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ProteomicsLong read proteogenomics to characterize protein isoform diversity in human umbilical vein endothelial cells (HUVECs)
Mass spectrometry-based proteomics sample preparation Harvested HUVECs, approximately 5 million cells each, were pelleted and frozen at -80C. The sample pellet was lysed according to the Filter Aided Sample Preparation (FASP) protocol.59 Lysis buffer used in the FASP was changed to 6% SDS, 150 mM DT...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-04-28 | MSV000089326 | MassIVE
ProteomicsLong-read Proteogenomics Internal Standard triggered PRM (LRP-IS-PRM)
Long-read proteogenomic data was used to create sample-matched protein database for WTC11 sample. This includes many potential alternative protein isoforms (major and minor isoforms) per gene. The IS-PRM method called Tomahto was tested versus DDA to demonstrate improved coverage of isoform-specific...
ORGANISM(S): Homo sapiens (Human) 
2024-07-17 | PXD050909 | Pride
Proteogenomics Is-prm Tomahto 
ProteomicsLong-read Proteogenomics Internal Standard triggered PRM (LRP-IS-PRM)
Long-read proteogenomic data was used to create sample-matched protein database for WTC11 sample. This includes many potential alternative protein isoforms (major and minor isoforms) per gene. The IS-PRM method called Tomahto was tested versus DDA to demonstrate improved coverage of isoform-specific...
ORGANISM(S): Homo sapiens (Human) 
2024-07-17 | PXD050904 | Pride
Proteogenomics Is-prm Tomahto 
ProteomicsArterial-Venous Endothelial Cell Cycle Proteins Differential Expression
HUVEC-FUCCI cells were used to demonstrate that different endothelial cell cycle states provide distict windows of opportunity for gene expression in response to extrinsic signals. HUVEC-FUCCI were FACS-isolated into three different cell cycle states. Peptide digests from the resulting lysates showe...
ORGANISM(S): Homo sapiens (Human) 
2022-10-12 | PXD036326 | Pride
Proteomics Proteogenomics Early g1 S/g2/m Endothelial cells Huvec Late g1 Cell cycle 
ProteomicsProtein sequencing with single amino acid resolution discerns peptides that discriminate tropomyosin proteoforms
Protein variants of the same gene—proteoforms—can have high molecular similarity yet exhibit different biological functions. Thus, identifying unique peptides that unambiguously map to proteoforms can provide crucial biological insights. In humans, four human tropomyosin (TPM) genes produce similar ...
ORGANISM(S): Homo Sapiens 
2025-09-03 | PXD057918 | panorama
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