Integrated Platform for Proteome Profiling with Combination of Microreversed Phase Based Protein and Peptide Separation via Online Solvent Exchange and Protein Digestion

2012 ◽  
Vol 84 (11) ◽  
pp. 5124-5132 ◽  
Author(s):  
Huiming Yuan ◽  
Yuan Zhou ◽  
Simin Xia ◽  
Lihua Zhang ◽  
Xiaodan Zhang ◽  
...  
Keyword(s):  
Protein Digestion ◽  
Solvent Exchange ◽  
Peptide Separation ◽  
Proteome Profiling ◽  
Integrated Platform

Integrated Platform for Proteome Analysis with Combination of Protein and Peptide Separation via Online Digestion

2009 ◽  
Vol 81 (21) ◽  
pp. 8708-8714 ◽  
Author(s):  
Huiming Yuan ◽  
Lihua Zhang ◽  
Chunyan Hou ◽  
Guijie Zhu ◽  
Dingyin Tao ◽  
...  
Keyword(s):  
Proteome Analysis ◽  
Peptide Separation ◽  
Integrated Platform

scholarly journals Optimization of data-independent acquisition using predicted libraries for deep and accurate proteome profiling

2020 ◽  
Author(s):  
Joerg Doellinger ◽  
Christian Blumenscheit ◽  
Andy Schneider ◽  
Peter Lasch
Keyword(s):  
Data Analysis ◽  
In Silico ◽  
Scanning Speed ◽  
Clinical Proteomics ◽  
Full Potential ◽  
Optimization Strategy ◽  
Peptide Separation ◽  
Proteome Profiling ◽  
Data Independent Acquisition ◽  
Orbitrap Mass Spectrometer

ABSTRACTIn silico spectral library prediction of all possible peptides from whole organisms has a great potential for improving proteome profiling by data-independent acquisition (DIA) and extending its scope of application. In combination with other recent improvements in the field of mass spectrometry (MS)-based proteomics, including sample preparation, peptide separation and data analysis, we aimed to uncover the full potential of such an advanced DIA strategy by optimization of the data acquisition. The results demonstrate that the combination of high-quality in silico libraries, reproducible and high-resolution peptide separation using micro-pillar array columns as well as neural network supported data analysis enables the use of long MS scan cycles without impairing the quantification performance. The study demonstrates that mean coefficient of variations of 4 % were obtained even at only 1.5 data points per peak (full width at half maximum) across different gradient lengths, which in turn improved proteome coverage up to more than 8000 proteins from HeLa cells using empirically-corrected libraries and more than 7000 proteins using a whole human in silico predicted library. These data were obtained using a Q Exactive orbitrap mass spectrometer with moderate scanning speed (12 Hz) and perform very well in comparison to recent studies using more advanced MS instruments, which underline the high potential of this optimization strategy for various applications in clinical proteomics, microbiology and molecular biology.

Integrated Microfluidic System Enabling Protein Digestion, Peptide Separation, and Protein Identification

2001 ◽  
Vol 73 (11) ◽  
pp. 2648-2655 ◽  
Author(s):  
Jun Gao ◽  
Jingdong Xu ◽  
Laurie E. Locascio ◽  
Cheng S. Lee
Keyword(s):  
Protein Identification ◽  
Microfluidic System ◽  
Protein Digestion ◽  
Peptide Separation

scholarly journals MALDI-target integrated platform for affinity-captured protein digestion

2014 ◽  
Vol 807 ◽  
pp. 1-8 ◽  
Author(s):  
Asilah Ahmad-Tajudin ◽  
Belinda Adler ◽  
Simon Ekström ◽  
György Marko-Varga ◽  
Johan Malm ◽  
...  
Keyword(s):  
Protein Digestion ◽  
Maldi Target ◽  
Integrated Platform
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