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rdf:type |
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lifeskim:mentions |
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pubmed:issue |
7
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pubmed:dateCreated |
2006-6-30
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pubmed:abstractText |
We developed an integrated platform consisting of machinery and software modules that can apply vast amounts of data generated by nanoflow LC-MS to differential protein expression analyses. Unlabeled protein samples were completely digested with modified trypsin and separated by low speed (200 nl/min) one-dimensional HPLC. Mass spectra were obtained every 1 s by using the survey mode of a hybrid Q-TOF mass spectrometer and displayed in a two-dimensional plane with m/z values along the x axis, and retention time was displayed along the y axis. The time jitter of nano-LC was adjusted using newly developed software based on a dynamic programming algorithm. The comprehensiveness (60,000-160,000 peaks above the predetermined threshold detectable in 60-microg cell protein samples), reproducibility (average coefficient of variance of 0.35-0.39 and correlation coefficient of over 0.92 between duplicates), and accurate quantification with a wide dynamic range (over 10(3)) of our platform warrant its application to various types of experimental and translational proteomics.
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:chemical |
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pubmed:status |
MEDLINE
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pubmed:month |
Jul
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pubmed:issn |
1535-9476
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pubmed:author |
|
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pubmed:issnType |
Print
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pubmed:volume |
5
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
1338-47
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pubmed:dateRevised |
2006-11-15
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pubmed:meshHeading |
pubmed-meshheading:16552026-Actinin,
pubmed-meshheading:16552026-Automation,
pubmed-meshheading:16552026-Blood Cells,
pubmed-meshheading:16552026-Cell Movement,
pubmed-meshheading:16552026-Chromatography, High Pressure Liquid,
pubmed-meshheading:16552026-Colorectal Neoplasms,
pubmed-meshheading:16552026-Diagnostic Imaging,
pubmed-meshheading:16552026-Doxycycline,
pubmed-meshheading:16552026-Gene Expression,
pubmed-meshheading:16552026-Genes, Reporter,
pubmed-meshheading:16552026-Humans,
pubmed-meshheading:16552026-Mass Spectrometry,
pubmed-meshheading:16552026-Microfilament Proteins,
pubmed-meshheading:16552026-Microfluidic Analytical Techniques,
pubmed-meshheading:16552026-Pancreatic Neoplasms,
pubmed-meshheading:16552026-Peptide Fragments,
pubmed-meshheading:16552026-Proteome,
pubmed-meshheading:16552026-Proteomics,
pubmed-meshheading:16552026-Software,
pubmed-meshheading:16552026-Transfection,
pubmed-meshheading:16552026-Tumor Cells, Cultured
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pubmed:year |
2006
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pubmed:articleTitle |
Label-free quantitative proteomics using large peptide data sets generated by nanoflow liquid chromatography and mass spectrometry.
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pubmed:affiliation |
Chemotherapy Division and Cancer Proteomics Project, National Cancer Center Research Institute, Tokyo 104-0045, Japan.
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pubmed:publicationType |
Journal Article,
Comparative Study,
Research Support, Non-U.S. Gov't,
Validation Studies
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