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ProteomicsHiRIEF deep proteomics of A431 human vulvar cancer cell line and N2A mouse neuroblastoma cell line
Here we present high resolution data from two cancer cell lines. A human cell line, A431 was treated with a drug at different time points and then fractionated into its different subcellular compartments (nuclear, organellar, soluble,whole cell). Protein extracts were trypsinized, peptides separated...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2013-09-27 | PXD000065 | Pride
Mouse Lc-ms Hirief Isoelectric focusing Cancer N2a Human A431 
ProteomicsProteomic screen reveals Fbw7 as a modulator of the NF-kB pathway
Proteomics on HCT116 cells. 3 samples wild-type, 3 samples Fbw7 KO. Subcellular fractionation to cytoplasmic and nuclear fractions. Proteins were reduced with DTT, alkylated with iodoacetamide, digested with trypsin, and labelled with TMT6-plex: 126,127,128 - wildtype; 129,130,131 - Fbw7 KO. Sample...
ORGANISM(S): Homo sapiens (Human) 
2012-06-29 | PXD000005 | Pride
Lc-msms orbitrap human colon epithelium fbw7 hirief 
TranscriptomicsRNA-seq of A431 cell line after gefitinib treatment
RNA sequencing of A431 cell line samples before and after gefitinib treatment, at 0, 2, 6 and 24 hours, was performed in order to characterize the cell line's early and late response to this drug, and to compare against proteomics (mass spectrometry) characterization of the cell line using the same ...
ORGANISM(S): Homo sapiens 
2016-12-01 | E-MTAB-5285 | biostudies-arrayexpress
ProteomicsProteomics on post-mortem human brain tissue of patients with Alzheimer`s, Parkinson`s and Lewy body dementias, Brodmann areas (BA) 9, 24 and 40.
We have used HiRIEF (High Resolution Isoelectric Focusing) LC-MS proteomics (Branca et al., 2014, PMID: 24240322) with isobaric tags (TMT10plex) to compare 32 post-mortem human brains in the prefrontal cortex (Brodmann areas 24 and 40) of prospectively followed patients with Alzheimer`s disease (AD)...
ORGANISM(S): Homo sapiens (Human) 
2024-06-10 | PXD047324 | Pride
Human Post-mortem Alzheimer Brain Lewy body dementia Tmt Autopsy Parkinson Brodmann area Hirief Lcms proteomics 
ProteomicsDOPA formation on tyrosine Y150 of Ribonucleotide reductase QSK R2e variant from Gardnerella vaginalis.
With a crystal structure and mass spectrometry on recombinantly expressed and purified Ribonucleotide reductase QSK R2e variant from Gardnerella vaginalis we show that this protein has a modified DOPA (3,4-Dihydroxy-L-phenylalanine) in the active site analogous to what was observed for the VPK varia...
ORGANISM(S): Gardnerella vaginalis 
2023-09-08 | PXD045227 | Pride
Qexactive hf 3 Ptm Gardnerella vaginalis 4-dihydroxyphenylalanine Tyrosine Ribonuclotide reductase Dopa 
ProteomicsImmunopeptidome of Human Renal Cell Carcinoma (RCC) derived cells infected with oncolytic viruses.
In this study we demonstrate the effect of oncolytic adenoviruses armed with CXCL9, CXCL10 and IL-15 to infect cancer cells, secrete the encoded protein and drive gradient-dependent T-cell attraction. Our in vivo validation demonstrated an increased intratumoral CD4+ and CD8+ T-cell infiltration fol...
ORGANISM(S): Homo sapiens (Human) 
2025-05-06 | PXD051880 | Pride
Oncolytic adenovirus Human Pepticrad Ligandome Immunopeptidome Hla-i Mhc-i Rcc Il-15 Cxcl10 Cxcl9 
ProteomicsImmunopeptidomics by use of a microfluidics chip.
A microfluidics technology was implemented to the immunoaffinity purification process of MHC peptides in Ligandomics/Immunopeptidomics. The thus purified HLA peptides were analysed by LCMS with the nanoElute LC and TimsTOF Pro Mass Spectrometer from Bruker. The aim of the microfluidics implementatio...
ORGANISM(S): Homo sapiens (Human) 
2022-02-17 | PXD022194 | Pride
Human Bladder cancer Ligandome Patient derived organoid Hla-i Renal cell carcinoma Microfluidics Ovarian cancer Immunopeptidome Jy cell line Chip Mhc-i Rcc 
ProteomicsImmunopeptidomics of malignant mesothelioma to identify target antigens for T cell Immunotherapy
Immunoaffinity purification was performed on human mesothelioma cell lines NCI-H2452, NCI-H28, MSTO-211H and JL1, on murine mesothelioma cell line AB12, as well as on mesothelioma samples from two patients (including tumor and benign tissues). Thereafter Immunopeptidomics by Mass Spectrometry on a T...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2023-09-08 | PXD038273 | Pride
Jl1 H28 Msto211h Ab12 Ligandome Malignant pleural mesothelioma Cell lines Immunopeptidome Ligandomics Immunopeptidomics H2452 Cancer 
ProteomicsImmunopeptidome of Renal Cell Carcinoma (RCC) and Bladder Cancer (BC) Patient-Derived Tumor Organoids (PDTOs)
Patient-Derived Tumor Organoids (PDTOs) have emerged as physiologically relevant systems, retaining genomic and phenotypic features of patient tumors and enabling drug response prediction. Here, we established a patient-specific pipeline to evaluate precision immunotherapy in Renal Cell Carcinoma (R...
ORGANISM(S): Homo sapiens (Human) 
2026-08-24 | PXD068567 | Pride
Ligandome Pdtos Mhc Hla-i Dda Immunopeptidomics Hla Immunopeptidome Ligandomics Patient-derived tumor organoids Renal cell carcinoma Rcc Timstof scp Mhc-i Bladder cancer 
ProteomicsLabel free HiRIEF deep proteomics of A431 human vulvar cancer cell line.
Human A431 cells were lysed. Protein extracts were trypsinized, peptides separated by HiRIEF (high resolution isoelectric focusing) and analysed by LC-MS.
ORGANISM(S): Homo sapiens (Human) 
2019-12-16 | PXD000542 | Pride
Lc-ms Hirief Isoelectric focusing Cancer Human A431 
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