Literature DB >> 20031975

emPAI Calc--for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry.

Kosaku Shinoda1, Masaru Tomita, Yasushi Ishihama.   

Abstract

SUMMARY: 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.

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Year:  2009        PMID： 20031975     DOI： 10.1093/bioinformatics/btp700

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  62 in total

1.  msCompare: a framework for quantitative analysis of label-free LC-MS data for comparative candidate biomarker studies.

Authors:  Berend Hoekman; Rainer Breitling; Frank Suits; Rainer Bischoff; Peter Horvatovich
Journal:  Mol Cell Proteomics       Date:  2012-02-07       Impact factor: 5.911

2.  Global identification and characterization of both O-GlcNAcylation and phosphorylation at the murine synapse.

Authors:  Jonathan C Trinidad; David T Barkan; Brittany F Gulledge; Agnes Thalhammer; Andrej Sali; Ralf Schoepfer; Alma L Burlingame
Journal:  Mol Cell Proteomics       Date:  2012-05-29       Impact factor: 5.911

3.  Expression of Genes and Proteins Involved in Arsenic Respiration and Resistance in Dissimilatory Arsenate-Reducing Geobacter sp. Strain OR-1.

Authors:  Tatsuya Tsuchiya; Ayaka Ehara; Yasuhiro Kasahara; Natsuko Hamamura; Seigo Amachi
Journal:  Appl Environ Microbiol       Date:  2019-07-01       Impact factor: 4.792

4.  Identification of Salivary Proteomic Biomarkers for Oral Cancer Screening.

Authors:  Shigeo Ishikawa; Kenichi Ishizawa; Atsushi Tanaka; Hirohito Kimura; Kenichiro Kitabatake; Ayako Sugano; Kaoru Edamatsu; Shohei Ueda; Mitsuyoshi Iino
Journal:  In Vivo       Date:  2021 Jan-Feb       Impact factor: 2.155

5.  Ion-implanted polytetrafluoroethylene enhances Saccharomyces cerevisiae biofilm formation for improved immobilization.

Authors:  Clara T H Tran; Alexey Kondyurin; Stacey L Hirsh; David R McKenzie; Marcela M M Bilek
Journal:  J R Soc Interface       Date:  2012-06-13       Impact factor: 4.118

6.  Large-scale identification of membrane proteins with properties favorable for crystallization.

Authors:  Jared Kim; Allison Kagawa; Kellie Kurasaki; Niloufar Ataie; Il Kyu Cho; Qing X Li; Ho Leung Ng
Journal:  Protein Sci       Date:  2015-08-27       Impact factor: 6.725

7.  Morphine biosynthesis in opium poppy involves two cell types: sieve elements and laticifers.

Authors:  Akpevwe Onoyovwe; Jillian M Hagel; Xue Chen; Morgan F Khan; David C Schriemer; Peter J Facchini
Journal:  Plant Cell       Date:  2013-10-08       Impact factor: 11.277

8.  Possible Involvement of a Tetrathionate Reductase Homolog in Dissimilatory Arsenate Reduction by Anaeromyxobacter sp. Strain PSR-1.

Authors:  Fumika Muramatsu; Mimori Tonomura; Mikina Yamada; Yasuhiro Kasahara; Shigeki Yamamura; Takao Iino; Seigo Amachi
Journal:  Appl Environ Microbiol       Date:  2020-11-10       Impact factor: 4.792

9.  N-glycosylation of Campylobacter jejuni surface proteins promotes bacterial fitness.

Authors:  Abofu Alemka; Harald Nothaft; Jing Zheng; Christine M Szymanski
Journal:  Infect Immun       Date:  2013-03-04       Impact factor: 3.441

10.  Purification and characterization of novel microtubule-associated proteins from Arabidopsis cell suspension cultures.

Authors:  Takahiro Hamada; Nahoko Nagasaki-Takeuchi; Takehide Kato; Masayuki Fujiwara; Seiji Sonobe; Yoichiro Fukao; Takashi Hashimoto
Journal:  Plant Physiol       Date:  2013-10-17       Impact factor: 8.340
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