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ProteomicsTFAM Binds to and Promotes Mutagenic Transcriptional Bypass of O4-Alkylthymidine Lesions
O2- and O4-alkylated thymidine lesions are known to be poorly repaired and persist in mammalian tissues. To understand how mammalian cells sense the presence and regulate the repair of these lesions, we employed a stable isotope labeling by amino acids in cell culture (SILAC)-based quantitative prot...
ORGANISM(S): Homo sapiens (Human) 
2020-12-21 | PXD021719 | Pride
Dna damage Tfam Proteomics Lc-ms/ms 
ProteomicsMETTL1 Interacts with XPO5 to Modulate Pre-miRNA Export
tRNA methylguanosine methyltransferase 1 (METTL1) is the prominent m7G writer protein in yeast and human cells. While several studies documented the transcriptome-wide distributions of METTL1-installed m7G, very little is known about the protein-protein interactions (PPI) involving METTL1. To fill i...
ORGANISM(S): Homo sapiens (Human) 
2026-02-02 | PXD066690 | Pride
Affinity labeling Mirna Lc-msms 
ProteomicsTargeted proteomic analysis of small GTPases in radioresistant breast cancer cells
Radiotherapy benefits more than 50% of cancer patients and cures 40% of them, where ionizing radiation deposits energy to cells and tissues, thereby eliciting DNA damage and resulting in cell death. Small GTPases are a superfamily of proteins that play critical roles in cell signaling. Several small...
ORGANISM(S): Homo sapiens (Human) 
2024-01-26 | PXD034360 | Pride
Breast cancer Radioresistance Radiation therapy Mrm Targeted proteomics Small gtpase 
ProteomicsProximity Proteomics Revealed Dicer1 and Transporters as Client Proteins of Aha1
Co-chaperone Aha1 activates HSP90 ATPase to promote the folding of client proteins. However, the client proteins of Aha1 are largely unknown. By employing ascorbate peroxidase (APEX) based proximity labeling, we identified 32 proximity proteins of HSP90 that are modulated by genetic depletion of Aha...
ORGANISM(S): Pan troglodytes (Chimpanzee) Homo sapiens (Human) 
2022-11-19 | PXD028980 | Pride
Hsp90 Dicer1 Apex Proximity labeling Aha1 
ProteomicsTRMU Confers Resistance of Melanoma Cells to Vemurafenib through Modulating Mitochondrial Electron Transport Chain Activities
Melanoma is the fifth most common newly diagnosed cancer in the U.S., where substitution of valine 600 with glutamic acid (V600E) in BRAF is the most frequently observed mutation in melanoma. Vemurafenib is an FDA-approved kinase inhibitor for BRAFV600E; while the drug can elicit effective remission...
ORGANISM(S): Homo sapiens (Human) 
2025-12-08 | PXD063781 | Pride
Vemurafenib resistance Mitochondrion Melanoma 
ProteomicsDiscovery of TBC1D7 as a potential driver for melanoma cell invasion.
Melanoma is a common type of cancer, and metastasis remains the leading cause for mortality in melanoma patients. In this study, we utilized an unbiased mass spectrometry-based quantitative proteomic method to assess, at the global proteome scale, differential protein expression in a matched pair of...
ORGANISM(S): Homo sapiens (Human) 
2022-08-15 | PXD014368 | Pride
Tbc1d7 Tbc domain-containing proteins Mass spectrometry Silac Melanoma metastasis Quantitative proteomics 
ProteomicsThe host targets of SARS-CoV-2 protein NSP5
To identity the host targets of the SARS-CoV-2 protease NSP5, SILAC-based quantitative proteomics was performed in comparing the binding partners of wildtype or catalytically-inactive C145A mutant.
ORGANISM(S): Homo sapiens (Human) 
2021-10-27 | PXD023277 | Pride
Silac Sars-cov-2 Nsp5 Proximity labeling 
ProteomicsAmyotrophic Lateral Sclerosis-associated Mutants of SOD1 Modulate miRNA Biogenesis through Aberrant Interactions with Exportin 5
Mutations in SOD1 (Superoxide Dismutase 1) gene are associated with amyotrophic lateral sclerosis (ALS), a fatal neurodegenerative disease. By employing ascorbate peroxidase (APEX)-based proximity labeling, coupled with LC-MS/MS analysis, we uncovered 37 and 28 proteins exhibiting higher abundance i...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2024-01-26 | PXD035452 | Pride
Lc-ms affinity purification sod1 apex 
ProteomicsCharacterizations of G-quadruplex RNA-Protein Interactions in Living Cells
RNA guanine quadruplexes (rG4s) are non-canonical nucleic acid structures essential for various cellular functions and disease pathways. Characterizing rG4-interacting proteins (rG4IPs) is crucial for deciphering biological roles of rG4s. Building upon the RNA-protein interaction detection (RaPID) m...
ORGANISM(S): Homo sapiens (Human) 
2026-06-01 | PXD070623 | Pride
G-quadruplex Rna-protein interactions Proteomics Lc-ms/ms 
ProteomicsIdentification and characterizations of DNA N2-alkylguanine-binding proteins
DNA alkylation at the N2 position of guanine (N2-dG) is a prevalent type of DNA minor-groove lesions arising from various exogenous environmental contaminants and endogenous cellular processes. These N2-alkyl-dG lesions can induce G → T mutations during transcription if left unrepaired. However, the...
ORGANISM(S): Homo sapiens (Human) 
2024-08-02 | PXD051678 | Pride
Proteomics n2-alkyl-dg hmgb3 sub1 
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