Chemical Proteomics

Lysine-specific demethylase 1A (LSD1) restricts ex vivo propagation of human HSCs and is a target of UM171

Subramaniam A, Žemaitis K, Safaee Talkhoncheh M, ..., Zubarev RA, Larsson J

Blood 136 (19) 2151-2161 [2020-06-24; online 2020-06-24]

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 - (-) canres.2069.2019 [2020-02-04; 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

pii: 10.1038/s41467-019-13931-7 pmc: PMC6952425

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

pmc: PMC6904653

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) - [2019-12-00; online 2019-12-16]

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]

Anticancer effect of deuterium depleted water - redox disbalance leads to oxidative stress.

Zhang X, Gaetani M, Chernobrovkin A, Zubarev RA

pii: RA119.001455

Mol. Cell Proteomics - (-) - [2019-09-13; online 2019-09-13]

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

PDB: 5OCK PDB: 5OCY PDB: 5OCX PDB: 5OD8 PDB: 5ODB PDB: 5OD0

Arthritis Rheumatol 71 (2) 210-221 [2019-02-00; online 2019-01-04]

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

Year 2018

Proteome Integral Stability Alteration assay dramatically increases throughput and sensitivity in profiling factor-induced proteome changes

Gaetani M, Sabatier P, Saei AA, ..., Lundstrom S, Zubarev RA

- - (-) - [2018-12-13; online 2018-12-13]

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 2018-11-15]

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 [2018-10-00; online 2018-10-00]

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

System-wide Identification and prioritization of Enzyme Substrates by Thermal Analysis (SIESTA)

Saei AA, Beusch C, Sabatier P, ..., Schuler H, Zubarev R

- - (-) - [2018-09-21; online 2018-09-21]

ProTargetMiner: A proteome signature library of anticancer molecules for functional discovery

Saei AA, Chernobrovkin A, Sabatier P, ..., Vegvari A, Zubarev R

- - (-) - [2018-09-18; online 2018-09-18]

New Promises of Chemical Proteomics for Drug Development

Year 2017

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

pii: 10.1038/s41598-017-01643-1 pmc: PMC5431558

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

pii: srep41929 pmc: PMC5294601

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

pii: JAHA.116.004415 pmc: PMC5210446

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

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

pii: 10.1007/s00726-016-2316-y pmc: PMC5107209

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

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

Validation and development of MTH1 inhibitors for treatment of cancer.

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

pii: mdw429

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]

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

pmc: PMC5108039

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

pii: 10.1007/s00726-016-2271-7

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

pmc: PMC5045961

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

pii: O115.055475 pmc: PMC4824868

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

Year 2015