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Proteomics (59)

Organisms

Chlamydomonas reinhardtii (50)
Marchantia polymorpha subsp. ruderalis (50)
Methylocystis sp. (50)
Bothrops insularis (50)
Bothrops jararaca (50)
Bothrops jararacussu (50)
Bothrops cotiara (50)
Streptomyces coelicolor (50)
Burkholderia ubonensis MSMB22 (50)
Pseudomonas aeruginosa PA103 (50)
Artibeus jamaicensis (50)
Morchella importuna (50)
Bothrops brazili (50)
Ixodes scapularis (50)
Bothrops leucurus (50)
Bothrops moojeni (50)
Pseudomonas syringae (50)
Sclerotinia sclerotiorum (50)
Tabanus autumnalis (50)
Brassica napus (50)
Bothrops neuwiedi (50)
Bartonella quintana JK 31 (50)
Bombyx mori (50)
Onchocerca volvulus (50)
Klebsiella pneumoniae (50)
Musca domestica (50)
Homo sapiens (4)
Drosophila melanogaster (2)
Mus musculus (2)
Caenorhabditis elegans (1)

Repository

pride (50)
jPOST (9)

Tissue

Brain (6)
Cell culture (4)
Blood (3)
Colorectal cancer cell (2)
Primary cell line cell (2)
Endothelial cell (2)
Pancreas (2)
Blood plasma (2)
Epithelial cell (2)
B cell (2)
T cell (2)
Paneth cell of epithelium of small intestine (1)
Culture fluid (1)
Sciatic nerve (1)
Tear (1)
Seminal vesicle fluid (1)
Yeast (1)
Small intestine (1)
Venom (1)
Retina (1)
Cerebrospinal fluid (1)
Urine (1)
Brown adipose tissue (1)
Lymph node (1)
Oocyte (1)
Ovary (1)
Blood serum (1)
Feces (1)
Cell suspension culture (1)
Cell line cell (1)

Disease

Lymphoma (2)
Colorectal cancer (2)
Alzheimer's disease (2)
Acute leukemia (2)
Loiasis (1)
Diffuse large B-cell lymphoma (1)
Bacterial infectious disease (1)
Moyamoya disease (1)
Type 1 diabetes mellitus (1)
Chronic myeloid leukemia (1)
Pancreatic cancer (1)
Pancreatic endocrine carcinoma (1)
Schizophrenia (1)
Rheumatoid arthritis (1)
Disease free (1)

Technology Type

Mass Spectrometry (50)
Data-independent acquisition (36)
Bottom-up proteomics (33)
DiaPASEF (7)
SWATH MS (5)
Data-dependent acquisition (3)
Affinity purification coupled with mass spectrometry proteomics (3)
Affinity proteomics (1)
Top-down proteomics (1)

Publication Date

2025 (30)
2026 (26)
2024 (3)

Lab affiliation

ULB - Faculty of PHARMACY RD3 - Pharmacognosy, Bioanalysis & Drug Discovery Unit & Analytical Platform of the Faculty of Pharmacy (2)
Department of Genome Sciences, University of Washington, Seattle, WA 98195, USA (2)
Biochemistry and Molecular Biology, Michael Smith Laboratories, University of British Columbia, Canada (2)
Max Planck Institute for Brain Research Max Planck Institute of Biophysics (2)
Principal Investigator | The Ernst and Kaethe Ascher Career Development Chair | The Department of Immunology and Regenerative Biology | Weizmann-UK Building, Room 17 | Weizmann Institute of Science | Rehovot 76100, ISRAEL | Tel: +972-8-934-4937 (1)
Department of Biology, Faculty of Science, Mahidol University, 272 Rama VI Road, Ratchathewi, Bangkok 10400, Thailand. (1)
MPI for Brain Research, Proteomics, Frankfurt, Germany (1)
Department of Oncology-Pathology, Karolinska Institutet Stockholm, Sweden (1)
Max Planck Institute for Biophysics Max Planck Institute of Brain Research (1)
Daglig leder, PROMEC Institutt for klinisk og molekylær medisin lars.hagen@ntnu.no 73598508 72573342 Laboratoriesenteret, 231.04.008, Øya, Erling Skjalgssons gate 1 PROMEC webpages, Norway (1)
Charité Universitätsmedizin Berlin, Department of Biochemistry, 10117 Berlin, Germany The Francis Crick Institute, Molecular Biology of Metabolism Laboratory, London NW1 1AT, UK The Wellcome Centre for Human Genetics, Nuffield Department of Medicine, University of Oxford, Oxford OX3 7BN, UK Max Planck Institute for Molecular Genetics, 14195 Berlin, Germany (1)
Bioanalytical Mass Spectrometry Group Max-Planck-Institute for Multidisciplinary Sciences Goettingen, Germany (1)
Head of Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry (1)
School of Optometry, The Hong Kong Polytechnic University, Hung Hom, Hong Kong (1)
Netherlands Cancer Institute Proteomics Facility (1)
Cell Biology and Physiology, Washington University in St. Louis (1)
Technical University of Denmark (1)
Departments of Medicine (Oncology) and of Chemical and Systems Biology, Stanford School of Medicine, Stanford, CA, USA Stanford Cancer Institute, Stanford, CA, USA (1)
Max Planck Institute for Molecular Biomedicine Mass Spectrometry Unit Röntgenstr. 20 48159 Münster Germany (1)
Department of Biochemistry and Molecular Biology, Faculty of Medicine, University of British Columbia (1)
Department of Cell Biology, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Poland (1)
Division of Pharmacology & Toxicology, Department of Pharmaceutical Sciences, Faculty of Life Sciences, University of Vienna (1)
Institute of Biomedicine, University of Eastern Finland, Finland (1)
Research Laboratory in Human Reproduction, Université Libre de Bruxelles (ULB), 1070 Brussels, Belgium (1)
Professor of Chemical and Systems Biology at Stanford, USA (1)
Max-Planck Institute of Biophysics (1)
Institute of Molecular Genetics and Genetic Engineering, University of Belgrade, 11000, Belgrade, Republic of Serbia (1)
Center for Biotechnology and Genomic Medicine, Medical College of Georgia, Augusta University, USA (1)
Sir William Dunn School of Biology, University of Oxford (1)
Department of Biomolecular Medicine, Ghent University, Ghent, Belgium VIB Center for Medical Biotechnology, VIB, Ghent, Belgium (1)

Modification

4x(2)H labeled dimethylated residue (1)

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Decoding the impact of isolation window selection and QuantUMS filtering in DIA-NN for DIA quantification of peptides and proteins.

Proteomic studies using Data Independent Acquisition (DIA) have gained momentum in all fields of biology. Search engines are evolving to keep up with the latest developments in instrument technology. DIA-NN is the most popular software for DIA analysis under academic use license. The QuantUMS algori...

ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast)

2025-12-04 | PXD063416 | Pride

Paternal dietary macronutrients affect the seminal vesicle fluid proteome and foetal development

Seminal fluid can have wide-ranging effects on reproductive fitness – from affecting sperm fertilisation capacity and female reproductive physiology, to influencing offspring viability and health. Seminal fluid can also change in response to environmental conditions including diet, which of itself i...

ORGANISM(S): Mus musculus (Mouse)

2026-07-23 | PXD073093 | Pride

Insulin-Independent Regulation of Type 1 Diabetes via Large Brown Adipocyte-Secreted Proteins and the Novel Glucagon Regulator Nidogen-2

Current treatments for type 1 diabetes (T1D) focus on optimizing insulin replacement. We demonstrate the therapeutic potential of the large secreted protein fraction from brown adipose tissue (BAT), independent of insulin. This secreted fraction mediates insulin receptor-dependent recovery of euglyc...

ORGANISM(S): Mus musculus (Mouse)

2025-03-13 | PXD051972 | Pride

Glucagon Brown adipose tissue Insulin Diabetes

Proteomes of gastrointestinal tract organoids

Examination of differential susceptibility of the gastric, small intestine and colon epithelium to SARS-CoV-2 infection Data used in the manuscript "SARS-CoV-2 tropism to intestinal but not gastric epithelial cells is defined by limited ACE2 expression" (Pauzuolis M, Fatykhova D, Zühlke B, Schwecke ...

ORGANISM(S): Homo sapiens (Human)

2024-03-20 | PXD044789 | Pride

Human Colon Corpus Jejunum

An inflammasome-driven differentiation program in intestinal stem cells protects against Salmonella infection

Intestinal stem cells (ISCs) are essential for sustaining epithelial renewal and barrier integrity, yet their role in orchestrating defense against enteric pathogens remains unclear. Here, we identify a stem cell–intrinsic immune mechanism whereby Lgr5⁺ ISCs detect intracellular Salmonella enterica ...

ORGANISM(S): Mus musculus (Mouse)

2026-04-05 | PXD075756 | Pride

Targeting DOT1L and EZH2 synergizes in breaking the germinal center identity of Diffuse Large B Cell Lymphoma

Differentiation of antigen-activated B cells into pro-proliferative germinal center (GC) B cells depends on the activity of the transcription factors MYC and BCL6, and the epigenetic writers DOT1L and EZH2. GCB-like Diffuse Large B Cell Lymphomas (GCB-DLBCLs) arise from GC B cells and closely resemb...

ORGANISM(S): Homo sapiens (Human)

2025-10-14 | PXD056212 | Pride

Prc2 targets Differentiation-based therapy Human Astral Diffuse large b cell lymphoma Dot1l Ezh2 Lc-ms/ms

Mistranslating tRNA variants impact on the proteome and phosphoproteome of Saccharomyces cerevisiae – phosphoproteome DDA and DIA data

Mutations in tRNAs can lead to mis-incorporation of an amino acid into a growing polypeptide chain that differs from what is specified by the mRNA in a process known as mistranslation. As mistranslating tRNAs modify how the genetic message is decoded, they have potential as therapeutic tools to trea...

ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast)

2025-11-18 | PXD068388 | Pride

Phosphoproteome Translation fidelity Trnas Saccharomyces cerevisiae Mistranslation Yeast

NASP modulates histone turnover to drive PARP inhibitor resistance

PARP inhibitors (PARPi) present a remarkable advance in the treatment of patients with homologous recombination (HR)-deficient tumors1-3, however resistance remains a challenge due to genomic instability4,5. While most research has focused on the downstream consequences of PARPi exposure to tackle r...

ORGANISM(S): Homo sapiens (Human)

2025-07-29 | PXD061071 | Pride

Lc-msms Nasp Parp inhibitor Human

Biphasic in vitro maturation (CAPA-IVM) on equine oocytes

In vitro maturation (IVM) of oocytes retrieved from ovum pick-up (OPU) or ovarian tissue (OT) is a standard approach for patients with specific conditions where prior hormonal stimulation is contraindicated. However, the developmental competence of oocytes matured in vitro is still inferior to that ...

ORGANISM(S): Equus caballus (Horse)

2025-06-07 | PXD060584 | Pride

Timstof scp Oocyte Equine

An SRRM3 regulated neural alternative splicing program is subverted to promote tumour progression in pancreatic neuroendocrine cells.

Pancreatic neuroendocrine tumours (PanNETs) are a heterogeneous group of neoplasms arising in pancreatic islets and altering the hormone secreting function of neuroendocrine cells. Genome wide approaches have revealed the genomic landscape of PanNETs but have not explained their problematic hormone ...

ORGANISM(S): Homo sapiens (Human)

2025-08-08 | PXD065389 | Pride

Alternative splicing Microexons Pancreatic neuroendocrine tumours Insulin secretion Srrm3

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