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ProteomicsDeubiquitinase Vulnerabilities Identified through Activity Based Protein Profiling in Non-Small Cell Lung Cancer
To aid in the prioritization of deubiquitinases (DUBs) as anticancer targets, we developed an approach combining activity-based protein profiling (ABPP) with mass spectrometry in both non-small cell lung cancer (NSCLC) tumor tissues and cell lines along with analysis of available RNA interference an...
ORGANISM(S): Homo sapiens (Human) 
2022-07-05 | PXD028802 | Pride
Human Activity-based protein profiling Deubiquitinase Lung cancer 
ProteomicsThe EML4-ALK Interactome in Lung Cancer
We experimentally generated an ALK interactome combining quantitative tyrosine phosphoproteomics and protein complex annotation using affinity purification coupled with mass spectrometry and further investigated downstream ALK signaling using quantitative tyrosine phosphoproteomics.
ORGANISM(S): Homo sapiens (Human) 
2018-10-26 | PXD004935 | Pride
Human Eml4-alk Interactome Lung cancer 
ProteomicsA Pilot Proteogenomic Study With Data Integration Identifies MCT1 and GLUT1 as Prognostic Markers in Lung Adenocarcinoma
We performed a pilot proteogenomic study to compare lung adenocarcinoma to lung squamous cell carcinoma using quantitative proteomics (6-plex TMT) combined with a customized Affymetrix GeneChip. Using MaxQuant software, we identified 51,001 unique peptides that mapped to 7,241 unique proteins and fr...
ORGANISM(S): Homo sapiens (Human) 
2015-11-06 | PXD002622 | Pride
Non-small cell lung cancer Lung adenocarcinoma Tmt Mct1 Nsclc Lung squamous cell carcinoma Glut1 Proteogenomics Slc16a1 Slc2a1 
ProteomicsProteogenomic Landscape of Squamous Cell Lung Cancer 2: Tandem Mass Tag Datasets
We report an integrated analysis incorporating DNA copy number analyses, somatic exon mutations, mRNA expression via RNA-sequencing, and shotgun mass spectrometry analysis of protein abundance in 108 surgically resected squamous cell lung cancers (SCC) with accompanying clinical outcome, evaluation ...
ORGANISM(S): Homo sapiens (Human) 
2019-05-24 | PXD010429 | Pride
Human Tmt Squamous cell carcinoma Lung cancer 
ProteomicsProteogenomic Landscape of Squamous Cell Lung Cancer 1: Digestion QC with DIA LC-MS/MS
We report an integrated analysis incorporating DNA copy number analyses, somatic exon mutations, mRNA expression via RNA-sequencing, and shotgun mass spectrometry analysis of protein abundance in 108 surgically resected squamous cell lung cancers (SCC) with accompanying clinical outcome, evaluation ...
ORGANISM(S): Homo sapiens (Human) 
2019-05-24 | PXD010357 | Pride
Human Dia Squamous cell carcinoma Lung cancer 
ProteomicsIntegrated proteomics-based physical and functional mapping of AXL kinase signaling pathways and inhibitors define its role in cell migration: Phosphoproteomics
To better understand the signaling complexity of AXL, a member of the TAM family of receptor tyrosine kinases, we created a physical and functional map of AXL signaling interactions, phosphorylation events, and target-engagement of three AXL tyrosine kinase inhibitors (TKI). We assessed AXL protein-...
ORGANISM(S): Homo sapiens (Human) 
2022-10-14 | PXD023923 | Pride
Phosphoproteomics Lung cancer Targeted therapy Axl tyrosine kinase 
ProteomicsIntegrated proteomics-based physical and functional mapping of AXL kinase signaling pathways and inhibitors define its role in cell migration: ABPP
To better understand the signaling complexity of AXL, a member of the TAM family of receptor tyrosine kinases, we created a physical and functional map of AXL signaling interactions, phosphorylation events, and target-engagement of three AXL tyrosine kinase inhibitors (TKI). We assessed AXL protein-...
ORGANISM(S): Homo sapiens (Human) 
2022-10-14 | PXD023913 | Pride
Abpp Lung cancer Targeted therapy Axl tyrosine kinase 
ProteomicsIntegrated proteomics-based physical and functional mapping of AXL kinase signaling pathways and inhibitors define its role in cell migration: BioID
To better understand the signaling complexity of AXL, a member of the TAM family of receptor tyrosine kinases, we created a physical and functional map of AXL signaling interactions, phosphorylation events, and target-engagement of three AXL tyrosine kinase inhibitors (TKI). We assessed AXL protein-...
ORGANISM(S): Homo sapiens (Human) 
2022-10-14 | PXD023911 | Pride
Lung cancer Targeted therapy Bioid Axl tyrosine kinase 
ProteomicsCeritinib Functional Proteomics
To elucidate the mechanism of action (MoA) of ceritinib’s antiproliferative activity in these cells, we applied a systems approach combining both chemical and phosphoproteomics to gain a global view of ceritinib’s target profile and network-wide phosphorylation changes following ceritinib treatment.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-01-13 | MSV000081935 | MassIVE
ProteomicsComparison of Lung Cancer Proteome Profiles 1: Label Free Quantification
The goal of this project is to compare label free quantification, chemical labeling with tandem mass tags, and data independent acquisition discovery proteomics approaches using lung squamous cell carcinomas and adjacent lung tissues.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-27 | MSV000080685 | MassIVE
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