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ProteomicsFunctional proteomics-based investigation of the cellular response to farnesyl transferase inhibition in lung cancer (farnesylated proteins pull-down)
The subcellular localization of proteins can be highly dynamic and regulated by post-translational modifications. Farnesylation is a lipid modification that enables anchoring of proteins to cellular membranes, and thus, spatially resolved signaling and activity. Due to the importance of farnesylatio...
ORGANISM(S): Homo sapiens (Human) 
2025-04-09 | PXD050725 | Pride
Proteomics Lung cancer Human Farnesylation Cell line Lc-ms/ms 
ProteomicsFunctional proteomics-based investigation of the cellular response to farnesyl transferase inhibition in lung cancer (subcellular localization and relocalization analysis)
The subcellular localization of proteins can be highly dynamic and regulated by post-translational modifications. Farnesylation is a lipid modification that enables anchoring of proteins to cellular membranes, and thus, spatially resolved signaling and activity. Due to the importance of farnesylatio...
ORGANISM(S): Homo sapiens (Human) 
2025-05-19 | PXD050490 | Pride
Proteomics Tipifarnib Lung cancer Human Farnesylation Subcellular Hirief Cell line Lc-ms/ms 
Proteomics: Functional proteomics-based investigation of the cellular response to farnesyl transferase inhibition in lung cancer (PTP4A1 silencing and IFN treatment of NCI-H1944 cells)
The subcellular localization of proteins can be highly dynamic and regulated by post-translational modifications. Farnesylation is a lipid modification that enables anchoring of proteins to cellular membranes, and thus, spatially resolved signaling and activity. Due to the importance of farnesylatio...
ORGANISM(S): Homo sapiens (Human) 
2025-05-13 | PXD050446 | Pride
Proteomics Lung cancer Human Interferon Ptp4a1 Hirief Cell line Lc-ms/ms 
ProteomicsFunctional proteomics-based investigation of the cellular response to farnesyl transferase inhibition in lung cancer (tipifarnib treatment of lung cancer cells)
The subcellular localization of proteins can be highly dynamic and regulated by post-translational modifications. Farnesylation is a lipid modification that enables anchoring of proteins to cellular membranes, and thus, spatially resolved signaling and activity. Due to the importance of farnesylatio...
ORGANISM(S): Homo sapiens (Human) 
2025-05-13 | PXD050480 | Pride
Proteomics Tipifarnib Lung cancer Human Hirief Cell line Lc-ms/ms 
ProteomicsLabel-free mass spectrometry-based proteomics of lung cancer FFPE glass slides
Formalin-fixed, paraffin-embedded (FFPE) is the most common method for preserving tissue material in the clinic with millions of specimens stored in biobanks around the world. However, FFPE samples present challenges for molecular profiling, including proteomics. Nonetheless, optimized sample prepar...
ORGANISM(S): Homo sapiens (Human) 
2026-05-26 | PXD072014 | Pride
Dia Ffpe Label-free proteomics Tumor Lung cancer Lc-ms/ms 
ProteomicsLabel-free mass spectrometry-based proteomics of lung cancer FFPE scrolls
Formalin-fixed, paraffin-embedded (FFPE) is the most common method for preserving tissue material in the clinic with millions of specimens stored in biobanks around the world. However, FFPE samples present challenges for molecular profiling, including proteomics. Nonetheless, optimized sample prepar...
ORGANISM(S): Homo sapiens (Human) 
2026-05-26 | PXD071948 | Pride
Dia Ffpe Label-free proteomics Tumor Lung cancer Lc-ms/ms 
ProteomicsDEqMS - a method for differential protein expression analysis of quantitative mass spectrometry data
DEqMS is a statistical method to perform differential protein expression (abundance) analysis for quantitative mass spectrometry-based proteomics. Developed on top of Limma, DEqMS implements a robust Bayesian method for accurate variance estimation while taking into account the number of peptide pre...
ORGANISM(S): Homo sapiens (Human) 
2026-06-03 | PXD063099 | Pride
Differential abundance Dia Label-free proteomics Statistical method Differential expression Lc-ms/ms 
ProteomicsMicrodissected brain tissue Alzheimer's
we explored the proteome of the area where they are located; the outer two-thirds of the molecular layer of the dentate gyrus. This area was microdissected from five subjects with Alzheimer disease and five non-demented controls, and quantitative mass spectrometry of pre-fractionated samples was per...
ORGANISM(S): Homo sapiens (Human) 
2019-11-11 | PXD014557 | Pride
Alzheimer's Proteomics Metasynaptic regions 
ProteomicsHuman Lung cancer proteomics and proteogenomics LC/MS&MS
In this project, a cohort of early stage NSCLC samples (141) were analyzed by MS-based proteomics in order to identify molecular subtypes at the phenotype level. In total, close to 14 000 proteins were identified and quantified across samples by HiRIEF-LC-MS and TMT based relative quantification. Fu...
ORGANISM(S): Homo sapiens (Human) 
2021-12-15 | PXD020191 | Pride
Proteogenomics Proteomics Lung cancer Adenocarcinoma 
ProteomicsHuman NSCLC DIA proteomics validation cohort 2
In this project, one NSCLC cohorts were analyzed by Data Independent Acquisition (DIA-MS). A cohort of early stage NSCLC samples (207) with the aim to demonstrate utility of MS for subtyping and treatment prediction in a clinical setting. Further, six identified NSCLC proteome subtypes were investig...
ORGANISM(S): Homo sapiens (Human) 
2021-09-13 | PXD025560 | Pride
Lung cancer Classification Dia Mass spectrometry Adenocarcinoma 
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