Roman Zubarev

Publications
CV
Public outreach and news

Articles

Article: HEPATOLOGY. 2024;79(6):1337-1351

Wnt/β-catenin and NFκB signaling synergize to trigger growth-factor-free regeneration of adult primary human hepatocytes

Oliva-Vilarnau N; Beusch CM; Sabatier P; Sakaraki E; Tjaden A; Graetz L; Buettner FA; Dorotea D; Nguyen M; Bergqvist F; Sundstrom Y; Mueller S; Zubarev RA; Schulte G; Tredup C; Gramignoli R; Tietge UJF; Lauschke VM
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2024;63(3):e202316488

Ultralight Ultrafast Enzymes

Zhang X; Meng Z; Beusch CM; Gharibi H; Cheng Q; Lyu H; Di Stefano L; Wang J; Saei AA; Vegvari A; Gaetani M; Zubarev RA
Article: JOURNAL OF EXPERIMENTAL MEDICINE. 2023;220(11):e20230101

Antigen-presenting autoreactive B cells activate regulatory T cells and suppress autoimmune arthritis in mice

Aoun M; Coelho A; Kramer A; Saxena A; Sabatier P; Beusch CM; Lonnblom E; Geng M; Do N-N; Xu Z; Zhang J; He Y; Romero Castillo L; Abolhassani H; Xu B; Viljanen J; Rorbach J; Fernandez Lahore G; Gjertsson I; Kastbom A; Sjowall C; Kihlberg J; Zubarev RA; Burkhardt H; Holmdahl R
Article: EXPERIMENTAL HEMATOLOGY. 2023;127:40-51

Functional and molecular profiling of hematopoietic stem cells during regeneration

Rydstrom A; Grahn THM; Niroula A; Mansell E; van der Garde M; Pertesi M; Subramaniam A; Soneji S; Zubarev R; Enver T; Nilsson B; Miharada K; Larsson J; Karlssona S
Article: MOLECULES. 2023;28(20):7118

Tandem Mass Spectrometry de novo Sequencing of the Skin Defense Peptides of the Central Slovenian Agile Frog Rana dalmatina

Samgina TY; Vasileva ID; Trebse P; Torkar G; Surin AK; Meng Z; Zubarev RA; Lebedev AT
Article: NATURE COMMUNICATIONS. 2023;14(1):6243

GLP-1R signaling neighborhoods associate with the susceptibility to adverse drug reactions of incretin mimetics

Wright SC; Motso A; Koutsilieri S; Beusch CM; Sabatier P; Berghella A; Blondel-Tepaz E; Mangenot K; Pittarokoilis I; Sismanoglou D-C; Le Gouill C; Olsen JV; Zubarev RA; Lambert NA; Hauser AS; Bouvier M; Lauschke VM
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2023;34(10):2098-2106

Toward Single Bacterium Proteomics

Vegvari A; Zhang X; Zubarev RA
Article: JOURNAL OF PERIODONTAL RESEARCH. 2023;58(5):1061-1081

Proteomic profile of human gingival crevicular fluid reveals specific biological and molecular processes during clinical progression of periodontitis

Torres A; Michea MA; Vegvari A; Arce M; Morales A; Lanyon E; Alcota M; Fuentes C; Vernal R; Budini M; Zubarev RA; Gonzalez FE
Article: NATURE COMMUNICATIONS. 2023;14(1):5949

A subset of type-II collagen-binding antibodies prevents experimental arthritis by inhibiting FCGR3 signaling in neutrophils

Xu Z; Xu B; Lundstrom SL; Moreno-Giro A; Zhao D; Martin M; Lonnblom E; Li Q; Kramer A; Ge C; Cheng L; Liang B; Tong D; Stawikowska R; Blom AM; Fields GB; Zubarev RA; Holmdahl R
Article: MOLECULES. 2023;28(19):6768

Massive Solubility Changes in Neuronal Proteins upon Simulated Traumatic Brain Injury Reveal the Role of Shockwaves in Irreversible Damage

Saei AA; Gharibi H; Lyu H; Nilsson B; Jafari M; Von Holst H; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2023;34(9):1979-1988

EThcD Benefits for the Sequencing Inside Intramolecular Disulfide Cycles of Amphibian Intact Peptides

Vasileva IDD; Samgina TY; Meng Z; Zubarev RAA; Lebedev ATT
Article: CELLULAR AND MOLECULAR LIFE SCIENCES. 2023;80(9):268

Analysis of local extracellular matrix identifies different aetiologies behind bicuspid and tricuspid aortic valve degeneration and suggests therapies

Beusch CM; Simonson OE; Wedin JO; Sabatier P; Felldin U; Kadekar S; Osterholm C; Vegvari A; Zubarev RA; Fromell K; Nilson B; James S; Stahle E; Grinnemo K-H; Rodin S
Article: MOLECULAR & CELLULAR PROTEOMICS. 2023;22(7):100589

SpotLight Proteomics Identifies Variable Sequences of Blood Antibodies Specific Against Deamidated Human Serum Albumin

Wang J; Lundstroem SL; Lu W; Huang Y; Rodin S; Zubarev RA
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2023;120(25):e2218668120

Therapy targeting antigen-specific T cells by a peptide-based tolerizing vaccine against autoimmune arthritis

Urbonaviciute V; Romero-Castillo L; Xu B; Luo H; Schneider N; Weisse S; Do N-N; Oliveira-Coelho A; Lahore GF; Li T; Sabatier P; Beusch CM; Viljanen J; Zubarev RA; Kihlberg J; Baecklund J; Burkhardt H; Holmdahl R
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2023;62(24):e202216610

DOPA Residues Endow Collagen with Radical Scavenging Capacity

Kurth M; Barayeu U; Gharibi H; Kuzhelev A; Riedmiller K; Zilke J; Noack K; Denysenkov V; Kappl R; Prisner TF; Zubarev RA; Dick TP; Graeter F
Article: JCI INSIGHT. 2023;8(7):e164875

NCF1-dependent production of ROS protects against lupus by regulating plasmacytoid dendritic cell development and functions

Luo H; Urbonaviciute V; Saei AA; Lyu H; Gaetani M; Vegvari A; Li Y; Zubarev RA; Holmdahl R
Article: ALZHEIMERS & DEMENTIA. 2023;19(4):1491-1502

Testing the link between isoaspartate and Alzheimer's disease etiology

Wang J; Guo C; Meng Z; Zwan MD; Chen X; Seelow S; Lundstrom SL; Rodin S; Teunissen CE; Zubarev RA
Article: NATURE COMMUNICATIONS. 2023;14(1):691

A subset of antibodies targeting citrullinated proteins confers protection from rheumatoid arthritis

He Y; Ge C; Moreno-Giro A; Xu B; Beusch CM; Sandor K; Su J; Cheng L; Lonnblom E; Lundqvist C; Slot LM; Tong D; Urbonaviciute V; Liang B; Li T; Lahore GF; Aoun M; Malmstrom V; Rispens T; Ernfors P; Svensson CI; Scherer HU; Toes REM; Gjertsson I; Ekwall O; Zubarev RA; Holmdahl R
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2023;484:116984

Mass spectrometry in de novo sequencing of the skin peptides from Arkhangelsk, Russia Rana temporaria: The variability of secreted AMPs in different populations

Samgina TY; Vasilieva ID; Kozhevnikov AY; Meng Z; Zubarev RA; Lebedev AT
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2023;34(2):137-144

Analysis of Isotopically Depleted Proteins Derived from Escherichia coli and Caenorhabditis elegans Cell Lines by Liquid Chromatography 21 T Fourier Transform-Ion Cyclotron Resonance Mass Spectrometry

Popovic Z; Anderson LC; Zhang X; Butcher DS; Blakney GT; Zubarev RA; Marshall AG
Article: METHODS IN MOLECULAR BIOLOGY. 2023;2554:91-106

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

Gaetani M; Zubarev RA
Article: FRONTIERS IN IMMUNOLOGY. 2023;14:1149107

Brain endothelial cells exposure to malaria parasites links type I interferon signalling to antigen presentation, immunoproteasome activation, endothelium disruption, and cellular metabolism

Shafi AM; Vegvari A; Zubarev RA; Penha-Goncalves C
Article: FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY. 2023;13:1085908

Non-typeable Haemophilus influenzae major outer membrane protein P5 contributes to bacterial membrane stability, and affects the membrane protein composition crucial for interactions with the human host

Su Y-C; Kadari M; Straw MLL; Janouskova M; Jonsson S; Thofte O; Jalalvand F; Matuschek E; Sandblad L; Vegvari A; Zubarev RAA; Riesbeck K
Article: BIOMARKER RESEARCH. 2022;10(1):91

Deamidation-related blood biomarkers show promise for early diagnostics of neurodegeneration

Wang J; Zhang Y-R; Shen X-N; Han J; Cui M; Tan L; Dong Q; Zubarev RA; Yu J-T
Article: BIO-PROTOCOL. 2022;12(22):e4556

Proteome Integral Solubility Alteration (PISA) Assay in Mammalian Cells for Deep, High-Confidence, and High-Throughput Target Deconvolution

Zhang X; Lytovchenko O; Lundstrom SL; Zubarev RA; Gaetani M
Article: ANALYTICAL CHEMISTRY. 2022;94(45):15772-15780

System-Wide Profiling by Proteome Integral Solubility Alteration Assay of Drug Residence Times for Target Characterization

Sabatier P; Beusch CM; Meng Z; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2022;94(43):15048-15056

Proteomics-Compatible Fourier Transform Isotopic Ratio Mass Spectrometry of Polypeptides

Gharibi H; Chernobrovkin AL; Saei AA; Zhang X; Gaetani M; Makarov AA; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2022;33(10):1990-2007

The Omnitrap Platform: A Versatile Segmented Linear Ion Trap for Multidimensional Multiple-Stage Tandem Mass Spectrometry

Papanastasiou D; Kounadis D; Lekkas A; Orfanopoulos I; Mpozatzidis A; Smyrnakis A; Panagiotopoulos E; Kosmopoulou M; Reinhardt-Szyba M; Fort K; Makarov A; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2022;33(8):1480-1491

Mass Spectrometry Differentiation between Rana arvalis Populations Based on Their Skin Peptidome Composition

Samgina TY; Vasileva ID; Trebse P; Torkar G; Surin AK; Meng Z; Zubarev RA; Lebedev AT
Article: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. 2022;23(15):8371

First Experimental Evidence for Reversibility of Ammonia Loss from Asparagine

Wang J; Rodin S; Saei AA; Zhang X; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2022;94(26):9261-9269

Single-Cell Chemical Proteomics (SCCP) Interrogates the Timing and Heterogeneity of Cancer Cell Commitment to Death

Vegvari A; Rodriguez JE; Zubarev RA
Article: NATURE COMMUNICATIONS. 2022;13(1):3798

Biomarkers of nanomaterials hazard from multi-layer data

Fortino V; Kinaret PAS; Fratello M; Serra A; Saarimaki LA; Gallud A; Gupta G; Vales G; Correia M; Rasool O; Ytterberg J; Monopoli M; Skoog T; Ritchie P; Moya S; Vazquez-Campos S; Handy R; Grafstrom R; Tran L; Zubarev R; Lahesmaa R; Dawson K; Loeschner K; Larsen EH; Krombach F; Norppa H; Kere J; Savolainen K; Alenius H; Fadeel B; Greco D
Article: CHEMICAL SCIENCE. 2022;13(24):7240-7246

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

Xin X; Zhang Y; Gaetani M; Lundstrom SL; Zubarev RA; Zhou Y; Corkery DP; Wu Y-W
Article: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. 2022;23(13):6882

Haptoglobin Induces a Specific Proteomic Profile and a Mature-Associated Phenotype on Primary Human Monocyte-Derived Dendritic Cells

Torres A; Vivanco S; Lavin F; Pereda C; Chernobrovkin A; Gleisner A; Alcota M; Larrondo M; Lopez MN; Salazar-Onfray F; Zubarev RA; Gonzalez FE
Article: NATURE METABOLISM. 2022;4(6):739-758

Impaired oxygen-sensitive regulation of mitochondrial biogenesis within the von Hippel-Lindau syndrome

Li S; Li W; Yuan J; Bullova P; Wu J; Zhang X; Liu Y; Plescher M; Rodriguez J; Bedoya-Reina OC; Jannig PR; Valente-Silva P; Yu M; Henriksson MA; Zubarev RA; Smed-Sorensen A; Suzuki CK; Ruas JL; Holmberg J; Larsson C; Christofer Juhlin C; von Kriegsheim A; Cao Y; Schlisio S
Article: ELIFE. 2022;11:e74549

Redox regulation of PTPN22 affects the severity of T-cell-dependent autoimmune inflammation

James J; Chen Y; Hernandez CM; Forster F; Dagnell M; Cheng Q; Saei AA; Gharibi H; Lahore GF; astrand A; Malhotra R; Malissen B; Zubarev RA; Arner ESJ; Holmdahl R
Article: ANALYTICAL CHEMISTRY. 2022;94(19):7066-7074

Ion-Based Proteome-Integrated Solubility Alteration Assays for Systemwide Profiling of Protein-Molecule Interactions

Beusch CM; Sabatier P; Zubarev RA
Article: STRUCTURE. 2022;30(5):733-742.e7

A "spindle and thread"mechanism unblocks p53 translation N-terminal disorder

Kaldmae M; Vosselman T; Zhong X; Lama D; Chen G; Saluri M; Kronqvist N; Siau JW; Ng AS; Ghadessy FJ; Sabatier P; Vojtesek B; Sarr M; Sahin C; Osterlund N; Ilag LL; Vaananen VA; Sedimbi S; Arsenian-Henriksson M; Zubarev RA; Nilsson L; Koeck PJB; Rising A; Abelein A; Fritz N; Johansson J; Lane DP; Landreh M
Article: JOURNAL OF MASS SPECTROMETRY. 2022;57(4):e4822

A mass spectrometry-based non-radioactive differential radial capillary action of ligand assay (DRaCALA) to assess ligand binding to proteins

Cimdins-Ahne A; Chernobrovkin A; Kim S-K; Lee VT; Zubarev RA; Romling U
Article: ACS CATALYSIS. 2022;12(6):3397-3409

Conformational Selection in Biocatalytic Plastic Degradation by PETase

Guo B; Vanga SR; Lopez-Lorenzo X; Saenz-Mendez P; Ericsson SR; Fang Y; Ye X; Schriever K; Backstrom E; Biundo A; Zubarev RA; Furo I; Hakkarainen M; Syren P-O
Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 2022;144(6):2484-2487

Abnormal (Hydroxy)proline Deuterium Content Redefines Hydrogen Chemical Mass

Gharibi H; Chernobrovkin AL; Eriksson G; Saei AA; Timmons Z; Kitchener AC; Kalthoff DC; Liden K; Makarov AA; Zubarev RA
Article: JOURNAL OF BIOLOGICAL CHEMISTRY. 2022;298(2):101531

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

Heppler LN; Attarha S; Persaud R; Brown JI; Wang P; Petrova B; Tosic I; Burton FB; Flamand Y; Walker SR; Yeh JE; Zubarev RA; Gaetani M; Kanarek N; Page BDG; Frank DA
Article: METHODS IN MOLECULAR BIOLOGY. 2022;2386:113-127

Single Cell Proteomics Using Multiplexed Isobaric Labeling for Mass Spectrometric Analysis.

Végvári Á; Rodriguez JE; Zubarev RA
Article: FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY. 2022;12:984955

Protein domain-dependent vesiculation of Lipoprotein A, a protein that is important in cell wall synthesis and fitness of the human respiratory pathogen Haemophilus influenzae

Jalalvand F; Su Y-C; Manat G; Chernobrovkin A; Kadari M; Jonsson S; Janouskova M; Rutishauser D; Semsey S; Lobner-Olesen A; Sandblad L; Flardh K; Mengin-Lecreulx D; Zubarev RA; Riesbeck K
Article: FRONTIERS IN ONCOLOGY. 2022;12:852980

Comprehensive Target Screening and Cellular Profiling of the Cancer-Active Compound b-AP15 Indicate Abrogation of Protein Homeostasis and Organelle Dysfunction as the Primary Mechanism of Action

Gubat J; Selvaraju K; Sjoestrand L; Kumar Singh D; Turkina MV; Schmierer B; Sabatier P; Zubarev RA; Linder S; D'Arcy P
Article: NATURE COMMUNICATIONS. 2021;12(1):6558

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

Sabatier P; Beusch CM; Saei AA; Aoun M; Moruzzi N; Coelho A; Leijten N; Nordenskjold M; Micke P; Maltseva D; Tonevitsky AG; Millischer V; Villaescusa JC; Kadekar S; Gaetani M; Altynbekova K; Kel A; Berggren P-O; Simonson O; Grinnemo K-H; Holmdahl R; Rodin S; Zubarev RA
Article: REDOX BIOLOGY. 2021;48:102184

Comprehensive chemical proteomics analyses reveal that the new TRi-1 and TRi-2 compounds are more specific thioredoxin reductase 1 inhibitors than auranofin

Sabatier P; Beusch CM; Gencheva R; Cheng Q; Zubarev R; Arner ESJ
Article: MOLECULES. 2021;26(21):6709

First Immunoassay for Measuring Isoaspartate in Human Serum Albumin

Wang J; Lundstrom SL; Seelow S; Rodin S; Meng Z; Astorga-Wells J; Jia Q; Zubarev RA
Article: NATURE COMMUNICATIONS. 2021;12(1):5565

Polymorphic estrogen receptor binding site causes Cd2-dependent sex bias in the susceptibility to autoimmune diseases

Lahore GF; Forster M; Johannesson M; Sabatier P; Lonnblom E; Aoun M; He Y; Nandakumar KS; Zubarev RA; Holmdahl R
Article: ANALYTICAL AND BIOANALYTICAL CHEMISTRY. 2021;413(21):5333-5347

Differentiation of Central Slovenian and Moscow populations of Rana temporaria frogs using peptide biomarkers of temporins family

Samgina TY; Vasileva ID; Kovalev SV; Trebse P; Torkar G; Surin AK; Zubarev RA; Lebedev AT
Article: IRANIAN JOURNAL OF KIDNEY DISEASES. 2021;15(2):121-133

Predictive Biomarker Panel in Proliferative Lupus Nephritis, Two-Dimensional Shotgun

Ghasemi M; Kalantari S; Zubarev RA; Nafar M; Saei AA; Heidari S-S; Baghestani AR; Samavat S
Article: NATURE COMMUNICATIONS. 2021;12(1):1296

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

Saei AA; Beusch CM; Sabatier P; Wells JA; Gharibi H; Meng Z; Chernobrovkin A; Rodin S; Nareoja K; Thorsell A-G; Karlberg T; Cheng Q; Lundstrom SL; Gaetani M; Vegvari A; Arner ESJ; Schuler H; Zubarev RA
Article: CURRENT PROTOCOLS IN PROTEIN SCIENCE. 2020;102(1):e114

Histone Purification Combined with High-Resolution Mass Spectrometry to Examine Histone Post-Translational Modifications and Histone Variants in Caenorhabditis elegans.

Millan-Ariño L; Yuan Z-F; Oomen ME; Brandenburg S; Chernobrovkin A; Salignon J; Körner L; Zubarev RA; Garcia BA; Riedel CG
Article: LEUKEMIA. 2020;34(12):3323-3337

S100A6 is a critical regulator of hematopoietic stem cells

Grahn THM; Niroula A; Vegvari A; Oburoglu L; Pertesi M; Warsi S; Safi F; Miharada N; Garcia SC; Siva K; Liu Y; Rorby E; Nilsson B; Zubarev RA; Karlsson S
Article: SCANDINAVIAN JOURNAL OF IMMUNOLOGY. 2020;92(6):e12926

IL-16 processing in sentinel node regulatory T cells is a factor in bladder cancer immunity

Krantz D; Mints M; Winerdal M; Riklund K; Rutishauser D; Zubarev R; Zirakhzadeh AA; Alamdari F; Johansson M; Sherif A; Winqvist O
Article: BLOOD. 2020;136(19):2151-2161

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

Subramaniam A; Zemaitis K; Talkhoncheh MS; Yudovich D; Backstrom A; Debnath S; Chen J; Jain MV; Galeev R; Gaetani M; Zubarev RA; Larsson J
Article: MOLECULAR & CELLULAR PROTEOMICS. 2020;19(11):1790-1804

Slight Deuterium Enrichment in Water Acts as an Antioxidant: Is Deuterium a Cell Growth Regulator?

Zhang X; Wang J; Zubarev RA
Article: ADVANCED SCIENCE. 2020;7(22):2002221

Multiparametric Profiling of Engineered Nanomaterials: Unmasking the Surface Coating Effect

Gallud A; Delaval M; Kinaret P; Marwah VS; Fortino V; Ytterberg J; Zubarev R; Skoog T; Kere J; Correia M; Loeschner K; Al-Ahmady Z; Kostarelos K; Ruiz J; Astruc D; Monopoli M; Handy R; Moya S; Savolainen K; Alenius H; Greco D; Fadeel B
Article: ACS INFECTIOUS DISEASES. 2020;6(10):2672-2687

A Cyclic di-GMP Network Is Present in Gram-Positive Streptococcus and Gram-Negative Proteus Species

Liu Y; Lee C; Li F; Trcek J; Bahre H; Guo R-T; Chen C-C; Chernobrovkin A; Zubarev R; Romling U
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2020;117(40):24986-24997

Vitamin D3 receptor polymorphisms regulate T cells and T cell-dependent inflammatory diseases

Lahore GF; Raposo B; Lagerquist M; Ohlsson C; Sabatier P; Xu B; Aoun M; James J; Cai X; Zubarev RA; Nandakumar KS; Holmdahl R
Article: ANNALS OF THE RHEUMATIC DISEASES. 2020;79(9):1194-1202

Bacterial citrullinated epitopes generated by Porphyromonas gingivalis infection-a missing link for ACPA production

Jenning M; Marklein B; Ytterberg J; Zubarev RA; Joshua V; van Schaardenburg D; van de Stadt L; Catrina AI; Nonhoff U; Haupl T; Konthur Z; Burmester GR; Skriner K
Article: SCIENTIFIC REPORTS. 2020;10(1):13645

Changes in the plasma microvesicle proteome during the ovarian hyperstimulation phase of assisted reproductive technology

Olausson N; Mobarrez F; Zubarev R; Chernobrovkin A; Rutishauser D; Bremme K; Westerlund E; Hovatta O; Wallen H; Henriksson P
Article: SCIENTIFIC REPORTS. 2020;10(1):11010

IgM antibodies against malondialdehyde and phosphorylcholine in different systemic rheumatic diseases

Thiagarajan D; Oparina N; Lundstrom S; Zubarev R; Sun J; Alarcon-Riquelme M; Frostegard J
Article: REDOX BIOLOGY. 2020;32:101491

Comprehensive chemical proteomics for target deconvolution of the redox active drug auranofin

Saei AA; Gullberg H; Sabatier P; Beusch CM; Johansson K; Lundgren B; Arvidsson PI; Arner ESJ; Zubarev RA
Article: CANCER RESEARCH. 2020;80(7):1538-1550

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; Singh M; Gaetani M; Chen X; Shi Y; Saei AA; Visnes T; Lindstrom MS; Rihani A; Moyano-Galceran L; Carlson JW; Hjerpe E; Joneborg U; Lehti K; Hartman J; Helleday T; Zubarev R; Selivanova G
Article: ALGAL RESEARCH-BIOMASS BIOFUELS AND BIOPRODUCTS. 2020;46:101765

Nuclear proteome analysis of Chlamydomonas with response to CO₂ limitation

Arias C; Obudulu O; Zhao X; Ansolia P; Zhang X; Paul S; Bygdell J; Pirmoradian M; Zubarev RA; Samuelsson G; Wingsle G; Bajhaiya AK
Article: NATURE COMMUNICATIONS. 2020;11(1):138

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

Sen I; Zhou X; Chernobrovkin A; Puerta-Cavanzo N; Kanno T; Salignon J; Stoehr A; Lin X-X; Baskaner B; Brandenburg S; Bjorkegren C; Zubarev RA; Riedel CG
Article: IMMUNOLOGY. 2020;159(1):96-108

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

Mehdipour T; Tohidkia MR; Saei AA; Kazemi A; Khajeh S; Rahimi AAR; Nikfarjam S; Farhadi M; Halimi M; Soleimani R; Zubarev RA; Nouri M
Article: NATURE COMMUNICATIONS. 2019;10(1):5715

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

Saei AA; Beusch CM; Chernobrovkin A; Sabatier P; Zhang B; Tokat UG; Stergiou E; Gaetani M; Vegvari A; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2019;18(12):2373-2387

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

Zhang X; Gaetani M; Chernobrovkin A; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2019;18(11):4027-4037

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

Gaetani M; Sabatier P; Saei AA; Beusch CM; Yang Z; Lundstrom SL; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2019;30(10):2178-2182

The Russian Mass Spectrometry Interest Group at ASMS: Over 20 Years of Science and Water Polo

Tsybin YO; Bondarenko PV; Artaev VB; Zubarev RA; Costello CE
Article: APPLIED AND ENVIRONMENTAL MICROBIOLOGY. 2019;85(13):e00671-e00619

Posttranslational Targeting of a Recombinant Protein Promotes Its Efficient Secretion into the Escherichia coli Periplasm

Ytterberg AJ; Zubarev RA; Baumgarten T
Article: BIOCHIMIE. 2019;162:46-54

Repurposing of auranofin: Thioredoxin reductase remains a primary target of the drug

Zhang X; Selvaraju K; Saei AA; D'Arcy P; Zubarev RA; Arner ESJ; Linder S
Article: OXIDATIVE MEDICINE AND CELLULAR LONGEVITY. 2019;2019:1659468-11

Oxidative Stress Induced by the Deubiquitinase Inhibitor b-AP15 Is Associated with Mitochondrial Impairment

Zhang X; Espinosa B; Saei AA; D'Arcy P; Zubarev RA; Linder S
Article: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. 2019;20(9):E2157-2157

SpotLight ProteomicsA IgG-Enrichment Phenotype Profiling Approach with Clinical Implications

Lundstrom SL; Heyder T; Wiklundh E; Zhang B; Eklund A; Grunewald J; Zubarev RA
Article: CANCER LETTERS. 2019;448:70-83

Proteasome inhibitor b-AP15 induces enhanced proteotoxicity by inhibiting cytoprotective aggresome formation

Hillert E-K; Brnjic S; Zhang X; Mazurkiewicz M; Saei AA; Mofers A; Selvaraj K; Zubarev R; Linder S; D'Arcy P
Article: SCIENTIFIC REPORTS. 2019;9(1):4366

Cationic gold nanoparticles elicit mitochondrial dysfunction: a multi-omics study

Gallud A; Kloditz K; Ytterberg J; Ostberg N; Katayama S; Skoog T; Gogvadze V; Chen Y-Z; Xue D; Moya S; Ruiz J; Astruc D; Zubarev R; Kere J; Fadeel B
Article: ARTHRITIS & RHEUMATOLOGY. 2019;71(2):210-221

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

Ge C; Xu B; Liang B; Lonnblom E; Lundstrom SL; Zubarev RA; Ayoglu B; Nilsson P; Skogh T; Kastbom A; Malmstrom V; Klareskog L; Toes REM; Rispens T; Dobritzsch D; Holmdahl R
Article: JOURNAL OF CLINICAL PHARMACOLOGY. 2019;59(1):98-106

Pharmacoproteomics Profiling of Plasma From β-Thalassemia Patients in Response to Hydroxyurea Treatment

Zohaib M; Ansari SH; Shamsi TS; Zubarev RA; Zarina S
Article: BIOCHEMISTRY-MOSCOW. 2019;84(1):71-78

Brain Proteome of Drosophila melanogaster Is Enriched with Nuclear Proteins

Kuznetsova KG; Ivanov MV; Pyatnitskiy MA; Levitsky LI; Ilina IY; Chernobrovkin AL; Zubarev RA; Gorhskov MV; Moshkovskii SA
Article: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. 2018;20(1):E7-7

Proteomic Analysis of Mouse Brain Subjected to Spaceflight

Mao XW; Sandberg LB; Gridley DS; Herrmann EC; Zhang G; Raghavan R; Zubarev RA; Zhang B; Stodieck LS; Ferguson VL; Bateman TA; Pecaut MJ
Article: SCIENTIFIC REPORTS. 2018;8(1):17958

Patients with anti-Jo1 antibodies display a characteristic IgG Fc-glycan profile which is further enhanced in anti-Jo1 autoantibodies

Fernandes-Cerqueira C; Renard N; Notarnicola A; Wigren E; Graslund S; Zubarev RA; Lundberg IE; Lundstrom SL
Article: JOURNAL OF PROTEOME RESEARCH. 2018;17(12):4072-4084

Biology/Disease-Driven Initiative on Protein-Aggregation Diseases of the Human Proteome Project: Goals and Progress to Date

Boersema PJ; Melnik A; Hazenberg BPC; Rezeli M; Marko-Varga G; Kamiie J; Portelius E; Blennow K; Zubarev RA; Polymenidou M; Picotti P
Article: PROTEOMICS. 2018;18(24):e1800118

Dynamic Proteomics Reveals High Plasticity of Cellular Proteome: Growth-Related and Drug-Induced Changes in Cancer Cells are Comparable

Sabatier P; Saei AA; Wang S; Zubarev RA
Article: SCIENCE. 2018;362(6416):834-839

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

Visnes T; Cazares-Korner A; Hao W; Wallner O; Masuyer G; Loseva O; Mortusewicz O; Wiita E; Sarno A; Manoilov A; Astorga-Wells J; Jemth A-S; Pan L; Sanjiv K; Karsten S; Gokturk C; Grube M; Homan EJ; Hanna BMF; Paulin CBJ; Pham T; Rasti A; Berglund UW; von Nicolai C; Benitez-Buelga C; Koolmeister T; Ivanic D; Iliev P; Scobie M; Krokan HE; Baranczewski P; Artursson P; Altun M; Jensen AJ; Kalderen C; Ba X; Zubarev RA; Stenmark P; Boldogh I; Helleday T
Article: SCIENTIFIC REPORTS. 2018;8(1):16249

Isotopic resonance at 370 ppm deuterium negatively affects kinetics of luciferin oxidation by luciferase

Rodin S; Rebellato P; Lundin A; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2018;17(11):3889-3903

Proteogenomics of Adenosine-to-Inosine RNA Editing in the Fruit Fly

Kuznetsova KG; Kliuchnikova AA; Ilina IU; Chernobrovkin AL; Novikova SE; Farafonova TE; Karpov DS; Ivanov MV; Goncharov AO; Ilgisonis EV; Voronko OE; Nasaev SS; Zgoda VG; Zubarev RA; Gorshkov MV; Moshkovskii SA
Article: JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS. 2018;160:80-88

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; Attarha S; Kolosenko I; Zubarev RA; Helleday T; Grander D; Page BDG
Article: BIOCHEMICAL PHARMACOLOGY. 2018;156:291-301

The deubiquitinase inhibitor b-AP15 induces strong proteotoxic stress and Check for mitochondrial damage

Zhang X; Pellegrini P; Saei AA; Hillert E-K; Mazurkiewicz M; Olofsson MH; Zubarev RA; D'Arcy P; Linder S
Article: ERJ OPEN RESEARCH. 2018;4(3):33-2018

Altered Fc galactosylation in IgG4 is a potential serum marker for chronic lung disease

Heyder T; Wiklundh E; Eklund A; James A; Dahlen S-E; Grunewald J; Zubarev RA; Lundström SL
Article: APPLIED AND ENVIRONMENTAL MICROBIOLOGY. 2018;84(12):e00270-e00218

Optimizing Recombinant Protein Production in the Escherichia coli Periplasm Alleviates Stress

Baumgarten T; Ytterberg AJ; Zubarev RA; de Gier J-W
Article: MOLECULAR & CELLULAR PROTEOMICS. 2018;17(6):1144-1155

Comparative Proteomics of Dying and Surviving Cancer Cells Improves the Identification of Drug Targets and Sheds Light on Cell Life/Death Decisions

Saei AA; Sabatier P; Tokat UG; Chernobrovkin A; Pirmoradian M; Zubarev RA
Article: EUROPEAN JOURNAL OF IMMUNOLOGY. 2018;48(6):1030-1045

Variable domain N-linked glycosylation and negative surface charge are key features of monoclonal ACPA: Implications for B-cell selection

Lloyd KA; Steen J; Amara K; Titcombe PJ; Israelsson L; Lundstrom SL; Zhou D; Zubarev RA; Reed E; Piccoli L; Gabay C; Lanzavecchia A; Baeten D; Lundberg K; Mueller DL; Klareskog L; Malmstrom V; Gronwall C
Article: JOURNAL OF PROTEOME RESEARCH. 2018;17(5):1801-1811

Proteogenomics of Malignant Melanoma Cell Lines: The Effect of Stringency of Exome Data Filtering on Variant Peptide Identification in Shotgun Proteomics

Lobas AA; Pyatnitskiy MA; Chernobrovkin AL; Ilina IY; Karpov DS; Solovyeva EM; Kuznetsova KG; Ivanov MV; Lyssuk EY; Kliuchnikova AA; Voronko OE; Larin SS; Zubarev RA; Gorshkov MV; Moshkovskii SA
Article: JOURNAL OF MOLECULAR RECOGNITION. 2018;31(4)

Identification and characterization of antibodies elicited by human cystatin C fragment

Behrendt I; Pradzinska M; Spodzieja M; Czaplewska P; Kolodziejczyk AS; Szymanska A; Kasprzykowski F; Lundstrom SL; Zubarev RA; Rodziewicz-Motowidlo S
Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 2018;140(2):531-533

Size-Dependent Hydrogen Atom Attachment to Gas-Phase Hydrogen-Deficient Polypeptide Radical Cations

Di Stefano LH; Papanastasiou D; Zubarev RA
Article: NUCLEIC ACIDS RESEARCH. 2018;46(D1):D1237-D1247

The SysteMHC Atlas project

Shao W; Pedrioli PGA; Wolski W; Scurtescu C; Schmid E; Vizcaino JA; Courcelles M; Schuster H; Kowalewski D; Marino F; Arlehamn CSL; Vaughan K; Peters B; Sette A; Ottenhoff THM; Meijgaarden KE; Nieuwenhuizen N; Kaufmann SHE; Schlapbach R; Castle JC; Nesvizhskii AI; Nielsen M; Deutsch EW; Campbell DS; Moritz RL; Zubarev RA; Ytterberg AJ; Purcell AW; Marcilla M; Paradela A; Wang Q; Costello CE; Ternette N; van Veelen PA; van Els CACM; Heck AJR; de Souza GA; Sollid LM; Admon A; Stevanovic S; Rammensee H-G; Thibault P; Perreault C; Bassani-Sternberg M; Aebersold R; Caron E
Article: FRONTIERS IN IMMUNOLOGY. 2018;9:1623

Streptococcal Endo-β-N-Acetylglucosaminidase Suppresses Antibody-Mediated Inflammation In Vivo

Nandakumar KS; Collin M; Happonen KE; Lundstrom SL; Croxford AM; Xu B; Zubarev RA; Rowley MJ; Blom AM; Kjellmans C; Holmdahl R
Article: JOURNAL OF IMMUNOLOGY RESEARCH. 2018;2018:3982942-15

Proteomic Identification of Heat Shock-Induced Danger Signals in a Melanoma Cell Lysate Used in Dendritic Cell-Based Cancer Immunotherapy

Gonzalez FE; Chernobrovkin A; Pereda C; Garcia-Salum T; Tittarelli A; Lopez MN; Salazar-Onfray F; Zubarev RA
Article: ATHEROSCLEROSIS. 2018;268:36-48

IgM antibodies against phosphorylcholine promote polarization of T regulatory cells from patients with atherosclerotic plaques, systemic lupus erythematosus and healthy donors

Sun J; Lundstrom SL; Zhang B; Zubarev RA; Steuer J; Gillgren P; Rahman M; Ajeganova S; Liu A; Frostegard J
Article: JOURNAL OF AUTOIMMUNITY. 2017;84:29-45

Autoreactivity to malondialdehyde-modifications in rheumatoid arthritis is linked to disease activity and synovial pathogenesis

Gronwall C; Amara K; Hardt U; Krishnamurthy A; Steen J; Engstrom M; Sun M; Ytterberg AJ; Zubarev RA; Scheel-Toellner D; Greenberg JD; Klareskog L; Catrina AI; Malmstrom V; Silverman GJ
Article: ARTHRITIS RESEARCH & THERAPY. 2017;19(1):182

IgG Fc galactosylation predicts response to methotrexate in early rheumatoid arthritis

Lundstrom SL; Hensvold AH; Rutishauser D; Klareskog L; Ytterberg AJ; Zubarev RA; Catrina AI
Article: DISCOVERIES (CRAIOVA). 2017;5(1):e72

Self-assembly of Deinococcus radiodurans supports nanocell scenario of life origin.

Bernadotte A; Semenova V; Musial VAM; Kasprzykowska A; Zubarev RA
Article: SCIENTIFIC REPORTS. 2017;7(1):1590

Expression proteomics study to determine metallodrug targets and optimal drug combinations

Lee RFS; Chernobrovkin A; Rutishauser D; Allardyce CS; Hacker D; Johnsson K; Zubarev RA; Dyson PJ
Article: MOLECULAR & CELLULAR PROTEOMICS. 2017;16(5):936-948

Covariation of Peptide Abundances Accurately Reflects Protein Concentration Differences

Zhang B; Pirmoradian M; Zubarev R; Kall L
Article: SCIENTIFIC REPORTS. 2017;7:41929

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

Lundstrom SL; Zhang B; Rutishauser D; Aarsland D; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2017;16(2):689-697

Cytotoxic and Proinflammatory Effects of Metal-Based Nanoparticles on THP-1 Monocytes Characterized by Combined Proteomics Approaches

Tarasova NK; Gallud A; Ytterberg AJ; Chernobrovkin A; Aranzaes JR; Astruc D; Antipov A; Fedutik Y; Fadeel B; Zubarev RA
Article: PLOS ONE. 2017;12(1):e0169296

On the Effect of Planetary Stable Isotope Compositions on Growth and Survival of Terrestrial Organisms

Xie X; Zubarev RA
Article: JOURNAL OF THE AMERICAN HEART ASSOCIATION. 2016;5(12):e004415

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

Thiagarajan D; Frostegard AG; Singh S; Rahman M; Liu A; Vikstrom M; Leander K; Gigante B; Hellenius M-L; Zhang B; Zubarev RA; de Faire U; Lundstrom SL; Frostegard J
Article: DISCOVERIES (CRAIOVA). 2016;4(4):e67

Isoelectric point region pI≈7.4 as a treasure island of abnormal proteoforms in blood.

Pirmoradian M; Aarsland D; Zubarev RA
Article: AMINO ACIDS. 2016;48(12):2809-2820

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

Pradzinska M; Behrendt I; Astorga-Wells J; Manoilov A; Zubarev RA; Kolodziejczyk AS; Rodziewicz-Motowidlo S; Czaplewska P
Article: ANNALS OF ONCOLOGY. 2016;27(12):2275-2283

Validation and development of MTH1 inhibitors for treatment of cancer

Berglund UW; Sanjiv K; Gad H; Kalderen C; Koolmeister T; Pham T; Gokturk C; Jafari R; Maddalo G; Seashore-Ludlow B; Chernobrovkin A; Manoilov A; Pateras IS; Rasti A; Jemth A-S; Almlof I; Loseva O; Visnes T; Einarsdottir BO; Gaugaz FZ; Saleh A; Platzack B; Wallner OA; Vallin KSA; Henriksson M; Wakchaure P; Borhade S; Herr P; Kallberg Y; Baranczewski P; Homan EJ; Wiita E; Nagpal V; Meijer T; Schipper N; Rudd SG; Brautigam L; Lindqvist A; Filppula A; Lee T-C; Artursson P; Nilsson JA; Gorgoulis VG; Lehtio J; Zubarev RA; Scobie M; Helleday T
Article: AMINO ACIDS. 2016;48(11):2501-2518

Isolation and characterization of autoantibodies against human cystatin C

Pradzinska M; Behrendt I; Spodzieja M; Kolodziejczyk AS; Rodziewicz-Motowidlo S; Szymanska A; Lundstrom SL; Zubarev RA; Macur K; Czaplewska P
Article: MOLECULAR & CELLULAR PROTEOMICS. 2016;15(9):3017-3029

Approach for Identifying Human Leukocyte Antigen (HLA)-DR Bound Peptides from Scarce Clinical Samples

Heyder T; Kohler M; Tarasova NK; Haag S; Rutishauser D; Rivera NV; Sandin C; Mia S; Malmstrom V; Wheelock AM; Wahlstrom J; Holmdahl R; Eklund A; Zubarev RA; Grunewald J; Ytterberg AJ
Article: JOURNAL OF BIOLOGICAL CHEMISTRY. 2016;291(35):18410-18418

Phosphorylation of Leukotriene C₄ Synthase at Serine 36 Impairs Catalytic Activity

Ahmad S; Ytterberg AJ; Thulasingam M; Tholander F; Bergman T; Zubarev R; Wetterholm A; Rinaldo-Matthis A; Haeggstrom JZ
Article: JOURNAL OF PROTEOME RESEARCH. 2016;15(7):2337-2345

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

Tarasova NK; Ytterberg AJ; Lundberg K; Zhang X-M; Harris RA; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2016;15(4):1467-1478

DeMix-Q: Quantification-Centered Data Processing Workflow

Zhang B; Kall L; Zubarev RA
Article: FRONTIERS IN IMMUNOLOGY. 2016;7:494

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; Kozhukh G; Uchtenhagen H; James EA; Ronnelid J; Ytterberg AJ; Pieper J; Reed E; Tandre C; Rieck M; Zubarev RA; Ronnblom L; Sandalova T; Buckner JH; Achour A; Malmstrom V
Article: CELL DEATH DISCOVERY. 2016;2:16068

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

Chernobrovkin AL; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2015;14(12):5283-5290

Subset of Kappa and Lambda Germline Sequences Result in Light Chains with a Higher Molecular Mass Phenotype

Barnidge DR; Lundstrom SL; Zhang B; Dasari S; Murray DL; Zubarev RA
Article: ARTHRITIS & RHEUMATOLOGY. 2015;67(12):3135-3145

Release of Active Peptidyl Arginine Deiminases by Neutrophils Can Explain Production of Extracellular Citrullinated Autoantigens in Rheumatoid Arthritis Synovial Fluid

Spengler J; Lugonja B; Ytterberg AJ; Zubarev RA; Creese AJ; Pearson MJ; Grant MM; Milward M; Lundberg K; Buckley CD; Filer A; Raza K; Cooper PR; Chapple IL; Scheel-Toellner D
Article: JOURNAL OF CLINICAL INVESTIGATION. 2015;125(12):4612-4624

Development of autoantibodies against muscle-specific FHL1 in severe inflammatory myopathies

Albrecht I; Wick C; Hallgren A; Tjarnlund A; Nagaraju K; Andrade F; Thompson K; Coley W; Phadke A; Diaz-Gallo L-M; Bottai M; Nennesmo I; Chemin K; Herrath J; Johansson K; Wikberg A; Ytterberg AJ; Zubarev RA; Danielsson O; Krystufkova O; Vencovsky J; Landegren N; Wahren-Herlenius M; Padyukov L; Kampe O; Lundberg IE
Article: ANALYTICAL CHEMISTRY. 2015;87(23):11840-11846

Multijunction Capillary Isoelectric Focusing Device Combined with Online Membrane-Assisted Buffer Exchanger Enables Isoelectric Point Fractionation of Intact Human Plasma Proteins for Biomarker Discovery

Pirmoradian M; Astorga-Wells J; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2015;14(10):4179-4193

Limited Proteolysis Combined with Stable Isotope Labeling Reveals Conformational Changes in Protein (Pseudo)kinases upon Binding Small Molecules

Di Michele M; Stes E; Vandermarliere E; Arora R; Astorga-Wells J; Vandenbussche J; van Heerde E; Zubarev R; Bonnet P; Linders JTM; Jacoby E; Brehmer D; Martens L; Gevaert K
Article: SCIENTIFIC REPORTS. 2015;5:14338

Primordial soup was edible: abiotically produced Miller-Urey mixture supports bacterial growth

Xie X; Backman D; Lebedev AT; Artaev VB; Jiang L; Ilag LL; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2015;14(9):3940-3947

Proteomics Reveals a Role for Attachment in Monocyte Differentiation into Efficient Proinflammatory Macrophages

Tarasova NK; Ytterberg AJ; Lundberg K; Zhang X-M; Harris RA; Zubarev RA
Article: PLANT SCIENCE. 2015;238:323-329

Novel proline-hydroxyproline glycopeptides from the dandelion (Taraxacum officinale Wigg.) flowers: de novo sequencing and biological activity

Astafieva AA; Enyenihi AA; Rogozhin EA; Kozlov SA; Grishin EV; Odintsova TI; Zubarev RA; Egorov TA
Article: ANNALS OF THE RHEUMATIC DISEASES. 2015;74(9):1772-1777

Shared immunological targets in the lungs and joints of patients with rheumatoid arthritis: identification and validation

Ytterberg AJ; Joshua V; Reynisdottir G; Tarasova NK; Rutishauser D; Ossipova E; Hensvold AH; Eklund A; Skold CM; Grunewald J; Malmstrom V; Jakobsson PJ; Ronnelid J; Padyukov L; Zubarev RA; Klareskog L; Catrina AI
Article: ONCOTARGET. 2015;6(25):21740-21754

Molecular profiling of prostate cancer derived exosomes may reveal a predictive signature for response to docetaxel

Kharaziha P; Chioureas D; Rutishauser D; Baltatzis G; Lennartsson L; Fonseca P; Azimi A; Hultenby K; Zubarev R; Ullen A; Yachnin J; Nilsson S; Panaretakis T
Article: DISCOVERIES (CRAIOVA). 2015;3(3):e50

An updated h-index measures both the primary and total scientific output of a researcher.

Bucur O; Almasan A; Zubarev R; Friedman M; Nicolson GL; Sumazin P; Leabu M; Nikolajczyk BS; Avram D; Kunej T; Calin GA; Godwin AK; Adami H-O; Zaphiropoulos PG; Richardson DR; Schmitt-Ulms G; Westerblad H; Keniry M; Grau GER; Carbonetto S; Stan RV; Popa-Wagner A; Takhar K; Baron BW; Galardy PJ; Yang F; Data D; Fadare O; Yeo KJ; Gabreanu GR; Andrei S; Soare GR; Nelson MA; Liehn EA
Article: SCIENTIFIC REPORTS. 2015;5:11176

Functional Identification of Target by Expression Proteomics (FITExP) reveals protein targets and highlights mechanisms of action of small molecule drugs

Chernobrovkin A; Marin-Vicente C; Visa N; Zubarev RA
Article: INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY. 2015;61:34-45

Effect of host plant and immune challenge on the levels of chemosensory and odorant-binding proteins in caterpillar salivary glands

Celorio-Mancera MDLP; Ytterberg AJ; Rutishauser D; Janz N; Zubarev RA
Article: IRANIAN JOURNAL OF KIDNEY DISEASES. 2015;9(3):239-248

Diagnostic Urinary Proteome Profile for Immunoglobulin A Nephropathy

Samavat S; Kalantari S; Nafar M; Rutishauser D; Rezaei-Tavirani M; Parvin M; Zubarev RA
Article: SCIENTIFIC REPORTS. 2015;5:9215

Isotopic Resonance Hypothesis: Experimental Verification by Escherichia coli Growth Measurements

Xie X; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2014;28(23):2595-2604

Mass spectrometric de novo sequencing of natural non-tryptic peptides: comparing peculiarities of collision-induced dissociation (CID) and high energy collision dissociation (HCD)

Samgina TY; Vorontsov EA; Gorshkov VA; Artemenko KA; Zubarev RA; Lebedev AT
Article: MOLECULAR & CELLULAR PROTEOMICS. 2014;13(11):3211-3223

DeMix Workflow for Efficient Identification of Cofragmented Peptides in High Resolution Data-dependent Tandem Mass Spectrometry

Zhang B; Pirmoradian M; Chernobrovkin A; Zubarev RA
Article: BMC NEPHROLOGY. 2014;15:141

Predictive urinary biomarkers for steroid-resistant and steroid-sensitive focal segmental glomerulosclerosis using high resolution mass spectrometry and multivariate statistical analysis

Kalantari S; Nafar M; Rutishauser D; Samavat S; Rezaei-Tavirani M; Yang H; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2014;86(12):5728-5732

Membrane-Assisted lsoelectric Focusing Device As a Micropreparative Fractionator for Two-Dimensional Shotgun Proteomics

Pirmoradian M; Zhang B; Chingin K; Astorga-Wells J; Zubarev RA
Article: JOURNAL OF ALZHEIMERS DISEASE. 2014;40(3):659-666

Prognostic Polypeptide Blood Plasma Biomarkers of Alzheimer's Disease Progression

Yang H; Lyutvinskiy Y; Herukka S-K; Soininen H; Rutishauser D; Zubarev RA
Article: BIOTECHNOLOGY AND BIOENGINEERING. 2014;111(4):748-760

Cell Line Profiling to Improve Monoclonal Antibody Production

Kang S; Ren D; Xiao G; Daris K; Buck L; Enyenihi AA; Zubarev R; Bondarenko PV; Deshpande R
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2014;111(11):4227-4232

Binding of Pro-Gly-Pro at the active site of leukotriene A₄ hydrolase/aminopeptidase and development of an epoxide hydrolase selective inhibitor

Stsiapanava A; Olsson U; Wan M; Kleinschmidt T; Rutishauser D; Zubarev RA; Samuelsson B; Rinaldo-Matthis A; Haeggstrom JZ
Article: NEPHRO-UROLOGY MONTHLY. 2014;6(2):e16806

Urinary prognostic biomarkers in patients with focal segmental glomerulosclerosis.

Kalantari S; Nafar M; Samavat S; Rezaei-Tavirani M; Rutishauser D; Zubarev R
Article: PLOS GENETICS. 2014;10(2):e1004151

Natural Polymorphisms in Tap2 Influence Negative Selection and CD4:CD8 Lineage Commitment in the Rat

Tuncel J; Haag S; Yau ACY; Norin U; Baud A; Lonnblom E; Maratou K; Ytterberg AJ; Ekman D; Thordardottir S; Johannesson M; Gillett A; Stridh P; Jagodic M; Olsson T; Fernandez-Teruel A; Zubarev RA; Mott R; Aitman TJ; Flint J; Holmdahl R
Article: ANALYTICAL CHEMISTRY. 2014;86(1):372-379

Fragmentation of Positively-Charged Biological Ions Activated with a Beam of High-Energy Cations

Chingin K; Makarov A; Denisov E; Rebrov O; Zubarev RA
Article: INTERNATIONAL JOURNAL OF NEPHROLOGY. 2014;2014:574261-10

The novel diagnostic biomarkers for focal segmental glomerulosclerosis.

Nafar M; Kalantari S; Samavat S; Rezaei-Tavirani M; Rutishuser D; Zubarev RA
Article: ANNALS OF THE RHEUMATIC DISEASES. 2014;73(1):263-269

Heightened immune response to autocitrullinated Porphyromonas gingivalis peptidylarginine deiminase: a potential mechanism for breaching immunologic tolerance in rheumatoid arthritis

Quirke A-M; Lugli EB; Wegner N; Hamilton BC; Charles P; Chowdhury M; Ytterberg AJ; Zubarev RA; Potempa J; Culshaw S; Guo Y; Fisher BA; Thiele G; Mikuls TR; Venables PJW
Article: PLOS ONE. 2014;9(3):e91433

Detection of Viral Proteins in Human Cells Lines by Xeno-Proteomics: Elimination of the Last Valid Excuse for Not Testing Every Cellular Proteome Dataset for Viral Proteins

Chernobrovkin AL; Zubarev RA
Article: PLOS ONE. 2014;9(11):e113924

IgG Antibodies to Cyclic Citrullinated Peptides Exhibit Profiles Specific in Terms of IgG Subclasses, Fc-Glycans and a Fab-Peptide Sequence

Lundstrom SL; Fernandes-Cerqueira C; Ytterberg AJ; Ossipova E; Hensvold AH; Jakobsson P-J; Malmstrom V; Catrina AI; Klareskog L; Lundberg K; Zubarev RA
Article: PLOS ONE. 2014;9(7):e102071

Effects of Low-Level Deuterium Enrichment on Bacterial Growth

Xie X; Zubarev RA
Article: ALLERGY. 2014;69(1):104-112

Protein biomarkers in vernix with potential to predict the development of atopic eczema in early childhood

Holm T; Rutishauser D; Kai-Larsen Y; Lyutvinskiy Y; Stenius F; Zubarev RA; Agerberth B; Alm J; Scheynius A
Article: ACTA CRYSTALLOGRAPHICA SECTION D: BIOLOGICAL CRYSTALLOGRAPHY. 2013;69(Pt 12):2563-2579

Structural basis of SUFU-GLI interaction in human Hedgehog signalling regulation

Cherry AL; Finta C; Karlstrom M; Jin Q; Schwend T; Astorga-Wells J; Zubarev RA; Del Campo M; Criswell AR; de Sanctis D; Jovine L; Toftgard R
Article: JOURNAL OF ALZHEIMERS DISEASE. 2013;38(3):567-579

Blood Plasma IgG Fc Glycans are Significantly Altered in Alzheimer's Disease and Progressive Mild Cognitive Impairment

Lundstrom SL; Yang H; Lyutvinskiy Y; Rutishauser D; Herukka S-K; Soininen H; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2013;24(11):1671-1675

N-Terminal Peptide Sequence Repetition Influences the Kinetics of Backbone Fragmentation: A Manifestation of the Jahn-Teller Effect?

Good DM; Yang H; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2013;12(11):3330-3338

Rapid and Deep Human Proteome Analysis by Single-dimension Shotgun Proteomics

Pirmoradian M; Budamgunta H; Chingin K; Zhang B; Astorga-Wells J; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2013;12(10):4566-4576

Brain Proteomics Supports the Role of Glutamate Metabolism and Suggests Other Metabolic Alterations in Protein L-Isoaspartyl Methyltransferase (PIMT)-Knockout Mice

Yang H; Lowenson JD; Clarke S; Zubarev RA
Article: JOURNAL OF ALZHEIMERS DISEASE. 2013;37(2):297-308

Shotgun Brain Proteomics Reveals Early Molecular Signature in Presymptomatic Mouse Model of Alzheimer's Disease

Yang H; Wittnam JL; Zubarev RA; Bayer TA
Article: GENOMICS PROTEOMICS & BIOINFORMATICS. 2013;11(4):219-229

In silico proteome-wide amino aCid and elemental composition (PACE) analysis of expression proteomics data provides a fingerprint of dominant metabolic processes.

Good DM; Mamdoh A; Budamgunta H; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2013;12(8):2324-2331

In Silico Instrumental Response Correction Improves Precision of Label-free Proteomics and Accuracy of Proteomics-based Predictive Models

Lyutvinskiy Y; Yang H; Rutishauser D; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2013;24(7):1037-1044

Collision-Induced Dissociation Fragmentation Inside Disulfide C-Terminal Loops of Natural Non-Tryptic Peptides

Samgina TY; Vorontsov EA; Gorshkov VA; Artemenko KA; Zubarev RA; Ytterberg JA; Lebedev AT
Article: ANNALS OF THE RHEUMATIC DISEASES. 2013;72(7):1225-1232

C57BL/6 mice need MHC class II Aq to develop collagen-induced arthritis dependent on autoreactive T cells

Backlund J; Li C; Jansson E; Carlsen S; Merky P; Nandakumar K-S; Haag S; Ytterberg J; Zubarev RA; Holmdahl R
Article: ANALYTICAL CHEMISTRY. 2013;85(11):5288-5296

Orbitrap Mass Spectrometry

Zubarev RA; Makarov A
Article: INTERFACE FOCUS. 2013;3(2):20120072

The PredictAD project: development of novel biomarkers and analysis software for early diagnosis of the Alzheimer's disease

Antila K; Lotjonen J; Thurfjell L; Laine J; Massimini M; Rueckert D; Zubarev RA; Oresic M; van Gils M; Mattila J; Simonsen AH; Waldemar G; Soininen H
Article: JOURNAL OF PROTEOME RESEARCH. 2013;12(4):1969-1979

The Effects of 5-Fluorouracil on the Proteome of Colon Cancer Cells

Marin-Vicente C; Lyutvinskiy Y; Fuertes PR; Zubarev RA; Visa N
Article: MICROBIAL CELL FACTORIES. 2013;12:24

Optimizing heterologous protein production in the periplasm of E. coli by regulating gene expression levels

Schlegel S; Rujas E; Ytterberg AJ; Zubarev RA; Luirink J; de Gier J-W
Article: PROTEOMICS. 2013;13(5):723-726

The challenge of the proteome dynamic range and its implications for in-depth proteomics

Zubarev RA
Article: PLOS ONE. 2013;8(12):e80830

Urinary Prognostic Biomarkers and Classification of IgA Nephropathy by High Resolution Mass Spectrometry Coupled with Liquid Chromatography

Kalantari S; Rutishauser D; Samavat S; Nafar M; Mahmudieh L; Rezaei-Tavirani M; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2012;11(12):6213-6222

Composition and Antimicrobial Activity of the Skin Peptidome of Russian Brown Frog Rana temporaria

Samgina TY; Vorontsov EA; Gorshkov VA; Hakalehto E; Hanninen O; Zubarev RA; Lebedev AT
Article: INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY. 2012;42(10):796-805

Chemosensory proteins, major salivary factors in caterpillar mandibular glands

Celorio-Mancera MDLP; Sundmalm SM; Vogel H; Rutishauser D; Ytterberg AJ; Zubarev RA; Janz N
Article: ANALYTICAL CHEMISTRY. 2012;84(15):6856-6862

Separation of Polypeptides by Isoelectric Point Focusing in Electrospray-Friendly Solution Using a Multiple-Junction Capillary Fractionator

Chingin K; Astorga-Wells J; Najafabadi MP; Lavold T; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2012;23(8):1319-1325

Carbonyl Charge Solvation Patterns May Relate to Fragmentation Classes in Collision-Activated Dissociation

Yang H; Good DM; van der Spoel D; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2012;23(6):1015-1018

Radical a-Ions in Electron Capture Dissociation: On the Origin of Species

Zubarev RA; Good DM; Savitski MM
Article: PEPTIDES. 2012;34(2):296-302

LC-MS/MS with 2D mass mapping of skin secretions' peptides as a reliable tool for interspecies identification inside Rana esculenta complex

Samgina TY; Gorshkov VA; Artemenko KA; Vorontsov EA; Klykov OV; Ogourtsov SV; Zubarev RA; Lebedev AT
Article: ACS COMBINATORIAL SCIENCE. 2012;14(3):145-149

Introducing an Asp-Pro Linker in the Synthesis of Random One-Bead-One-Compound Hexapeptide Libraries Compatible with ESI-MS Analysis

Masforrol Y; Gil J; Javier Gonzalez L; Perez-Riverol Y; Fernandez-de-Cossio J; Sanchez A; Hiram Betancourt L; Elisa Garay H; Cabrales A; Albericio F; Yang H; Zubarev RA; Besada V; Reyes Acosta O
Article: PROTEOMICS. 2012;12(1):135-144

Proteomic analysis of urinary biomarker candidates for nonmuscle invasive bladder cancer

Linden M; Lind SB; Mayrhofer C; Segersten U; Wester K; Lyutvinskiy Y; Zubarev R; Malmstrom P-U; Pettersson U
Article: PLOS ONE. 2012;7(6):e39605

Conformation Effects of CpG Methylation on Single-Stranded DNA Oligonucleotides: Analysis of the Opioid Peptide Dynorphin-Coding Sequences

Taqi MM; Warmlander SKTS; Yamskova O; Madani F; Bazov I; Luo J; Zubarev R; Verbeek D; Graslund A; Bakalkin G
Article: JOURNAL OF ANALYTICAL CHEMISTRY. 2011;66(14):1353-1360

Mass spectral study of the skin peptide of brown frog Rana temporaria from Zvenigorod population

Samgina TY; Gorshkov VA; Vorontsov YA; Artemenko KA; Ogourtsov SV; Zubarev RA; Lebedev AT
Article: JOURNAL OF ANALYTICAL CHEMISTRY. 2011;66(13):1298-1306

Investigation of skin secretory peptidome of Rana lessonae frog by mass spectrometry

Samgina TY; Gorshkov VA; Vorontsov YA; Artemenko KA; Ogourtsov SV; Zubarev RA; Lebedev AT
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2011;22(12):2246-2255

Novel Cysteine Tags for the Sequencing of Non-Tryptic Disulfide Peptides of Anurans: ESI-MS Study of Fragmentation Efficiency

Samgina TY; Vorontsov EA; Gorshkov VA; Artemenko KA; Nifant'ev IE; Kanawati B; Schmitt-Kopplin P; Zubarev RA; Lebedev AT
Article: JOURNAL OF ALZHEIMERS DISEASE. 2011;27(1):113-118

Alzheimer's Disease and Mild Cognitive Impairment are Associated with Elevated Levels of Isoaspartyl Residues in Blood Plasma Proteins

Yang H; Lyutvinskiy Y; Soininen H; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2011;83(20):7651-7656

Increased Throughput of Proteomics Analysis by Multiplexing High-Resolution Tandem Mass Spectra

Ledvina AR; Savitski MM; Zubarev AR; Good DM; Coon JJ; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2011;22(10):1763-1770

Heme Binding in Gas-Phase Holo-Myoglobin Cations: Distal Becomes Proximal?

Enyenihi AA; Yang H; Ytterberg AJ; Lyutvinskiy Y; Zubarev RA
Article: CELLULAR SIGNALLING. 2011;23(8):1387-1395

Toward a comprehensive characterization of the phosphotyrosine proteome

Lind SB; Artemenko KA; Elfineh L; Mayrhofer C; Zubarev RA; Bergquist J; Pettersson U
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2011;22(8):1441-1452

Effects of Peptide Backbone Amide-to-Ester Bond Substitution on the Cleavage Frequency in Electron Capture Dissociation and Collision-Activated Dissociation

Kjeldsen F; Zubarev RA
Article: BLOOD. 2011;117(20):5381-5390

Myeloid-derived suppressor cells express the death receptor Fas and apoptose in response to T cell-expressed FasL

Sinha P; Chornoguz O; Clements VK; Artemenko KA; Zubarev RA; Ostrand-Rosenberg S
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2011;22(7):1121-1124

Sequence Scrambling in Shotgun Proteomics is Negligible

Goloborodko AA; Gorshkov MV; Good DM; Zubarev RA
Article: ANALYST. 2011;136(9):1971-1978

Optimization of immunoaffinity enrichment and detection: toward a comprehensive characterization of the phosphotyrosine proteome of K562 cells by liquid chromatography-mass spectrometry

Artemenko KA; Lind SB; Elfineh L; Mayrhofer C; Zubarev RA; Bergquist J; Pettersson U
Article: JOURNAL OF PROTEOME RESEARCH. 2011;10(5):2679-2683

Drug Target Identification from Protein Dynamics using Quantitative Pathway Analysis

Good DM; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2011;25(7):933-940

Mass spectrometric study of bradykinin-related peptides (BRPs) from the skin secretion of Russian ranid frogs

Samgina TY; Gorshkov VA; Vorontsov YA; Artemenko KA; Zubarev RA; Lebedev AT
Article: GENOMICS PROTEOMICS & BIOINFORMATICS. 2011;9(1-2):15-20

Role of stable isotopes in life--testing isotopic resonance hypothesis.

Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2011;10(3):M110.002980

Proteomic Pathway Analysis Reveals Inflammation Increases Myeloid-Derived Suppressor Cell Resistance to Apoptosis

Chornoguz O; Grmai L; Sinha P; Artemenko KA; Zubarev RA; Ostrand-Rosenberg S
Article: LEUKEMIA. 2011;25(3):515-526

High levels of the adhesion molecule CD44 on leukemic cells generate acute myeloid leukemia relapse after withdrawal of the initial transforming event

Quere R; Andradottir S; Brun ACM; Zubarev RA; Karlsson G; Olsson K; Magnusson M; Cammenga J; Karlsson S
Article: MOLECULAR & CELLULAR PROTEOMICS. 2011;10(3):M900229MCP200-MCP200

Impact of Temperature Dependent Sampling Procedures in Proteomics and Peptidomics - A Characterization of the Liver and Pancreas Post Mortem Degradome

Scholz B; Skold K; Kultima K; Fernandez C; Waldemarson S; Savitski MM; Soderquist M; Boren M; Stella R; Andren P; Zubarev R; James P
Article: JOURNAL OF PROTEOME RESEARCH. 2011;10(2):529-540

ATP Enhances Neuronal Differentiation of PC12 Cells by Activating PKCα Interactions with Cytoskeletal Proteins

Marin-Vicente C; Guerrero-Valero M; Nielsen ML; Savitski MM; Gomez-Fernandez JC; Zubarev RA; Corbalan-Garcia S
Article: PROGRESS IN CHEMISTRY. 2011;23(8):1710-1718

ECD Technology in Biological Mass Spectrometry

Shi L; Liu S; Zubarev RA
Article: JOURNAL OF ANALYTICAL CHEMISTRY. 2010;65(14):1462-1468

Alternative methods for verifying the results of the mass spectrometric identification of peptides in shotgun proteomics

Goloborod'ko AA; Mayerhofer C; Zubarev AR; Tarasova IA; Gorshkov AV; Zubarev RA; Gorshkov MV
Article: AMERICAN JOURNAL OF HUMAN GENETICS. 2010;87(5):593-603

Prodynorphin Mutations Cause the Neurodegenerative Disorder Spinocerebellar Ataxia Type 23

Bakalkin G; Watanabe H; Jezierska J; Depoorter C; Verschuuren-Bemelmans C; Bazov I; Artemenko KA; Yakovleva T; Dooijes D; Van de Warrenburg BPC; Zubarev RA; Kremer B; Knapp PE; Hauser KF; Wijmenga C; Nyberg F; Sinke RJ; Verbeek DS
Article: PHYSICAL CHEMISTRY CHEMICAL PHYSICS. 2010;12(41):13372-13374

Are the majority of a₂-ions cyclic?

Good DM; Marin-Vicente C; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2010;21(11):1846-1851

Calibration Function for the Orbitrap FTMS Accounting for the Space Charge Effect

Gorshkov MV; Good DM; Lyutvinskiy Y; Yang H; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2010;24(14):1931-1940

Fourier transform ion cyclotron resonance mass spectrometer with coaxial multi-electrode cell ('O-trap'): first experimental demonstration

Misharin AS; Zubarev RA; Doroshenko VM
Article: ANALYTICAL AND BIOANALYTICAL CHEMISTRY. 2010;397(5):1903-1910

Porcine P2 myelin protein primary structure and bound fatty acids determined by mass spectrometry

Maddalo G; Shariatgorji M; Adams CM; Fung E; Nilsson U; Zubarev RA; Sedzik J; Ilag LL
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2010;24(12):1749-1754

Novel natural peptides from Hyla arborea schelkownikowi skin secretion

Samgina TY; Gorshkov VA; Artemenko KA; Kovalev SV; Ogourtsov SV; Zubarev RA; Lebedev AT
Article: PROTEOMICS CLINICAL APPLICATIONS. 2010;4(5):511-518

MS analysis of rheumatoid arthritic synovial tissue identifies specific citrullination sites on fibrinogen

Hermansson M; Artemenko K; Ossipova E; Eriksson H; Lengqvist J; Makrygiannakis D; Catrina AI; Nicholas AP; Klareskog L; Savitski M; Zubarev RA; Jakobsson P-J
Article: BIOCHEMISTRY-MOSCOW. 2010;75(5):554-561

Binding of Sterols Affects Membrane Functioning and Sphingolipid Composition in Wheat Roots

Valitova YN; Kotlova ER; Novikov AV; Shavarda AL; Artemenko KA; Zubarev RA; Minibayeva FV
Article: CENTRAL EUROPEAN JOURNAL OF BIOLOGY. 2010;5(2):190-196

Early life relict feature in peptide mass distribution

Zubarev RA; Artemenko KA; Zubarev AR; Mayrhofer C; Yang H; Fung YME
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2010;24(4):454-462

Empirical approach to false discovery rate estimation in shotgun proteomics

Goloborodko AA; Mayerhofer C; Zubarev AR; Tarasova IA; Gorshkov AV; Zubarev RA; Gorshkov MV
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2010;49(8):1439-1441

Multiple Soft Ionization of Gas-Phase Proteins and Swift Backbone Dissociation in Collisions with ≤ 99 eV Electrons

Zubarev RA; Yang H
Article: JOURNAL OF PROTEOME RESEARCH. 2009;8(12):5650-5656

Apoptotic, Regenerative, And Immune-Related Signaling in Human Islets from Type 2 Diabetes Individuals

Nyblom HK; Bugliani M; Fung E; Boggi U; Zubarev R; Marchetti P; Bergsten P
Article: BIOCHEMISTRY-MOSCOW. 2009;74(11):1195-1202

Use of models of biomacromolecule separation in AMT database generation for shotgun proteomics

Pridatchenko ML; Tarasova IA; Guryca V; Kononikhin AS; Adams C; Tolmachev DA; Agapov AY; Evreinov VV; Popov IA; Nikolaev EN; Zubarev RA; Gorshkov AV; Masselon CD; Gorshkov MV
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2009;48(44):8340-8342

Room-Temperature Infrared Spectroscopy Combined with Mass Spectrometry Distinguishes Gas-Phase Protein Isomers

Fung YME; Besson T; Lemaire J; Maitre P; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2009;8(10):4615-4621

Toward Proteome-Scale Identification and Quantification of Isoaspartyl Residues in Biological Samples

Yang H; Fung EYM; Zubarev AR; Zubarev RA
Article: MOLECULAR BIOLOGY OF THE CELL. 2009;20(15):3459-3470

The Exosome Associates Cotranscriptionally with the Nascent Pre-mRNP through Interactions with Heterogeneous Nuclear Ribonucleoproteins

Hessle V; Bjork P; Sokolowski M; de Valdivia EG; Silverstein R; Artemenko K; Tyagi A; Maddalo G; Ilag L; Helbig R; Zubarev RA; Visa N
Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 2009;131(29):9977-9985

Electron Ionization Dissociation of Singly and Multiply Charged Peptides

Fung YME; Adams CM; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2009;23(9):1241-1248

Mass spectrometric study of peptides secreted by the skin glands of the brown frog Rana arvalis from the Moscow region

Samgina TY; Artemenko KA; Gorshkov VA; Ogourtsov SV; Zubarev RA; Lebedev AT
Article: ANALYTICAL CHEMISTRY. 2009;81(10):3738-3745

Two Dimensional Mass Mapping as a General Method of Data Representation in Comprehensive Analysis of Complex Molecular Mixtures

Artemenko KA; Zubarev AR; Samgina TY; Lebedev AT; Savitski MM; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2009;8(5):1117-1129

Proteomics and Pathway Analysis Identifies JNK Signaling as Critical for High Linear Energy Transfer Radiation-induced Apoptosis in Non-small Lung Cancer Cells

Stahl S; Fung E; Adams C; Lengqvist J; Mork B; Stenerlow B; Lewensohn R; Lehtio J; Zubarev R; Viktorsson K
Article: MICROBIOLOGY. 2009;78(2):193-201

Alterations in the composition of membrane glycero-and sphingolipids in the course of Flammulina velutipes surface culture development

Kotlova ER; Senik SV; Kucher T; Shavarda AL; Kiyashko AA; Psurtseva NV; Sinyutina NF; Zubarev RA
Article: METHODS IN MOLECULAR BIOLOGY. 2009;492:413-416

Electron capture dissociation LC/MS/MS for bottom-up proteomics.

Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2008;19(12):1755-1763

Bifurcating Fragmentation Behavior of Gas-Phase Tryptic Peptide Dications in Collisional Activation

Savitski MM; Hith M; Fung YME; Adams CM; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2008;22(22):3517-3525

De novo sequencing of peptides secreted by the skin glands of the Caucasian Green Frog Rana ridibunda

Samgina TY; Artemenko KA; Gorshkov VA; Ogourtsov SV; Zubarev RA; Lebedev AT
Article: ANALYTICAL CHEMISTRY. 2008;80(21):8089-8094

Analytical Utility of Small Neutral Losses from Reduced Species in Electron Capture Dissociation Studied Using SwedECD Database

Falth M; Savitski MM; Nielsen ML; Kjeldsen F; Andren PE; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2008;7(7):2897-2910

Immunoaffinity enrichments followed by mass spectrometric detection for studying global protein tyrosine phosphorylation

Lind SB; Molin M; Savitski MM; Emilsson L; Astrom J; Hedberg L; Adams C; Nielsen ML; Engstrom A; Elfineh L; Andersson E; Zubarev RA; Pettersson U
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2008;19(6):753-761

Electron capture/transfer versus collisionally activated/induced dissociations: Solo or duet?

Zubarev RA; Zubarev AR; Savitski MM
Article: JOURNAL OF PROTEOMICS. 2008;71(1):89-96

Identification of dominant signaling pathways from proteomics expression data

Zubarev RA; Nielsen ML; Fung EM; Savitski MM; Kel-Margoulis O; Wingender E; Kel A
Article: POLYMER SCIENCE SERIES B. 2008;50(3):309-321

Applicability of the critical chromatography concept to proteomics problems: Experimental study of the dependence of peptide retention time on the sequence of amino acids in the chain

Tarasova IA; Gorshkov AV; Evreinov VV; Adams K; Zubarev RA; Gorshkov MV
Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 2008;130(4):1341-1349

Electron capture dissociation proceeds with a low degree of intramolecular migration of peptide amide hydrogens

Rand KD; Adams CM; Zubarev RA; Jorgensen TJD
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2007;268(2-3):73-82

Mass spectrometry of proteins -: Uppsala perspectives on past and present

Bergquist J; Hakansson P; Sundqvist B; Zubarev R
Article: JOURNAL OF PHYSICAL CHEMISTRY B. 2007;111(46):13147-13150

A direct comparison of protein structure in the gas and solution phase: The TRP-cage

Patriksson A; Adams CM; Kjeldsen F; Zubarev RA; van der Spoel D
Article: JOURNAL OF PROTEOME RESEARCH. 2007;6(10):4063-4067

SwedCAD, a database of annotated high-mass accuracy MS/MS spectra of tryptic peptides

Falth M; Savitski MM; Nielsen ML; Kjeldsen F; Andren PE; Zubarev RA
Article: ANALYST. 2007;132(8):768-776

On studying protein phosphorylation patterns using bottom-up LC-MS/MS:: the case of human α-casein

Kjeldsen F; Savitski MM; Nielsen ML; Shi L; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2007;6(7):2669-2673

Relative specificities of water and ammonia losses from backbone fragments in collision-activated dissociation

Savitski MM; Kjeldsen F; Nielsen ML; Zubarev RA
Article: MOLECULAR BIOLOGY OF THE CELL. 2007;18(5):1670-1682

The RBCC gene RFP2 (leu5) encodes a novel transmembrane E3 ubiquitin ligase involved in ERAD

Lerner M; Corcoran M; Cepeda D; Nielsen ML; Zubarev R; Ponten F; Uhlen M; Hober S; Grander D; Sangfelt O
Article: ANALYTICAL CHEMISTRY. 2007;79(6):2296-2302

Side-chain losses in electron capture dissociation to improve peptide identification

Savitski MM; Nielsen ML; Zubarev RA
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2007;46(9):1481-1484

Backbone carbonyl group basicities are related to gas-phase fragmentation of peptides and protein folding

Savitski MM; Kjeldsen F; Nielsen ML; Garbuzynskiy SO; Galzitskaya OV; Surin AK; Zubarev RA
Article: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2007;13(2):155-163

Electrospray ionization tandem mass spectrometry sequencing of novel skin peptides from Ranid frogs containing disulfide bridges

Samgina TY; Arternenko KA; Gorshkov VA; Lebedev A; Nielsen ML; Savitski MM; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2007;18(1):113-120

Hydrogen rearrangement to and from radical z fragments in electron capture dissociation of peptides

Savitski MM; Kjeldsen F; Nielsen ML; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2007;6(1):114-123

De novo peptide sequencing and identification with precision mass spectrometry

Frank AM; Savitski MM; Nielsen ML; Zubarev RA; Pevzner PA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2006;5(12):2384-2391

Extent of modifications in human proteome samples and their effect on dynamic range of analysis in shotgun proteomics

Nielsen ML; Savitski MM; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2006;78(22):7770-7777

Liquid chromatography at critical conditions: Comprehensive approach to sequence-dependent retention time prediction

Gorshkov AV; Tarasova IA; Evreinov VV; Savitski MM; Nielsen ML; Zubarev RA; Gorshkov MV
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2006;20(21):3223-3228

Coaxial multi-electrode cell (′O-trap′) for high-sensitivity detection at a multiple frequency in Fourier transform ion cyclotron resonance mass spectrometry:: main design and modeling results

Misharin AS; Zubarev RA
Article: CHEMISTRY-A EUROPEAN JOURNAL. 2006;12(30):7920-7928

Zwitterionic states in gas-phase polypeptide ions revealed by 157-nm ultra-violet photodissociation

Kjeldsen F; Silivra OA; Zubarev RA
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2006;45(32):5301-5303

Complementary sequence preferences of electron-capture dissociation and vibrational excitation in fragmentation of polypeptide polycations

Savitski MM; Kjeldsen F; Nielsen ML; Zubarev RA
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2006;253(3):263-273

Probing solution- and gas-phase structures of Trp-cage cations by chiral substitution and spectroscopic techniques

Adams CM; Kjeldsen F; Patriksson A; van der Spoel D; Graslund A; Papadopoulos E; Zubarev RA
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2006;252(3):204-212

Determination of the location of positive charges in gas-phase polypeptide polycations by tandem mass spectrometry

Kjeldsen F; Savitski MM; Adams CM; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2006;5(5):935-948

ModifiComb, a new proteomic tool for mapping substoichiometric post-translational modifications, finding novel types of modifications, and fingerprinting complex protein mixtures

Savitski MM; Nielsen ML; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2006;5(3):659-668

PhosTShunter:: A fast and reliable tool to detect phosphorylated peptides in liquid chromatography Fourier transform tandem mass spectrometry data sets

Köcher T; Savitski MM; Nielsen ML; Zubarev RA
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2006;248(3):124-135

Prediction of N-C_α bond cleavage frequencies in electron capture dissociation of Trp-cage dications by force-field molecular dynamics simulations

Patriksson A; Adams C; Kjeldsen F; Raber J; van der Spoel D; Zubarev RA
Article: JOURNAL OF PROTEOME RESEARCH. 2005;4(6):2348-2354

Proteomics-grade de novo sequencing approach

Savitski MM; Nielsen ML; Kjeldsen F; Zubarev RA
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2005;44(39):6399-6403

Facile disulfide bond cleavage in gaseous peptide and protein cations by ultraviolet photodissociation at 157 nm

Fung YME; Kjeldsen F; Silivra OA; Chan TWD; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2005;19(15):2163-2171

Dissociation of peptide ions by fast atom bombardment in a quadrupole ion trap

Misharin AS; Silivra OA; Kjeldsen F; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2005;4(8):1180-1188

New data base-independent, sequence tag-based scoring of peptide MS/MS data validates Mowse scores, recovers below threshold data, singles out modified peptides, and assesses the quality of MS/MS techniques

Savitski MM; Nielsen ML; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2005;77(14):4571-4580

Distinguishing and quantifying peptides and proteins containing D-amino acids by tandem mass spectrometry

Adams CM; Zubarev RA
Article: MOLECULAR & CELLULAR PROTEOMICS. 2005;4(6):835-845

Improving protein identification using complementary fragmentation techniques in Fourier transform mass spectrometry

Nielsen ML; Savitski MM; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2005;77(9):2992-2996

Two-fold efficiency increase by selective excitation of ions for consecutive activation by ion-electron reactions and vibrational excitation in tandem Fourier transform ion cyclotron resonance mass spectrometry

Zubarev RA; Witt M; Baykut G
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2005;16(4):548-552

Characterization of an N-acylated glucagon-like peptide-1 derivative by electron capture dissociation

Haselmann KF; Nielsen PF; Zubarev RA
Article: CHEMISTRY-A EUROPEAN JOURNAL. 2005;11(6):1803-1812

C_α-C backbone fragmentation dominates in electron detachment dissociation of gas-phase polypeptide polyanions

Kjeldsen F; Silivra OA; Ivonin IA; Haselmann KF; Gorshkov M; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2005;16(1):22-27

Electron capture dissociation of polypeptides in a three-dimensional quadrupole ion trap: Implementation and first results

Silivra OA; Kjeldsen F; Ivonin IA; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2005;77(1):172-177

Fragmentation of peptides in MALDI in-source decay mediated by hydrogen radicals

Köcher T; Engström Å; Zubarev RA
Article: PROTEOMICS. 2004;4(12):4010-4018

Cerebrospinal fluid protein patterns in neurodegenerative disease revealed by liquid chromatography-Fourier transform ion cyclotron resonance mass spectrometry

Ramström M; Ivonin I; Johansson A; Askmark H; Markides KE; Zubarev R; Håkansson P; Aquilonius SM; Bergquist J
Article: ANALYTICAL CHEMISTRY. 2004;76(19):5872-5877

Physicochemical properties determining the detection probability of tryptic peptides in Fourier transform mass spectrometry. A correlation study

Nielsen ML; Savitski MM; Kjeldsen F; Zubarev RA
Article: JOURNAL OF CHEMICAL PHYSICS. 2004;121(12):5700-5708

Dissociative recombination cross section and branching ratios of protonated dimethyl disulfide and N-methylacetamide

Al-Khalili A; Thomas R; Ehlerding A; Hellberg F; Geppert WD; Zhaunerchyk V; af Ugglas M; Larsson M; Uggerud E; Vedde J; Adlhart C; Semaniak J; Kaminska M; Zubarev RA; Kjeldsen F; Andersson PU; Österdahl F; Bednarska VA; Paál A
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2004;15(7):1087-1098

Electron capture dissociation distinguishes a single D-amino acid in a protein and probes the tertiary structure

Adams CM; Kjeldsen F; Zubarev RA; Budnik BA; Haselmann KF
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2004;15(4):457-461

Shifted-basis technique improves accuracy of peak position determination in Fourier transform mass spectrometry

Savitski MM; Ivonin IA; Nielsen ML; Zubarev RA; Tsybin YO; Håkansson P
Article: JOURNAL OF MASS SPECTROMETRY. 2004;39(2):193-201

De novo sequencing of antimicrobial peptides isolated from the venom glands of the wolf spider Lycosa singoriensis

Budnik BA; Olsen JV; Egorov TA; Anisimova VE; Galkina TG; Musolyamov AK; Grishin EV; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2003;75(21):5994-6001

Applications of electron-ion dissociation reactions for analysis of polycationic chitooligosaccharides in Fourier transform mass spectrometry

Budnik BA; Haselmann KF; Elkin YN; Gorbach VI; Zubarev RA
Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 2003;125(22):6628-6629

Secondary losses via γ-lactam formation in hot electron capture dissociation:: A missing link to complete de novo sequencing of proteins?

Kjeldsen F; Zubarev R
Article: ANALYTICAL CHEMISTRY. 2003;75(10):2355-2361

Complete characterization of posttranslational modification sites in the bovine milk protein PP3 by tandem mass spectrometry with electron capture dissociation as the last stage

Kjeldsen F; Haselmann KF; Budnik BA; Sorensen ES; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2003;75(6):1267-1274

Distinguishing of Ile/Leu amino acid residues in the PP3 protein by (hot) electron capture dissociation in Fourier transform ion cyclotron resonance mass spectrometry

Kjeldsen F; Haselmann KF; Sorensen ES; Zubarev RA
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2003;226(1):181-187

Tandem MALDI/El ionization for tandem Fourier transform ion cyclotron resonance mass spectrometry of polypeptides

Nielsen ML; Budnik BA; Haselmann KF; Zubarev RA
Article: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2003;9(2):139-148

Towards the standard-module approach to disulfide-linked polypeptide nanostructures. I. Methodological prerequisites and mass spectrometric characterization of the test two-loop structure

Mirgorodskaya OA; Haselmann KF; Kjeldsen F; Zubarev RA; Roepstorff P
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2002;16(24):2260-2265

Electron capture dissociation of weakly bound polypeptide polycationic complexes

Haselmann KF; Jorgensen TJD; Budnik BA; Jensen F; Zubarev RA
Article: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2002;8(6):461-469

Can the (M•-X) region in electron capture dissociation provide reliable information on amino acid composition of polypeptides?

Haselmann KF; Budnik BA; Kjeldsen F; Polfer NC; Zubarev RA
Article: JOURNAL OF MASS SPECTROMETRY. 2002;37(11):1141-1144

Ionization energies of multiply protonated polypeptides obtained by tandem ionization in Fourier transform mass spectrometers

Budnik BA; Tsybin YO; Håkansson P; Zubarev RA
Article: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2002;8(5):337-349

Towards an understanding of the mechanism of electron-capture dissociation: a historical perspective and modern ideas

Zubarev RA; Haselmann KF; Budnik B; Kjeldsen F; Jensen F
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2002;219(1):283-294

Can relative cleavage frequencies in peptides provide additional sequence information?

Budnik BA; Nielsen ML; Olsen JV; Haselmann KF; Hörth P; Haehnel W; Zubarev RA
Article: JOURNAL OF CHROMATOGRAPHY A. 2002;962(1-2):95-103

High-performance liquid chromatography-mass spectrometry and electron-capture dissociation tandem mass spectrometry of osteocalcin -: Determination of γ-carboxyglutamic acid residues

Niiranen H; Budnik BA; Zubarev RA; Auriola S; Lapinjoki S
Article: JOURNAL OF BIOLOGICAL CHEMISTRY. 2002;277(25):22623-22638

Functional conservation of subfamilies of putative UDP-N-acetylgalactosamine:polypeptide N-acetylgalactosaminyltransferases in Drosophila, Caenorhabditis elegans, and mammals -: One subfamily composed of l(2)35Aa is essential in Drosophila

Schwientek T; Bennett EP; Flores C; Thacker J; Hollmann M; Reis CA; Behrens J; Mandel U; Keck B; Schäfer MA; Haselmann K; Zubarev R; Roepstorff P; Burchell JM; Taylor-Papadimitriou J; Hollingsworth MA; Clausen H
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2002;16(10):936-943

Electron capture dissociation of polypeptides using a 3 Tesla Fourier transform ion cyclotron resonance mass spectrometer

Polfer NC; Haselmann KF; Zubarev RA; Langridge-Smith PRR
Article: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2002;8(2):117-121

Electronic excitation gives informative fragmentation of polypeptide cations and anions

Haselmann KF; Budnik BA; Kjeldsen F; Nielsen ML; Olsen JV; Zubarev RA
Article: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2002;8(2):79-84

Polymer track membranes for extraction of ions from aqueous solutions at atmospheric pressure

Balakin AA; Dodonov AF; Markin MI; Novikova LI; Soulimenkov IV; Talroze VL; Budnik BA; Haselmann KF; Zubarev RA
Article: CHEMICAL PHYSICS LETTERS. 2002;356(3-4):201-206

Dissociative capture of hot (3-13 eV) electrons by polypeptide polycations: an efficient process accompanied by secondary fragmentation

Kjeldsen F; Haselmann KF; Budnik BA; Jensen F; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2001;15(19):1849-1854

Improved low-energy electron injection systems for high rate electron capture dissociation in Fourier transform ion cyclotron resonance mass spectrometry

Tsybin YO; Håkansson P; Budnik BA; Haselmann KF; Kjeldsen F; Gorshkov M; Zubarev RA
Article: ANGEWANDTE CHEMIE-INTERNATIONAL EDITION. 2001;40(13):2497-2500

Tetrathiafulvaleno-annelated porphyrins

Becher J; Brimert T; Jeppesen JO; Pedersen JZ; Zubarev R; Bjornholm T; Reitzel N; Jensen TR; Kjaer K; Levillain E
Article: CHEMICAL PHYSICS LETTERS. 2001;342(3-4):299-302

Electron detachment dissociation of peptide di-anions: an electron-hole recombination phenomenon

Budnik BA; Haselmann KF; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 2001;73(13):2998-3005

Advantages of external accumulation for electron capture dissociation in Fourier transform mass spectrometry

Haselmann KF; Budnik BA; Olsen JV; Nielsen ML; Reis CA; Clausen H; Johnsen AH; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2001;15(12):969-974

Comparison of electron capture dissociation and collisionally activated dissociation of polycations of peptide nucleic acids

Olsen JV; Haselmann KF; Nielsen ML; Budnik BA; Nielsen PE; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2001;12(3):245-249

Electron capture dissociation of gaseous multiply charged ions by Fourier-transform ion cyclotron resonance

McLafferty FW; Horn DM; Breuker K; Ge Y; Lewis MA; Cerda B; Zubarev RA; Carpenter BK
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2000;14(23):2242-2246

Electron capture dissociation of b²⁺ peptide fragments reveals the presence of the acylium ion structure

Haselmann KF; Budnik BA; Zubarev RA
Article: CHEMICAL PHYSICS LETTERS. 2000;330(5-6):558-562

Intramolecular hydrogen atom transfer in hydrogen-deficient polypeptide radical cations

Nielsen ML; Budnik BA; Haselmann KF; Olsen JV; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2000;14(19):1793-1800

Electron capture dissociation of singly and multiply phosphorylated peptides

Stensballe A; Jensen ON; Olsen JV; Haselmann KF; Zubarev RA
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2000;97(19):10313-10317

Automated de novo sequencing of proteins by tandem high-resolution mass spectrometry

Horn DM; Zubarev RA; McLafferty FW
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2000;14(7):578-584

Benefits of 2.94 μm infrared matrix-assisted laser desorption/ionization for analysis of labile molecules by Fourier transform mass spectrometry

Budnik BA; Jensen KB; Jorgensen TJD; Haase A; Zubarev RA
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 2000;11(4):320-332

Automated reduction and interpretation of high resolution electrospray mass spectra of large molecules

Horn DM; Zubarev RA; McLafferty FW
Article: JOURNAL OF MASS SPECTROMETRY. 2000;35(3):337-346

Low-mass ions observed in plasma desorption mass spectrometry of high explosives

Håkansson K; Coorey RV; Zubarev RA; Talrose VL; Håkansson P
Article: ANALYTICAL CHEMISTRY. 2000;72(3):563-573

Electron capture dissociation for structural characterization of multiply charged protein cations

Zubarev RA; Horn DM; Fridriksson EK; Kelleher NL; Kruger NA; Lewis MA; Carpenter BK; McLafferty FW
Article: REVIEW OF SCIENTIFIC INSTRUMENTS. 2000;71(1):36-41

Design and performance of an electrospray ionization time-of-flight mass spectrometer

Håkansson K; Zubarev RA; Håkansson P; Laiko V; Dodonov AF
Article: CHEMICAL PHYSICS LETTERS. 2000;316(1-2):19-23

MH^2+• ion production from protonated polypeptides by electron impact:: observation and determination of ionization energies and a cross-section

Budnik BA; Zubarev RA
Article: JOURNAL OF MATERIALS CHEMISTRY. 2000;10(10):2249-2258

Synthesis of linear oligo-TTFs and their [2]rotaxanes with cyclobis(paraquat-p-phenylene)

Damgaard D; Nielsen MB; Lau J; Jensen KB; Zubarev R; Levillain E; Becher J
Article: CHEMICAL COMMUNICATIONS. 2000;(3):215-216

Tetrathiafulvalene-phenanthroline macrocycles as redox responsive sensors for metal ions

Bang KS; Nielsen MB; Zubarev R; Becher J
Article: ANALYTICAL CHEMISTRY. 1999;71(20):4431-4436

Localization of O-glycosylation sites in peptides by electron capture dissociation in a fourier transform mass spectrometer

Mirgorodskaya E; Roepstorff P; Zubarev RA
Article: ANALYTICAL CHEMISTRY. 1999;71(19):4250-4253

Localization of labile posttranslational modifications by electron capture dissociation:: The case of γ-carboxyglutamic acid

Kelleher RL; Zubarev RA; Bush K; Furie B; Furie BC; McLafferty FW; Walsh CT
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 1999;13(12):1169-1174

Interaction between explosive and analyte layers in explosive matrix-assisted plasma desorption mass spectrometry

Håkansson K; Zubarev RA; Coorey RV; Talrose VL; Håkansson P
Article: SCIENCE. 1999;284(5418):1289-1290

Biochemistry - Biomolecule mass spectrometry

McLafferty FW; Fridriksson EK; Horn DM; Lewis MA; Zubarev RA
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 1999;185:787-793

Electron capture dissociation of multiply charged peptide cations

Kruger NA; Zubarev RA; Horn DM; McLafferty FW
Article: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 1999;182:1-5

Electron capture versus energetic dissociation of protein ions

Kruger NA; Zubarev RA; Carpenter BK; Kelleher NL; Horn DM; McLafferty FW
Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 1999;121(12):2857-2862

Electron capture dissociation of gaseous multiply-charged proteins is favored at disulfide bonds and other sites of high hydrogen atom affinity

Zubarev RA; Kruger NA; Fridriksson EK; Lewis MA; Horn DM; Carpenter BK; McLafferty FW
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 1998;12(11):705-711

Combination of nozzle-skimmer fragmentation and partial acid hydrolysis in electrospray ionization time-of-flight mass spectrometry of synthetic peptides

Hakansson K; Zubarev R; Hakansson P
Article: JOURNAL OF THE AMERICAN CHEMICAL SOCIETY. 1998;120(13):3265-3266

Electron capture dissociation of multiply charged protein cations. A nonergodic process

Zubarev RA; Kelleher NL; McLafferty FW
Article: JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY. 1998;9(2):149-156

Isotope depletion of large biomolecules: Implications for molecular mass measurements

Zubarev RA; Demirev PA
Article: ANALYTICAL CHEMISTRY. 1997;69(15):2893-2900

Probing combinatorial library diversity by mass spectrometry

Demirev PA; Zubarev RA
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 1997;11(9):963-972

Delayed, gas-phase ion formation in plasma desorption mass spectrometry

Zubarev RA; Abeywarna UK; Demirev P; Eriksson J; Papaleo R; Hakansson P; Sundqvist BUR
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 1997;11(1):63-70

Enhancement of the molecular ion yield in plasma desorption mass spectrometry using explosive matrices

Zubarev RA; Hakansson P; Sundqvist N; Talrose VL
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 1996;10(15):1966-1974

Kinetic energies of secondary ions in MeV and keV particle-induced desorption

Zubarev RA; Abeywarna U; Hakansson P; Demirev P; Sundqvist BUR
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 1996;10(12):1429-1432

A three-point calibration procedure for matrix-assisted laser desorption/ionization mass spectrometry utilizing multiply charged ions and their mean initial velocities

Vera CC; Zubarev R; Ehring H; Hakansson P; Sunqvist BUR
Article: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 1996;10(11):1386-1392

Accurate monoisotopic mass measurements of peptides: Possibilities and limitations of high resolution time-of-flight particle desorption mass spectrometry

Zubarev RA; Hakansson P; Sundqvist B
Article: BIOORGANICHESKAYA KHIMIYA. 1996;22(8):585-588

An improved sample preparation technique for Cf-252 plasma desorption mass spectrometry of proteins and peptides

Chivanov VD; Zubarev RA; Aksenov SA; Bordunova OG; Eremenko VI; Kabanets VM; Tatarinova VI; Mishnev AK; Kuraev VV; Knysh AN; Eremenko IA
Article: ANALYTICAL CHEMISTRY. 1996;68(22):4060-4063

Accuracy requirements for peptide characterization by monoisotopic molecular mass measurements

Zubarev RA; Hakansson P; Sundqvist B
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Corrigendum: FRONTIERS IN IMMUNOLOGY. 2023;14:1331366

Brain endothelial cells exposure to malaria parasites links type I interferon signalling to antigen presentation, immunoproteasome activation, endothelium disruption, and cellular metabolism (vol 14, 1149107, 2023)

Shafi AM; Vegvari A; Howland SW; Zubarev RA; Renia L; Penha-Goncalves C
Editorial comment: AGING-US. 2022;14(22):8882-8883

Isoaspartate and neurodegeneration

Wang J; Mukherjee S; Zubarev RA
Corrigendum: NATURE METABOLISM. 2022;4(10):1421

Impaired oxygen-sensitive regulation of mitochondrial biogenesis within the von Hippel-Lindau syndrome (June, 10.1038/s42255-022-00593-x, 2022)

Li S; Li W; Yuan J; Bullova P; Wu J; Zhang X; Liu Y; Plescher M; Rodriguez J; Bedoya-Reina OC; Jannig PR; Valente-Silva P; Yu M; Henriksson MA; Zubarev RA; Smed-Sorensen A; Suzuki CK; Ruas JL; Holmberg J; Larsson C; Christofer Juhlin C; von Kriegsheim A; Cao Y; Schlisio S
Corrigendum: LEUKEMIA. 2020;34(12):3439

S100A6 is a critical regulator of hematopoietic stem cells (vol 53, pg 731, 2020)

Grahn THM; Niroula A; Vegvari A; Oburoglu L; Pertesi M; Warsi S; Safi F; Miharada N; Capellera-Garcia S; Siva K; Liu Y; Rorby E; Nilsson B; Zubarev RA; Karlsson S
Corrigendum: FRONTIERS IN IMMUNOLOGY. 2017;8:1236

Functional and Structural Characterization of a Novel HLA-DRB1*04:01-Restricted α-Enolase T Cell Epitope in Rheumatoid Arthritis (vol 7, 494, 2016)

Gerstner C; Dubnovitsky A; Sandin C; Kozhukh G; Uchtenhagen H; James EA; Ronnelid J; Ytterberg AJ; Pieper J; Reed E; Tandre K; Rieck M; Zubarev RA; Ronnblom L; Sandalova T; Buckner JH; Achour A; Malmstrom V
Corrigendum: INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY. 2015;64:128

Effect of host plant and immune challenge on the levels of chemosensory and odorant-binding proteins in caterpillar salivary glands (vol 61, pg 34, 2015)

Celorio-Mancera MDLP; Ytterberg AJ; Rutishauser D; Janz N; Zubarev RA
Editorial comment: JOURNAL OF PROTEOMICS. 2011;75(1):4-17

Facing challenges in Proteomics today and in the coming decade: Report of Roundtable Discussions at the 4th EuPA Scientific Meeting, Portugal, Estoril 2010

Cox J; Heeren RMA; James P; Jorrin-Novo JV; Kolker E; Levander F; Morrice N; Picotti P; Righetti PG; Sanchez J-C; Turck CW; Zubarev R; Alexandre BM; Corrales FJ; Marko-Varga G; O'Donovan S; O'Neil S; Prechl J; Simoes T; Weckwerth W; Penque D
Review: JOURNAL OF PROTEOMICS. 2011;74(8):1475-1482

New proteomic developments to analyze protein isomerization and their biological significance in plants

Grappin P; Collet B; Yang H; Jallet D; Oge L; Zubarev R
Corrigendum: ANALYTICAL AND BIOANALYTICAL CHEMISTRY. 2010;398(7-8):3225-3226

Porcine P2 myelin protein primary structure and bound fatty acids determined by mass spectrometry (vol 397, pg 1903, 2010)

Maddalo G; Shariatgorji M; Adams CM; Fung E; Nilsson U; Zubarev RA; Sedzik J; Ilag LL
Review: ELECTROPHORESIS. 2010;31(11):1764-1772

Mass spectrometric analysis of asparagine deamidation and aspartate isomerization in polypeptides

Yang H; Zubarev RA
Meeting abstract: ANNALS OF THE RHEUMATIC DISEASES. 2010;69:a4-A5

IDENTIFICATION OF SPECIFIC CITRULLINATION SITES ON FIBRINOGEN IN RA

Ossipova E; Malmstrom V; Catrina AI; Klareskog L; Zubarev R; Jakobsson P-J
Meeting abstract: CHEMISTRY AND PHYSICS OF LIPIDS. 2009;160:S34

Alterations in glucosylceramide molecular species profile in unicellular green algae Pseudococcomyxa chodatii in response to phosphate deprivation

Kiseleva MA; Kotlova ER; Sinyutina NF; Artemenko KA; Zubarev RA
Meeting abstract: CHEMISTRY AND PHYSICS OF LIPIDS. 2009;160:S30

Sphingolipid synthesis inhibitors affect growth, morphology and metabolism of basidial fungus Flammulina velutipes

Senik SV; Kotlova ER; Kiyashko AA; Shavarda AL; Artemenko KA; Zubarev RA
Editorial comment: INTERNATIONAL JOURNAL OF MASS SPECTROMETRY. 2008;276(2-3):V-VI

Electron/ion and ion/ion interactions: Fundamentals, applications, tools, and methodologies - Foreword

Zubarev RA; McLuckey SA
Meeting abstract: EUROPEAN JOURNAL OF PHARMACEUTICAL SCIENCES. 2008;34(1):S21-S22

Pathway search engine for proteomics - Dream, fact or fiction?

Fung EM; Savitski MM; Zubarev RA
Meeting abstract: CHEMISTRY AND PHYSICS OF LIPIDS. 2007;149:S82

Glycosylceramides from Flammulina velutipes:: Variety of molecular species, metabolism and involvement in fungal differentiation

Kotlova ER; Senik SV; Kocher T; Shavarda AL; Sinyutina NF; Psurtseva NV; Zubarev RA
Review: MOLECULAR & CELLULAR PROTEOMICS. 2007;6(3):377-381

On the proper use of mass accuracy in proteomics

Zubarev R; Mann M
Review: EXPERT REVIEW OF PROTEOMICS. 2006;3(2):251-261

Protein primary structure using orthogonal fragmentation techniques in Fourier transform mass spectrometry

Zubarev R
Published conference paper: LECTURE NOTES IN COMPUTER SCIENCE. 2006;3909:456-457

Revealing the proteome complexity by mass spectrometry

Zubarev RA
Letter: RAPID COMMUNICATIONS IN MASS SPECTROMETRY. 2005;19(24):3755-3758

On the accuracy of polypeptide masses measured in a linear ion trap

Gorshkov MV; Zubarev RA
Review: CURRENT OPINION IN BIOTECHNOLOGY. 2004;15(1):12-16

Electron-capture dissociation tandem mass spectrometry

Zubarev RA
Review: MASS SPECTROMETRY REVIEWS. 2003;22(1):57-77

Reactions of polypeptide ions with electrons in the gas phase

Zubarev RA
Letter: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2003;9(3):221-222

Letter:: The diagnostic value of amino acid side-chain losses in electron capture dissociation of polypeptides.: Comment on:: "Can the (M^•-X) region in electron capture dissociation provide reliable information on amino acid composition of polypeptides?", Eur. J-Mass Spectrom.: 8, 461-469 (2002)

Cooper HJ; Håkansson K; Marshall AG; Hudgins RR; Haselmann KF; Kjeldsen F; Budnik BA; Polfer NC; Zubarev RA
Published conference paper: EUROPEAN JOURNAL OF MASS SPECTROMETRY. 2000;6(3):235-240

Tandem ionization mass spectrometry of biomolecules

Zubarev RA; Nielsen ML; Budnik BA
Review: CURRENT OPINION IN CHEMICAL BIOLOGY. 1998;2(5):571-578

Two-dimensional mass spectrometry of biomolecules at the subfemtomole level

McLafferty FW; Kelleher NL; Begley TP; Fridriksson EK; Zubarev RA; Horn DM
Letter: ANALYTICAL CHEMISTRY. 1995;67(20):3793-3798

APPROACHES AND LIMITS FOR ACCURATE MASS CHARACTERIZATION OF LARGE BIOMOLECULES

ZUBAREV RA; DEMIREV PA; HAKANSSON P; SUNDQVIST BUR
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Professor, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, 2009-

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Docent, Odense universitet

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