Census 2: Isobaric labeling data analysis

Sung Kyu Robin Park, Aaron Aslanian, Daniel B. Mcclatchy, Xuemei Han, Harshil Shah, Meha Singh, Navin Rauniyar, James J. Moresco, Antonio F.M. Pinto, Jolene K. Diedrich, Claire Delahunty, John R. Yates

Research output: Contribution to journalArticle

19 Citations (Scopus)

Abstract

Motivation: We introduce Census 2, an update of a mass spectrometry data analysis tool for peptide/protein quantification. New features for analysis of isobaric labeling, such as Tandem Mass Tag (TMT) or Isobaric Tags for Relative and Absolute Quantification (iTRAQ), have been added in this version, including a reporter ion impurity correction, a reporter ion intensity threshold filter and an option for weighted normalization to correct mixing errors. TMT/iTRAQ analysis can be performed on experiments using HCD (High Energy Collision Dissociation) only, CID (Collision Induced Dissociation)/HCD (High Energy Collision Dissociation) dual scans or HCD triple-stage mass spectrometry data. To improve measurement accuracy, we implemented weighted normalization, multiple tandem spectral approach, impurity correction and dynamic intensity threshold features. Availability and implementation: Census 2 supports multiple input file formats including MS1/MS2, DTASelect, mzXML and pepXML. It requires JAVA version 6 or later to run. Free download of Census 2 for academic users is available at http://fields.scripps.edu/census/index.php.

Original languageEnglish (US)
Pages (from-to)2208-2209
Number of pages2
JournalBioinformatics
Volume30
Issue number15
DOIs
StatePublished - Aug 1 2014
Externally publishedYes

Fingerprint

Census
Censuses
Labeling
Data analysis
Collision
High Energy
Quantification
Mass Spectrometry
Impurities
Normalization
Mass spectrometry
Ions
Peptides
Availability
Update
Filter
Proteins
Protein
Experiment
Experiments

ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this

Park, S. K. R., Aslanian, A., Mcclatchy, D. B., Han, X., Shah, H., Singh, M., ... Yates, J. R. (2014). Census 2: Isobaric labeling data analysis. Bioinformatics, 30(15), 2208-2209. https://doi.org/10.1093/bioinformatics/btu151

Census 2 : Isobaric labeling data analysis. / Park, Sung Kyu Robin; Aslanian, Aaron; Mcclatchy, Daniel B.; Han, Xuemei; Shah, Harshil; Singh, Meha; Rauniyar, Navin; Moresco, James J.; Pinto, Antonio F.M.; Diedrich, Jolene K.; Delahunty, Claire; Yates, John R.

In: Bioinformatics, Vol. 30, No. 15, 01.08.2014, p. 2208-2209.

Research output: Contribution to journalArticle

Park, SKR, Aslanian, A, Mcclatchy, DB, Han, X, Shah, H, Singh, M, Rauniyar, N, Moresco, JJ, Pinto, AFM, Diedrich, JK, Delahunty, C & Yates, JR 2014, 'Census 2: Isobaric labeling data analysis', Bioinformatics, vol. 30, no. 15, pp. 2208-2209. https://doi.org/10.1093/bioinformatics/btu151
Park SKR, Aslanian A, Mcclatchy DB, Han X, Shah H, Singh M et al. Census 2: Isobaric labeling data analysis. Bioinformatics. 2014 Aug 1;30(15):2208-2209. https://doi.org/10.1093/bioinformatics/btu151
Park, Sung Kyu Robin ; Aslanian, Aaron ; Mcclatchy, Daniel B. ; Han, Xuemei ; Shah, Harshil ; Singh, Meha ; Rauniyar, Navin ; Moresco, James J. ; Pinto, Antonio F.M. ; Diedrich, Jolene K. ; Delahunty, Claire ; Yates, John R. / Census 2 : Isobaric labeling data analysis. In: Bioinformatics. 2014 ; Vol. 30, No. 15. pp. 2208-2209.
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