4037 [2019-11-01; online 2019-10-14]

Proteome Integral Solubility Alteration: A High-Throughput Proteomics Assay for Target Deconvolution

Gaetani M, Sabatier P, Saei AA, ..., Lundström SL, Zubarev RA

J. Proteome Res. 18 (11) 4027-4037 [2019-11-01; online 2019-09-23]

Functional Identification of Target by Expression Proteomics (FITExP)

Gaetani M, Zubarev RA

- - (-) 257-266 [2019-08-13; online 2019-07-26]

SpotLight Proteomics-A IgG-Enrichment Phenotype Profiling Approach with Clinical Implications.

Lundström SL, Heyder T, Wiklundh E, ..., Grunewald J, Zubarev RA

Int J Mol Sci 20 (9) 2157 [2019-05-01; online 2019-05-01]

Structural Basis of Cross-Reactivity of Anti-Citrullinated Protein Antibodies.

Ge C, Xu B, Liang B, ..., Dobritzsch D, Holmdahl R

Arthritis & rheumatology (Hoboken, N.J.) 71 (2) 210-221 [2019-02-00; online 2019-01-04]

Chemical Proteomics [Collaborative] Protein Science Facility (PSF) [Service]

Year 2018

Small-molecule inhibitor of OGG1 suppresses proinflammatory gene expression and inflammation.

Visnes T, Cázares-Körner A, Hao W, ..., Boldogh I, Helleday T

Science 362 (6416) 834-839 [2018-11-16; online 2018-11-18]

Bioinformatics Compute and Storage [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Chemical Proteomics [Collaborative] Drug Discovery and Development (DDD) [Service] Protein Science Facility (PSF) [Service]

STAT3 differential scanning fluorimetry and differential scanning light scattering assays: Addressing a missing link in the characterization of STAT3 inhibitor interactions.

Desroses M, Busker S, Astorga-Wells J, ..., Grandér D, Page BDG

Journal of Pharmaceutical and Biomedical Analysis 160 (-) 80-88 [2018-10-25; online 2018-07-17]

Chemical Proteomics [Collaborative] Protein Science Facility (PSF) [Service]

Year 2017

New Promises of Chemical Proteomics for Drug Development

Gaetani M, Zubarev RA

Novel Approaches in Drug Designing & Development 2 (1) 555579 [2017-06-27]

Expression proteomics study to determine metallodrug targets and optimal drug combinations.

Lee RFS, Chernobrovkin A, Rutishauser D, ..., Zubarev RA, Dyson PJ

Sci Rep 7 (1) 1590 [2017-05-08; online 2017-05-08]

SpotLight Proteomics: uncovering the hidden blood proteome improves diagnostic power of proteomics.

Lundström SL, Zhang B, Rutishauser D, Aarsland D, Zubarev RA

Sci Rep 7 (-) 41929 [2017-02-07; online 2017-02-07]

Year 2016

Human IgM Antibodies to Malondialdehyde Conjugated With Albumin Are Negatively Associated With Cardiovascular Disease Among 60-Year-Olds.

Thiagarajan D, Frostegård AG, Singh S, ..., Lundström SL, Frostegård J

J Am Heart Assoc 5 (12) - [2016-12-20; online 2016-12-20]

Validation and development of MTH1 inhibitors for treatment of cancer.

Warpman Berglund U, Sanjiv K, Gad H, ..., Scobie M, Helleday T

Ann. Oncol. 27 (12) 2275-2283 [2016-12-00; online 2016-11-08]

Advanced Mass Spectrometry Proteomics [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Chemical Proteomics [Service] Clinical Proteomics Mass spectrometry [Collaborative] Drug Discovery and Development (DDD) [Collaborative]

Application of amide hydrogen/deuterium exchange mass spectrometry for epitope mapping in human cystatin C.

Prądzińska M, Behrendt I, Astorga-Wells J, ..., Rodziewicz-Motowidło S, Czaplewska P

Amino Acids 48 (12) 2809-2820 [2016-12-00; online 2016-08-29]

Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Collaborative]

Functional and Structural Characterization of a Novel HLA-DRB1*04:01-Restricted α-Enolase T Cell Epitope in Rheumatoid Arthritis.

Gerstner C, Dubnovitsky A, Sandin C, ..., Achour A, Malmström V

Front Immunol 7 (-) 494 [2016-11-14; online 2016-11-14]

Chemical Proteomics [Service]

Isolation and characterization of autoantibodies against human cystatin C.

Prądzińska M, Behrendt I, Spodzieja M, ..., Macur K, Czaplewska P

Amino Acids 48 (11) 2501-2518 [2016-11-00; online 2016-06-08]

Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Collaborative]

How well can morphology assess cell death modality? A proteomics study.

Chernobrovkin AL, Zubarev RA

Cell Death Discov 2 (-) 16068 [2016-10-03; online 2016-10-03]

Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Service]

Establishing a Proteomics-Based Monocyte Assay To Assess Differential Innate Immune Activation Responses.

Tarasova NK, Ytterberg AJ, Lundberg K, ..., Harris RA, Zubarev RA

J. Proteome Res. 15 (7) 2337-2345 [2016-07-01; online 2016-06-03]

Advanced Mass Spectrometry Proteomics [Collaborative] Chemical Proteomics [Technology development]

DeMix-Q: Quantification-Centered Data Processing Workflow.

Zhang B, Käll L, Zubarev RA

Mol. Cell Proteomics 15 (4) 1467-1478 [2016-04-00; online 2016-01-04]

Year 2015