Proteomics

Dataset Information

0

Carrier protein-enabled host cell proteome analysis (CP-HCP) with integrated isobaric tag interference filtering.

ABSTRACT: Here, we proposed that the use of an HCP carrier proteome could enhance the acquisition of spectra from HCPs amidst a highly abundance therapeutic protein background to perform global HCP analysis. We provide proof of principle of this approach, which we term carrier proteome-HCP (CP-HCP) analysis, using a basic model of bovine serum albumin (BSA) as a therapeutic protein and BL21 expression strain E.coli as a host cell proteome. We observe that MS3 based methods do not alleviate interference in this model due to the high mock therapeutic background, so we added an interference detection channel to filter co-isolation interference-containing peptides. The approach also does not require any type of enrichment and can identify hundreds of E.coli peptides at small quantities amidst a high background protein.

INSTRUMENT(S):

ORGANISM(S): Escherichia Coli Bacteria

TISSUE(S): Cell Suspension Culture

SUBMITTER: J Patrick Murphy  

LAB HEAD: Dr. J Patrick Murphy

PROVIDER: PXD049386 | Pride | 2026-01-12

REPOSITORIES: Pride

Json Xml

Dataset's files

Source:
Action DRS
checksum.txt Txt
ea08259_TMT126_50BSA_0E.mzML Mzml
ea08259_TMT126_50BSA_0E.pepXML Pepxml
ea08259_TMT126_50BSA_0E.raw Raw
ea08260_TMT127N_50BSA_0E_131C_boost.mzML Mzml
Items per page:
1 - 5 of 31
altmetric image

Publications

Carrier-Guided Proteome Analysis in a High Protein Background: An Improved Approach to Host Cell Protein Identification.

Karmani Divyanshi D   Seifihesar Niloofar N   Sultonova Mukhayyo M   Blackmore Beau B   Paulo Joao A JA   Harty Matthew M   Murphy J Patrick JP  

Journal of proteome research 20241009 11

Many shotgun proteomics experiments are negatively influenced by highly abundant proteins, such as those measuring residual host cell proteins (HCP) amidst highly abundant recombinant biotherapeutic or plasma proteins amidst albumin and immunoglobulins. While western blotting and ELISAs can reveal the presence of specific low abundance proteins from highly abundant background proteins, mass spectrometry approaches are required to define the low abundance protein composition in these scenarios. T  ...[more]

Similar Datasets

Proteomics Carrier protein-enabled host cell proteome analysis (CP-HCP) with integrated isobaric tag interference filtering
2026-01-12 | PXD050214 | Pride
Proteomics Carrier protein-enabled host cell proteome analysis (CP-HCP) with integrated isobaric tag interference filtering
2026-01-12 | PXD050183 | Pride
Proteomics Carrier protein-enabled host cell proteome analysis (CP-HCP) with integrated isobaric tag interference filtering
2026-01-12 | PXD049970 | Pride
Transcriptomics RNA-seq analysis of HCT116, HCP-1 and DLD-1 cells after IOX1 treatment
2021-01-13 | GSE149233 | GEO
Genomics Hcp+ C. jejuni & C. coli study
| PRJEB9722 | ENA
Proteomics Quantitative proteomics of Hcp-mediated Salmonella Enteritidis in ducks (Anas platyrhynchos)
2023-03-11 | PXD032735 | Pride
Genomics RNA-seq analysis of HCT116, HCP-1 and DLD-1 cells after IOX1 treatment
| PRJNA627710 | ENA
Transcriptomics A zebrafish model of intrahepatic cholangiocarcinoma by dual expression of hepatitis B virus X and hepatitis C virus core protein in liver
2014-12-02 | GSE34493 | GEO
Transcriptomics Gene expression profile of STAT3 in ovarian cancer cell (SKOV3ip1)
2011-12-22 | E-GEOD-20597 | biostudies-arrayexpress
Clinical Association Between Health Care Provider (HCP)-Assessed ECOG Performance Status (PS) and Overall Survival, and Objectively Measure of Physical Activity (PA) Levels in Advance-cancer Patients"
| 2107544 | ecrin-mdr-crc