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ProteomicsAge-dependent hippocampal proteomics in the APP/PS1 Alzheimer mouse model: a comparative analysis with classical SWATH/DIA and directDIA approaches
Alzheimer’s disease (AD) is the most common neurodegenerative disorder in the human population, for which there is currently no cure. The cause of AD is unknown, however, the toxic effects of amyloid-β (Aβ) are believed to play a role in its onset. To investigate this, we examined changes in global ...
ORGANISM(S): Mus musculus (Mouse) 
2021-06-24 | PXD025777 | Pride
Proteomics Alzheimer Microglia App/ps1 mouse model Directdia Ms-dap 
ProteomicsComparative analyses of data independent acquisition mass spectrometric approaches: DIA, WiSIM-DIA and directDIA
With a multitude of DIA approaches developed recently, many of their features are not yet well explored. In this study we make use of a biologically relevant sample, the synaptosome, as a model to compare the spectral libraries generated by (1) DDA solely on Orbitrap (OT), (2) Orbitrap for MS1 scan...
ORGANISM(S): Mus musculus (Mouse) 
2017-11-20 | PXD006934 | Pride
Wisim-dia Lc-ms/ms Dia Wisim Dda Directdia 
UnknownAge-Dependent Hippocampal Proteomics in the APP/PS1 Alzheimer Mouse Model: A Comparative Analysis with Classical SWATH/DIA and directDIA Approaches.
Not available
S-EPMC8304546 | biostudies-literature
ProteomicsStimulated rat saliva LC-MS/MS.
We applied the next-generation proteomic methodology (directDIA) to compare qualitatively and quantitatively stimulated rat saliva specimens obtained from pilocarpine alone and pilocarpine in combination with isoprenaline.
ORGANISM(S): Rattus norvegicus (Rat) 
2026-05-13 | PXD057666 | Pride
Lc-msms Rat Pilocarpine Saliva Isoprenaline Directdia 
ProteomicsLibrary-free BoxCarDIA solves the missing value problem in label-free quantitative proteomics
The last decade has seen significant advances in the application of quantitative mass spectrometry-based proteomics technologies to tackle important questions in plant biology. The current standard for quantitative proteomics in plants is the use of data-dependent acquisition (DDA) analysis with or ...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2021-05-11 | PXD022448 | Pride
Arabidopsis Label-free Boxcar Dia Directdia Data acquisition 
UnknownData-independent acquisition boosts quantitative metaproteomics for deep characterization of gut microbiota.
Not available
S-EPMC9873935 | biostudies-literature
ProteomicsEffect of 3’,4’-dihydroxyflavonol eye drops in a rat model of dispase-induced proliferative vitreoretinopathy
Proliferative vitreoretinopathy (PVR) was induced in a rat model using intravitreal dispase to study fibrosis- and inflammation-related proteome changes and to evaluate the therapeutic effect of topical 3’,4’-dihydroxyflavonol (DiOHF) eye drops. Retina and vitreous were collected 28 days post-injury...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2026-01-05 | PXD068151 | Pride
Arpe-19 3’ 4’-dihydroxyflavonol Proliferative vitreoretinopathy  proteomics  rat mod-el of dispase-induced pvr. 
ProteomicsCreatine kinase B, a downstream effector of MYB, controls migration of osteosarcoma cells via regulation of N-cadherin
A study aimed at identification of proteins associated with CRISPR/Cas-induced depletion of creatine kinase B (CKB) in SAOS-LM5 metastatic osteosarcoma cell line using LC-MS/MS in data-independent acquisition (DIA)-parallel accumulation serial fragmentation (diaPASEF) mode. Here we prepared two KO c...
ORGANISM(S): Homo sapiens (Human) 
2026-01-23 | PXD065263 | Pride
Pasef Cell migration Creatine kinase b Data independent acquisition Osteosarcoma 
Proteomicsdichotomic size-exclusion chromatography（SEC）
directDIA proteomics raw data of plasma extracellular vesicles isolated by SEC and UC
ORGANISM(S): Homo Sapiens 
PXD026034 |
ProteomicsThe phosphoproteome of the coral model system Aiptasia
The endosymbiotic interaction established by cnidarians and photosynthetic dinoflagellate algae is the foundation of coral reef ecosystems. This essential interaction is globally threatened to breakdown by anthropogenic disturbance. As such, it is compelling to understand the molecular mechanisms un...
ORGANISM(S): Exaiptasia pallida 
2019-11-06 | PXD014076 | Pride
Aiptasia Cnidarian Coral-model Spectral library Dia/swath-ms Dda Quantification 
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