Tims-tof ht - OmicsDI

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Proteomics (17)
Metabolomics (1)

Organisms

Archaea (16)
Bacteria (16)
Betaherpesvirinae (16)
Borrelia (16)
Botrytis cinerea (16)
Candida albicans (16)
Clostridium perfringens (16)
Cnidaria (16)
Eukaryota (16)
Fasciola (16)
Fungi (16)
Hepatitis B virus (16)
Human betaherpesvirus 5 (16)
Influenza C virus (16)
Japanese encephalitis virus group (16)
Miscanthus x giganteus (16)
Mycobacterium tuberculosis (16)
Orthoflavivirus (16)
Panicum virgatum (16)
Platyhelminthes (16)
Rattus (16)
Saccharomyces cerevisiae (16)
Salmonella enterica subsp. enterica (16)
Schizosaccharomyces pombe (16)
Severe acute respiratory syndrome coronavirus 2 (16)
Staphylococcus aureus (16)
Streptococcus pneumoniae (16)
Toxoplasma gondii (16)
Tripsacum dactyloides (16)
Trypanosoma cruzi (16)

Repository

pride (16)
MassIVE (1)
MetaboLights (1)

Tissue

Blood plasma (1)
Epithelial cell (1)
HeLa cell (1)
Infected cell (1)
Keratinocyte (1)
Microglial cell (1)
Sciatic nerve (1)
Skin (1)
Transitional cell carcinoma cell (1)
Urinary bladder carcinoma cell line (1)

Disease

Tuberculosis (1)
Urinary bladder cancer (1)

Technology Type

Mass Spectrometry (16)
Data-dependent acquisition (6)
Data-independent acquisition (5)
Bottom-up proteomics (4)
DiaPASEF (4)
Affinity purification coupled with mass spectrometry proteomics (2)
Mass spectrometry assay (1)
Affinity proteomics (1)
Gel-based experiment (1)
SWATH MS (1)
Shotgun proteomics (1)

Instrument Platform

TimsTOF HT (1)
Liquid Chromatography MS - positive - reverse phase (1)
Liquid Chromatography MS - negative - reverse phase (1)

Publication Date

2026 (9)
2025 (7)
2024 (2)

Metabolite Name

Oligosaccharides (1)
Diterpene glycosides (1)
Cardenolides and derivatives (1)
Sophorolipids (1)
Purine nucleotides (1)
Flavonoid C-glycosides (1)
Pyrimidine nucleotide sugars (1)
Rhamnofolane and daphnane diterpenoids (1)
Benzodiazepines (1)
Fatty acyl glycosides of mono- and disaccharides (1)
Disaccharides (1)
Trichothecenes (1)
Coumaric acids and derivatives (1)
Pectolinarigenin 7-glucuronide|Flavonoid O-glycosides (1)
8-[[2-(3,4-dimethoxyphenyl)-5-methyl-1,3-oxazol-4-yl]methylsulfanyl]-2,9-dimethyl-1H-purin-6-one|Benzenesulfonamides (1)
Flavonoid O-glycosides (1)
Glycosyl compounds (1)
Pyrrolocarbazoles (1)
Dihydropyridines (1)
Lipids and lipid-like molecules (1)
Very long-chain fatty acids (1)
Straight chain fatty acids (1)
Azoles (1)
Hydroxy fatty acids (1)
2,2-dimethyl-1-benzopyrans (1)
Branched fatty acids (1)
Diazines (1)
Fluorobenzenes (1)
Aryl chlorides (1)
Butenolides (1)

Lab affiliation

University of York (5)
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)
Department of Pharmaceutical Sciences, Faculty of Life Sciences, University of Vienna (1)
Hainan University (1)
Inserm UMR1141 NeuroDiderot, Univ. Paris Diderot, Sorbonne Paris Cité, Paris, France. Laboratory of Child Growth and Development, University of Geneva, Geneva, Switzerland. Division of Neonatology and Pediatric Intensive Care, Children's University Hospital of Geneva, Geneva, Switzerland. (1)
Institute of Systems, Molecular and Integrative Biology, University of Liverpool, Crown Street, Liverpool L69 7ZB United Kingdom MOE Key Laboratory of Evolution and Marine Biodiversity, Frontiers Science Center for 10 Deep Ocean Multispheres and Earth System & College of Marine Life Sciences, Ocean University of China, Qingdao 266003, China. (1)
Max-Planck Institute of Biophysics (1)
Newcastle University, Translational and cliniclal research institute, UK (1)
OncoProteomics Laboratory, Dept of Medical Oncology, Amsterdam University Medical Center, Amsterdam, The Netherlands (1)
Section for Translational Surgical Oncology and Biobanking, Department of Surgery, University of Lübeck and University Hospital Schleswig-Holstein, Campus Lübeck, Germany (1)
University Hospital Schleswig-Holstein, Campus Lübeck, Department of Surgery (1)
Wuhan university, China (1)

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Pull down of enzymes using alpha-amylase activity based probes from Bacteroides thetaiotaomicron lysate

This experiment aimed to identify GH13 alpha-amylaases from Bacteroides thetaiotaomicron lysate using activity based probes.

ORGANISM(S): Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482)

2025-06-16 | PXD053850 | Pride

Pull down of enzymes using alpha-amylase activity based probes from a complex compost sample

This experiment aimed to identify new GH13 alpha-amylaases from a complex compost sample using activity based probes. The substrate specificities of these novel enzymes could also be assigned by using -1 and -2 branched activity based probes.

ORGANISM(S): Parageobacillus toebii Geobacillus thermodenitrificans Pseudoxanthomonas suwonensis J47 Aeribacillus pallidus

2025-06-16 | PXD053848 | Pride

Alpha-amylases Tims-tof ht Activity-based probes Pull-down Glycoside hydrolase

SopD2-UltraID-HA_Styphimurium-HeLa_Brumell_2025

Dataset contains files from HeLa cells infected with UltraID-SopD2-HA-expressing Salmonella typhimurium. Cells were supplied with biotin and lysed in modified RIPA buffer. Lysates were incubated with streptavidin sepharose and captured proteins were digested with trypsin. Samples were analyzed on TI...

ORGANISM(S): Salmonella Typhimurium Dt104 (ncbitaxon:85569) Homo Sapiens (ncbitaxon:9606)

2025-08-19 | MSV000098876 | MassIVE

Quantitative proteomic analyses of phage WCHPA-P1 infected Pseudomonas aeruginosa

This project aims to conduct a proteomic analysis of the infection of Pseudomonas aeruginosa strain by bacteriophage WCHPA-P1. The proteome of the host bacterium was examined at 20 minutes and 50 minutes post-infection with WCHPA-P1 phage.

ORGANISM(S): Pseudomonas aeruginosa

2026-05-31 | PXD074315 | Pride

Pseudomonas aeruginosa strain pseudomonas phage

Pull down of enzymes using xylanase activity based probes from Clostridium thermocellum

This experiment aimed to identify GH10 xylanases from Clostridium thermocellum secretome sample using activity based probes.

ORGANISM(S): Acetivibrio thermocellus DSM 2360

2026-06-23 | PXD065060 | Pride

Clostridium thermocellum Activity-based probes Xylanases

Pull down of enzymes using xylanase activity based probes (ABPs) from Chaetomium globosum secretome

This project aimed at using ABPs for anticipation of arabinoxylan-specific xylanases activities in complex biological samples.

ORGANISM(S): Chaetomium globosum

2026-06-23 | PXD065106 | Pride

Activity-based probes Xylanase Chaetomium globosum

Pull down of enzymes using xylanase activity based probes (ABPs) from Bacillus subtilis secretome

This experiment aimed to identify GH5/10/30 arabinoxylan and glucuronoxylan-specific xylanases from secretomes produced by Bacillus subtilis using decorated activity based probes.

ORGANISM(S): Bacillus subtilis

2026-06-23 | PXD065065 | Pride

Activity based probes Xylan Bacillus subtilis Xylanases

A c-di-AMP receptor mediates epithelial adhesion of Lactiplantibacillus plantarum

Cyclic di-adenosine monophosphate (c-di-AMP) is a crucial second messenger used by bacteria to mediate bacterial-host interactions. However, its roles in Lactiplantibacillus plantarum remain poorly understood. Here, we identify RwpL, which consists solely of an HTH domain, as a c-di-AMP receptor in ...

ORGANISM(S): Lactobacillus plantarum WCFS1

2026-05-25 | PXD078286 | Pride

Colonization C-di-amp Lactiplantibacillus plantarum

Sildenafil Combined with Controlled Hypothermia Mitigates Microglial Activation After Neonatal Hypoxia-Ischemia in Rat.

The only validated treatment to prevent brain damage associated with hypoxia-ischemia (HI) encephalopathy of the newborn is controlled hypothermia with limited benefits. Additional putative neuroprotective drug candidates include sildenafil citrate, a phosphodiesterase-type 5 inhibitor. The main obj...

ORGANISM(S): Rattus norvegicus (Rat)

2024-04-30 | PXD045168 | Pride

Label free Hypoxia-ischemia Dia Microglia

A new role for lipoproteins LpqZ and FecB in orchestrating mycobacterial cell envelope biogenesis

Accounting for more deaths than any other bacterial species, Mycobacterium tuberculosis (Mtb) represents a critical threat to public health worldwide. A key factor contributing to Mtb's virulence is its unique cell envelope, which acts as a protective barrier. Among the components of this envelope, ...

ORGANISM(S): Mycobacterium marinum ATCC BAA-535 Bacteria

2025-12-12 | PXD069594 | Pride

Marinum Mycobacterium Tuberculosis Lipoarabinomannan Arabinogalactan

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