emPAI Calc—for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry
emPAI Calc is an open-source web application for the estimation of protein abundance. It uses the correlation between the number of identified peptides and protein abundance in mass spectrometry-based proteomic experiments. The program is the first implementation of our previously reported emPAI alg...
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| Veröffentlicht in: | Bioinformatics 2010-02, Vol.26 (4), p.576-577 |
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| container_title | Bioinformatics |
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| creator | Shinoda, Kosaku Tomita, Masaru Ishihama, Yasushi |
| description | emPAI Calc is an open-source web application for the estimation of protein abundance. It uses the correlation between the number of identified peptides and protein abundance in mass spectrometry-based proteomic experiments. The program is the first implementation of our previously reported emPAI algorithm; it calculates the emPAI from the protein identification results obtained by database search engines such as Mascot.™ Availability: http://empai.iab.keio.ac.jp/; http://empai.iab.keio.ac.jp/supplement.php Source codes are available under Mozilla Public License. Contact: y-ishi@ttck.keio.ac.jp Supplementary Information: Supplementary data are available at Bioinformatics online. |
| doi_str_mv | 10.1093/bioinformatics/btp700 |
| format | Article |
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It uses the correlation between the number of identified peptides and protein abundance in mass spectrometry-based proteomic experiments. The program is the first implementation of our previously reported emPAI algorithm; it calculates the emPAI from the protein identification results obtained by database search engines such as Mascot.™ Availability: http://empai.iab.keio.ac.jp/; http://empai.iab.keio.ac.jp/supplement.php Source codes are available under Mozilla Public License. Contact: y-ishi@ttck.keio.ac.jp Supplementary Information: Supplementary data are available at Bioinformatics online.</description><subject>Algorithms</subject><subject>Biological and medical sciences</subject><subject>Chromatography, Liquid - methods</subject><subject>Databases, Protein</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>General aspects</subject><subject>Mathematics in biology. Statistical analysis. Models. Metrology. 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| ispartof | Bioinformatics, 2010-02, Vol.26 (4), p.576-577 |
| issn | 1367-4803 1460-2059 1367-4811 |
| language | eng |
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| source | Oxford Journals Open Access Collection |
| subjects | Algorithms Biological and medical sciences Chromatography, Liquid - methods Databases, Protein Fundamental and applied biological sciences. Psychology General aspects Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects) Proteins - chemistry Proteomics - methods Sequence Analysis, Protein Software Tandem Mass Spectrometry - methods |
| title | emPAI Calc—for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry |
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