Literature DB >> 18440872

MASIC: a software program for fast quantitation and flexible visualization of chromatographic profiles from detected LC-MS(/MS) features.

Matthew E Monroe1, Jason L Shaw, Don S Daly, Joshua N Adkins, Richard D Smith.   

Abstract

Quantitative analysis of liquid chromatography (LC)-mass spectrometry (MS) and tandem mass spectrometry (MS/MS) data is essential to many proteomics studies. We have developed MASIC(2) to accurately measure peptide abundances and LC elution times in LC-MS/MS analyses. This software program uses an efficient processing algorithm to quickly generate mass specific selected ion chromatograms from a dataset and provides an interactive browser that allows users to examine individual chromatograms with a variety of options.

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Year:  2008        PMID： 18440872      PMCID： PMC2487672          DOI： 10.1016/j.compbiolchem.2008.02.006

Source DB:  PubMed          Journal:  Comput Biol Chem        ISSN： 1476-9271            Impact factor:   2.877


  8 in total

1.  Quantitative profiling of differentiation-induced microsomal proteins using isotope-coded affinity tags and mass spectrometry.

Authors:  D K Han; J Eng; H Zhou; R Aebersold
Journal:  Nat Biotechnol       Date:  2001-10       Impact factor: 54.908

2.  Automated statistical analysis of protein abundance ratios from data generated by stable-isotope dilution and tandem mass spectrometry.

Authors:  Xiao-Jun Li; Hui Zhang; Jeffrey A Ranish; Ruedi Aebersold
Journal:  Anal Chem       Date:  2003-12-01       Impact factor: 6.986

3.  A correlation algorithm for the automated quantitative analysis of shotgun proteomics data.

Authors:  Michael J MacCoss; Christine C Wu; Hongbin Liu; Rovshan Sadygov; John R Yates
Journal:  Anal Chem       Date:  2003-12-15       Impact factor: 6.986

4.  Standard mixtures for proteome studies.

Authors:  Samuel Purvine; Alex F Picone; Eugene Kolker
Journal:  OMICS       Date:  2004

Review 5.  Advances in proteomics data analysis and display using an accurate mass and time tag approach.

Authors:  Jennifer S D Zimmer; Matthew E Monroe; Wei-Jun Qian; Richard D Smith
Journal:  Mass Spectrom Rev       Date:  2006 May-Jun       Impact factor: 10.946

6.  VIPER: an advanced software package to support high-throughput LC-MS peptide identification.

Authors:  Matthew E Monroe; Nikola Tolić; Navdeep Jaitly; Jason L Shaw; Joshua N Adkins; Richard D Smith
Journal:  Bioinformatics       Date:  2007-06-01       Impact factor: 6.937

7.  Comparative proteome analyses of human plasma following in vivo lipopolysaccharide administration using multidimensional separations coupled with tandem mass spectrometry.

Authors:  Wei-Jun Qian; Jon M Jacobs; David G Camp; Matthew E Monroe; Ronald J Moore; Marina A Gritsenko; Steve E Calvano; Stephen F Lowry; Wenzhong Xiao; Lyle L Moldawer; Ronald W Davis; Ronald G Tompkins; Richard D Smith
Journal:  Proteomics       Date:  2005-02       Impact factor: 3.984

8.  Quantitative proteome analysis of human plasma following in vivo lipopolysaccharide administration using 16O/18O labeling and the accurate mass and time tag approach.

Authors:  Wei-Jun Qian; Matthew E Monroe; Tao Liu; Jon M Jacobs; Gordon A Anderson; Yufeng Shen; Ronald J Moore; David J Anderson; Rui Zhang; Steve E Calvano; Stephen F Lowry; Wenzhong Xiao; Lyle L Moldawer; Ronald W Davis; Ronald G Tompkins; David G Camp; Richard D Smith
Journal:  Mol Cell Proteomics       Date:  2005-03-07       Impact factor: 5.911
  8 in total
  82 in total

1.  Chemical visualization of phosphoproteomes on membrane.

Authors:  Anton Iliuk; X Shawn Liu; Liang Xue; Xiaoqi Liu; W Andy Tao
Journal:  Mol Cell Proteomics       Date:  2012-05-16       Impact factor: 5.911

2.  A novel alignment method and multiple filters for exclusion of unqualified peptides to enhance label-free quantification using peptide intensity in LC-MS/MS.

Authors:  Xianyin Lai; Lianshui Wang; Haixu Tang; Frank A Witzmann
Journal:  J Proteome Res       Date:  2011-09-21       Impact factor: 4.466

3.  Comprehensive Proteomics Analysis of Stressed Human Islets Identifies GDF15 as a Target for Type 1 Diabetes Intervention.

Authors:  Ernesto S Nakayasu; Farooq Syed; Sarah A Tersey; Marina A Gritsenko; Hugh D Mitchell; Chi Yuet Chan; Ercument Dirice; Jean-Valery Turatsinze; Yi Cui; Rohit N Kulkarni; Decio L Eizirik; Wei-Jun Qian; Bobbie-Jo M Webb-Robertson; Carmella Evans-Molina; Raghavendra G Mirmira; Thomas O Metz
Journal:  Cell Metab       Date:  2020-01-09       Impact factor: 27.287

4.  Time-resolved proteome profiling of normal lung development.

Authors:  Ahmed Moghieb; Geremy Clair; Hugh D Mitchell; Joseph Kitzmiller; Erika M Zink; Young-Mo Kim; Vladislav Petyuk; Anil Shukla; Ronald J Moore; Thomas O Metz; James Carson; Jason E McDermott; Richard A Corley; Jeffrey A Whitsett; Charles Ansong
Journal:  Am J Physiol Lung Cell Mol Physiol       Date:  2018-03-08       Impact factor: 5.464

5.  Comparison of nanotube-protein corona composition in cell culture media.

Authors:  Jonathan H Shannahan; Jared M Brown; Ran Chen; Pu Chun Ke; Xianyin Lai; Somenath Mitra; Frank A Witzmann
Journal:  Small       Date:  2013-01-16       Impact factor: 13.281

6.  Comparative proteomics of human monkeypox and vaccinia intracellular mature and extracellular enveloped virions.

Authors:  Nathan P Manes; Ryan D Estep; Heather M Mottaz; Ronald J Moore; Therese R W Clauss; Matthew E Monroe; Xiuxia Du; Joshua N Adkins; Scott W Wong; Richard D Smith
Journal:  J Proteome Res       Date:  2008-01-19       Impact factor: 4.466

7.  Proteomic classification of acute leukemias by alignment-based quantitation of LC-MS/MS data sets.

Authors:  Eric J Foss; Dragan Radulovic; Derek L Stirewalt; Jerald Radich; Olga Sala-Torra; Era L Pogosova-Agadjanyan; Shawna M Hengel; Keith R Loeb; H Joachim Deeg; Soheil Meshinchi; David R Goodlett; Antonio Bedalov
Journal:  J Proteome Res       Date:  2012-09-11       Impact factor: 4.466

8.  WaveletQuant, an improved quantification software based on wavelet signal threshold de-noising for labeled quantitative proteomic analysis.

Authors:  Fan Mo; Qun Mo; Yuanyuan Chen; David R Goodlett; Leroy Hood; Gilbert S Omenn; Song Li; Biaoyang Lin
Journal:  BMC Bioinformatics       Date:  2010-04-29       Impact factor: 3.169

9.  Phosphoproteomics profiling of human skin fibroblast cells reveals pathways and proteins affected by low doses of ionizing radiation.

Authors:  Feng Yang; Katrina M Waters; John H Miller; Marina A Gritsenko; Rui Zhao; Xiuxia Du; Eric A Livesay; Samuel O Purvine; Matthew E Monroe; Yingchun Wang; David G Camp; Richard D Smith; David L Stenoien
Journal:  PLoS One       Date:  2010-11-30       Impact factor: 3.240

10.  Characterization of the Molecular Mechanisms Underlying Glucose Stimulated Insulin Secretion from Isolated Pancreatic β-cells Using Post-translational Modification Specific Proteomics (PTMomics).

Authors:  Taewook Kang; Pia Jensen; Honggang Huang; Gitte Lund Christensen; Nils Billestrup; Martin R Larsen
Journal:  Mol Cell Proteomics       Date:  2017-11-07       Impact factor: 5.911
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