24 research outputs found
DPHL: A DIA Pan-human Protein Mass Spectrometry Library for Robust Biomarker Discovery
To address the increasing need for detecting and validating protein biomarkers in clinical specimens, mass spectrometry (MS)-based targeted proteomic techniques, including the selected reaction monitoring (SRM), parallel reaction monitoring (PRM), and massively parallel data-independent acquisition (DIA), have been developed. For optimal performance, they require the fragment ion spectra of targeted peptides as prior knowledge. In this report, we describe a MS pipeline and spectral resource to support targeted proteomics studies for human tissue samples. To build the spectral resource, we integrated common open-source MS computational tools to assemble a freely accessible computational workflow based on Docker. We then applied the workflow to generate DPHL, a comprehensive DIA pan-human library, from 1096 data-dependent acquisition (DDA) MS raw files for 16 types of cancer samples. This extensive spectral resource was then applied to a proteomic study of 17 prostate cancer (PCa) patients. Thereafter, PRM validation was applied to a larger study of 57 PCa patients and the differential expression of three proteins in prostate tumor was validated. As a second application, the DPHL spectral resource was applied to a study consisting of plasma samples from 19 diffuse large B cell lymphoma (DLBCL) patients and 18 healthy control subjects. Differentially expressed proteins between DLBCL patients and healthy control subjects were detected by DIA-MS and confirmed by PRM. These data demonstrate that the DPHL supports DIA and PRM MS pipelines for robust protein biomarker discovery. DPHL is freely accessible at https://www.iprox.org/page/project.html?id=IPX0001400000
Murine antiestrogen-binding protein: Characterization, solubilization and modulation by lipids
BBA - Molecular Cell Research9313364-375BAMR
Genetic engineering for haemophilia A
10.1517/14712598.6.10.1023Expert Opinion on Biological Therapy6101023-103
Stable expression of human α-2,6-sialyltransferase in Chinese hamster ovary cells: Functional consequences for human erythropoietin expression and bioactivity
10.1016/S0304-4165(98)00095-6Biochimica et Biophysica Acta - General Subjects14253441-452BBGS
Synthesis of 2-(p-chlorobenzyl)-3-aryl-6-methoxybenzofurans as selective ligands for antiestrogen-binding sites. Effects on cell proliferation and cholesterol synthesis
Journal of Medicinal Chemistry3581330-133
Fatty acid modulation of antiestrogen action and antiestrogen-binding protein in cultured lymphoid cells
Experientia46101032-1037EXPE
Wavelet transformations of tumor expression profiles reveals a pervasive genome-wide imprinting of aneuploidy on the cancer transcriptome
Cancer Research651186-194CNRE
Naked Plasmid-Mediated Gene Transfer to Skeletal Muscle Ameliorates Diabetes Mellitus
Journal of Gene Medicine13186-194JGME