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ProteomicsBoxCar and Shotgun Proteomic Analyses Reveal Molecular Networks Regulated by UBR5 in Prostate Cancer
The project aims to compare BoxCar and shotgun proteomics in identifying proteins regulated by UBR5 in prostate cancer cells.
ORGANISM(S): Homo sapiens (Human) 
2022-02-22 | PXD026382 | Pride
Xrcc3 Proteomics Prostate cancer Network Boxcar Shotgun Ubr5 Fancd2 
ProteomicsShort Gradient Multi-CV FAIMSpro BoxCar DIA Facilitates Quantitative Time-Course Analysis of Osmotic and Salt Stress in Arabidopsis thaliana – Technical Dataset
A major limitation in quantitative time-course proteomics is the tradeoff between depth-of-analysis and speed-of-analysis. In high complexity, high dynamic samples such as plant extracts, this is tradeoff is especially apparent. To address this, we evaluate multiple composition voltage (CV) High Fie...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2024-01-26 | PXD038989 | Pride
Boxcardia Faimspro Arabidopsis thaliana Directdia 
ProteomicsShort Gradient Multi-CV FAIMSpro BoxCar DIA Facilitates Quantitative Time-Course Analysis of Osmotic and Salt Stress in Arabidopsis thaliana - Abiotic Stress Dataset
A major limitation in quantitative time-course proteomics is the tradeoff between depth-of-analysis and speed-of-analysis. In high complexity, high dynamic samples such as plant extracts, this is tradeoff is especially apparent. To address this, we evaluate multiple composition voltage (CV) High Fie...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2024-01-26 | PXD039004 | Pride
Boxcardia Faimspro Arabidopsis thaliana Directdia 
ProteomicsIntegrated systems-level proteomics and metabolomics reveals the diel molecular landscape of diverse Kale cultivars
Brassica oleracea and Brassica napus are comprised of diverse cultivars that collectively constitute an important global food source. Of those, the Brassica oleracea convar. acephala cultivar group containing var. sabellica and var. palmifolia and Brassica napus var. pabularia, collectively known as...
ORGANISM(S): Brassica napus (Rape) Brassica oleracea (Wild cabbage) 
2023-07-26 | PXD031780 | Pride
Light emitting diodes Boxcar dia proteomics Kale 
ProteomicsA mouse model of Fragile X Syndrome analyzed by quantitative proteomics: a comparison of methods
We have compared the performance of seven different strategies in the analysis of a mouse model of Fragile X Syndrome, involving the knockout of the fmr1 gene that is the leading cause of autism spectrum disorder. Focusing on the cerebellum, we show that Data-Independent Acquisition (DIA) and the TM...
ORGANISM(S): Mus musculus (Mouse) 
2023-08-21 | PXD039885 | Pride
Quantitative proteomics Boxcar Complementary ion quantification Dia Method comparison Label-free Tmt labeling Mouse brain proteomics Fragile x syndrome 
ProteomicsIn-depth plasma proteome profiling of COVID-19 patients
Coronavirus disease 2019 (COVID-19) is an unprecedented global threat caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The COVID-19 pandemic is a global health crisis. Recent reports have exposed an astonishing case fatality rate of 61.5% for critical cases, increasing sharply...
ORGANISM(S): Homo sapiens (Human) 
2021-05-15 | PXD020354 | Pride
Covid-19 Boxcar Plasma Label-free quantification 
ProteomicsQuantitative proteomics of PWK/PhJ liver and heart tissues
Proteomic analysis of liver and heart tissues from PWK/PhJ mice, both male and female mice on a standard Chow diet (CD) and Western Diet (WD)
ORGANISM(S): Mus musculus (Mouse) 
2026-04-20 | PXD068595 | Pride
Boxcar lc-ms/ms Liver Heart 
UnknownPancreatic Tissue Proteomics Unveils Key Proteins, Pathways, and Networks Associated with Type 1 Diabetes.
Not available
S-EPMC7773157 | biostudies-literature
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 
ProteomicsTargeting ERK-eIF4E Protein Translational Signaling in an Inflammatory Breast Cancer Model of Acquired Resistance and Reversal with an Altered Profile of Ribosomal Proteins Associated with Pathological Complete Response in Patients
Monolayer cells were lysed with RIPA buffer followed by a BCA assay. 25 micrograms of protein was normalized with 5% SDS (w/v) in TEAB, pH 8.5 reduction with 10 mM DTT at 80 degC for 15 min and alkylation with with 25 mM IAM ifor 30 min. SDS was removed, and samples were digested with 1:15 of Sequen...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-03-07 | MSV000094251 | MassIVE
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