Tims-tof pasef - OmicsDI

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Proteomics (233)
Metabolomics (8)
Unknown (7)

Organisms

Allexis (233)
Arabidopsis thaliana (233)
Bos taurus (233)
Callinectes sapidus (233)
Drosophila melanogaster (233)
Entamoeba histolytica HM-1:IMSS-A (233)
Escherichia coli (233)
Homo sapiens (233)
Leishmania major strain Friedlin (233)
Listeria monocytogenes (233)
Medicago truncatula (233)
Meleagris gallopavo (233)
Methylohalobius crimeensis 10Ki (233)
Mus musculus (233)
Rattus norvegicus (233)
Saccharomyces cerevisiae (233)
Schizosaccharomyces pombe (233)
Shigella (233)
Shigella flexneri (233)
Sinorhizobium meliloti BL225C (233)
Solanum tuberosum (233)
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Sus scrofa domesticus (233)
Zea mays (233)
Bacteria (232)
Canis lupus familiaris (232)
Rattus rattus (232)
Rhodococcus jostii RHA1 (232)
Streptococcus dysgalactiae subsp. equisimilis SK1249 (232)
Streptomyces coelicolor A3(2) (232)

Repository

pride (233)
MetaboLights (7)
GNPS (1)

Tissue

Cell culture (38)
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Disease

Alzheimer's disease (6)
Disease free (5)
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Fanconi-like syndrome (1)
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Hepatitis E (1)
Hepatoblastoma (1)
Lewy body dementia (1)
Parkinson's disease (1)
Pick's disease (1)

Technology Type

Mass Spectrometry (233)
Bottom-up proteomics (83)
Shotgun proteomics (73)
Data-independent acquisition (64)
Data-dependent acquisition (46)
DiaPASEF (16)
Affinity purification coupled with mass spectrometry proteomics (13)
SWATH MS (9)
All-ion fragmentation (7)
Mass spectrometry assay (4)
Gel-based experiment (4)
Immunopeptidomics (3)
Mass spectrometry (2)
Top-down proteomics (2)
NMR spectroscopy assay (1)
Affinity proteomics (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
SRM/MRM (1)

Instrument Platform

Liquid Chromatography MS - negative (2)
Liquid Chromatography MS - positive (2)
Liquid Chromatography MS - positive - reverse-phase (2)
Liquid Chromatography MS - negative - reverse-phase (2)
Bruker Daltonics instrument model (1)
Tims TOF Pro Bruker (1)
Liquid Chromatography MS - - reverse phase (1)
Nuclear Magnetic Resonance (NMR) - (1)
Liquid Chromatography MS - alternating - reverse phase (1)
Liquid Chromatography MS - positive - reverse phase (1)

Publication Date

2025 (63)
2026 (61)
2024 (45)
2022 (29)
2023 (26)
2021 (9)
2020 (5)
2019 (2)
2018 (1)

CHEBI ID

CHEBI:27570 (2)
CHEBI:16704 (2)
CHEBI:30772 (2)
CHEBI:15366 (2)
CHEBI:16856 (2)
CHEBI:17858 (2)
CHEBI:18012 (2)
CHEBI:16449 (2)
CHEBI:16027 (2)
CHEBI:30769 (2)
CHEBI:137613 (1)
CHEBI:137608 (1)
CHEBI:137607 (1)
CHEBI:138543 (1)
CHEBI:89055 (1)
CHEBI:229635 (1)
CHEBI:91171 (1)
CHEBI:156018 (1)
CHEBI:71856 (1)
CHEBI:156011 (1)
CHEBI:178455 (1)
CHEBI:134240 (1)
CHEBI:61282 (1)
CHEBI:134028 (1)
CHEBI:229266 (1)
CHEBI:71854 (1)
CHEBI:32664 (1)
CHEBI:57540 (1)
CHEBI:156010 (1)
CHEBI:156019 (1)

Metabolite Name

LPE 17:1 (2)
LPE 16:1 (2)
LPE 18:1 (2)
Glutathione (2)
Uridine (2)
ST 27:0;O5 (1)
ST 26:4;O2;Gly (1)
ST 26:3;O2;Gly (1)
ST 26:2;O2 (1)
ST 26:1;O2 (1)
ST 26:0;O5 (1)
ST 24:5;O3 (1)
ST 24:1;O4;Tau (1)
ST 24:1;O3 (1)
ST 21:4;O2 (1)
ST 21:1;O3 (1)
ST 20:1;O2;S (1)
ST 19:2;O (1)
ST 19:0 (1)
ST 18:1;O2;S (1)
SPB 20:3;O (1)
SPB 20:2;O (1)
SPB 18:3;O (1)
SM 40:5;O2 (1)
SHexCer 40:5;O2 (1)
SHexCer 40:4;O3 (1)
SHexCer 40:4;O2 (1)
SHexCer 40:3;O3 (1)
SHexCer 40:2;O2 (1)
SHexCer 38:5;O3 (1)

Modification

4 (1)
4-tetrahydrothiazine-3-carboxylic acid (1)

Release Date

2024 (3)
2025 (2)
2022 (1)
2018 (1)

Lab affiliation

Department of Neurobiology, Boston Children's Hospital, Harvard Medical School, Boston, MA, USA (3)
Dept. Oncology-Pathology, Scilifelab, Karolinska Institutet, Sweden (3)
Dpt. of Immunobiology University of Lausanne (UNIL), Boveresses 155 CH-1066 Epalinges (3)
Cancer Research Center of Toulouse, INSERM UMR 1037, 31037 Toulouse, France Université Toulouse III Paul Sabatier, 31330 Toulouse, France (2)
College of Agriculture, Nanjing Agricultural University, Nanjing, China (2)
Crick-GSK LinkLabs, UK (2)
Dep. of Oncology-Pathology, Karolinska Institutet, Scilifelab, Stockholm, Sweden (2)
Department of Immunology, University of Oslo, Norway (2)
Dpt. of Immunobiology, University of Lausanne, Chemin de Boveresses 155, 1066 Epalinges, Switzerland (2)
Institut Cochin, Inserm U 1016, CNRS UMR 8104, Université Paris Cité. (2)
Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, Université Toulouse III - Paul Sabatier (UT3), Toulouse, France (2)
Institute of Pharmacology and Structural Biology, CNRS, Toulouse, France (2)
Lerner Research Institute, Cleveland Clinic (2)
Normandie Univ, UNICAEN, INRAE, UMR EVA, SFR Normandie Végétal FED4277, Esplanade de la Paix, F-14032 Caen, France (2)
Professor, Microbiology, Immunology, and Pathology Mycobacteria Research Laboratories Scientific Director, Rocky Mountain Regional Biocontainment Laboratory Editor-in-chief, BMC Mycobacteria (2)
Research Unit in Biology of Microorganisms (URBM), Namur Research Institute for life Sciences (Narilis), University of Namur, Namur, Belgium (2)
ULB Neuroscience Institute (UNI) Université Libre de Bruxelles (ULB) B-6041 Gosselies, Belgium. (2)
UMR_S1134 Inserm/Université Paris Cité, Paris, France (2)
UMS Biosit - CNRS 3480 - Inserm 018 Campus de Beaulieu - Bâtiment. 24 - CS2407 263 Avenue du Général Leclerc 35042 RENNES CEDEX FRANCE (2)
University of Copenhagen Faculty of Health and Medical Sciences Department of Biomedical Sciences (2)
University of South Florida (2)
Université Paris Cité, Institut Cochin, INSERM, CNRS, F-75014 PARIS, France (2)
1 Ecole Pratique des Hautes Etudes, EPHE, Université Paris Sciences et Lettres, Paris, France, 2 Nantes Université, CNRS, INSERM, l'Institut du Thorax, F-44000 Nantes, France, 3 Laboratoire d’Excellence GR-Ex, Paris, France, 75010 (1)
1. INSERM U1287, Université Paris-Saclay, Gustave Roussy Cancer Center, Villejuif, France 2. Université Paris-Saclay, Faculté de Médecine, Le Kremlin-Bicêtre, France (1)
1. Institut de Pharmacologie et de Biologie Structurale (IPBS), CNRS, Université de Toulouse (UT), Toulouse, 31077, France 2. Infrastructure Nationale de Protéomique, ProFI, UAR 2048, Toulouse, France (1)
1. Paris-Cité university, Cochin institute CNRS UMR8104, Inserm U1016, 24 rue du faubourg Saint Jacques 75014 Paris, France 2. Department of Endocrinology and National Reference Center for Rare Adrenal Disorders, Cochin hospital, Assistance Publique Hôpitaux de Paris, 24 rue du faubourg Saint Jacques 75014 Paris, France (1)
1College of Horticulture, Shenyang Agricultural University, Shenyang, 11086, Liaoning, China 2Institute of Horticulture Crops, Xinjiang Academy of Agricultural Sciences, Urumqi 830091, Xinjiang, China (1)
1Department of Biochemistry, School of Medicine, Case Western Reserve University, Cleveland, OH, 44106 (1)
1Department of Biomedical Sciences, University of Copenhagen, Copenhagen, Denmark (1)
1Laboratory of Vector-Pathogen Biology, Proteomic Platform, Departmet of Molecular Biology, Université Libre de Bruxelles (1)

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High-confidence untargeted lipidomics of mammalian serum using LC-TIMS-PASEF

This study aimed to establish and validate a robust untargeted lipidomics workflow for the analysis of human serum using reversed-phase liquid chromatography coupled to trapped ion mobility spectrometry time-of-flight mass spectrometry (RP-LC-TIMS-TOF MS). Commercial pooled human serum was used a...

2026-05-26 | MTBLS14002 | MetaboLights

Online parallel accumulation – serial fragmentation (PASEF) with a novel trapped ion mobility mass spectrometer

In bottom-up proteomics, peptides are separated by liquid chromatography with elution peak widths in the range of seconds, while mass spectra are acquired in about 100 microseconds with time-of-fight (TOF) instruments. This allows adding ion mobility as a third dimension of separation. Among several...

ORGANISM(S): Homo sapiens (Human) Escherichia coli

2018-11-06 | PXD010012 | Pride

Proteomic analysis of PilQ complexes in Pseudomonas aeruginosa using TIMS-TOF mass spectrometry

Proteomic analysis was conducted to identity proteins associated with the PilQ secretin complex in Pseudomonas aeruginosa. Samples were analyzed using a trapped ion mobility spectrometry time-of-flight (TIMS-TOF) mass spectrometer. The dataset includes raw mass spectrometry data and processed identi...

ORGANISM(S): Pseudomonas aeruginosa PAO1

2026-06-01 | PXD077666 | Pride

Proteomics Pilq Tims-tof Pseudomonas aeruginosa

Optimized Time-Segmented Acquisition Expands Peptide and Protein Identification in TIMS-TOF Pro Mass Spectrometry.

Not available

S-EPMC11811991 | biostudies-literature

Synchro-PASEF slices peptide precursors enabling specific fragment extraction and interference removal in data independent acquisition

Data independent acquisition methods have become increasingly popular in mass spectrometry (MS)-based proteomics because they enable parallel and continuous acquisition of fragment spectra. However, these advantages come with the challenge of correctly reconstructing the precursor-fragment relations...

ORGANISM(S): Bos taurus (Bovine) Candida albicans (Yeast) Homo sapiens (Human) Oryctolagus cuniculus (Rabbit)

2023-03-10 | PXD037766 | Pride

Pasef Tof Rapid analysis Tims Data-independent acquisition Scan mode

dia-PASEF analysis of human amygdala in Alzheimer’s disease

ORGANISM(S): Homo sapiens (Human)

2023-06-28 | PXD038322 | Pride

Dia-pasef Alzheimer Human Amygdala

Rapid and in-depth coverage of the (phospho-)proteome with deep libraries and optimal window design for dia-PASEF

Data-independent acquisition (DIA) methods have become increasingly attractive in mass spectrometry (MS)-based proteomics, because they enable high data completeness and a wide dynamic range. Recently, we combined DIA with parallel accumulation – serial fragmentation (dia-PASEF) on a Bruker trapped ...

ORGANISM(S): Homo sapiens (Human)

2022-08-11 | PXD034128 | Pride

Pasef Egf Tims Data-independent acquisition Phosphoproteomics Systems biology

Optimized Time-segment Acquisition Expands Peptide and Protein Identification in TIMS-TOF Pro Mass Spectrometry

We introduce a novel approach, termed time-segment acquisition (Seg), to enhance the identification of peptides and proteins in trapped ion mobility spectrometry (TIMS)-Time of flight (TOF) mass spectrometry. Our method exploits the positive correlation between ion mobility values and liquid chromat...

ORGANISM(S): Homo sapiens (Human)

2024-12-22 | PXD051790 | Pride

Phosphoproteomics Timstof Ion mobility ms Tims Proteomics

Online Parallel Accumulation-Serial Fragmentation (PASEF) with a Novel Trapped Ion Mobility Mass Spectrometer.

Not available

S-EPMC6283298 | biostudies-literature

Bottom-up Histone Post-translational Modification Analysis using Liquid Chromatography, Trapped Ion Mobility Spectrometry, and Tandem Mass Spectrometry.

Not available

S-EPMC11843575 | biostudies-literature

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