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Published August 12, 2017 | Version v1.0.0
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jamesrco/LipidPhotoOxBox: LipidPhotoOxBox v1.0.0

Creators

  • 1. University of Washington
  • 2. Woods Hole Oceanographic Institution
  • 3. University of North Carolina at Chapel Hill
  • 4. Columbia University

Contributors

  • 1. Woods Hole Oceanographic Institution
  • 2. University of Georgia
  • 3. Scripps Institution of Oceanography
  • 4. University of North Carolina at Chapel Hill

Description

Initial release of data and code in LipidPhotoOxBox to support Collins, J. R., H. F. Fredricks, J. M. Diaz, J. S. Bowman, C. P. Ward, C. Moreno, K. Longnecker, A. Marchetti, C. M. Hansel, H. W. Ducklow, and B. A. S. Van Mooy (2017), The diverse products and biogeochemical significance of lipid photooxidation in coastal surface waters of West Antarctica.

Files

jamesrco/LipidPhotoOxBox-v1.0.0.zip

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Additional details

Cites
10.1021/acs.analchem.6b01260 (DOI)
10.1007/s11745-012-3748-0 (DOI)
10.1139/o59-099 (DOI)
10.1093/bioinformatics/btq441 (DOI)
10.1021/ac051437y (DOI)
10.1186/1471-2105-9-375 (DOI)
10.1021/ac202450g (DOI)
10.1186/s12859-015-0562-8 (DOI)
Is cited by
10.1575/1912/8721 (DOI)
Is compiled by
https://cran.r-project.org/web/packages/gplots/index.html (URL)
https://cran.r-project.org/web/packages/RSEIS/index.html (URL)
10.1021/acs.analchem.6b01260 (DOI)
https://cran.r-project.org/web/packages/stringr/index.html (URL)
Is supplement to
https://github.com/jamesrco/LipidPhotoOxBox/tree/v1.0.0 (URL)
Is supplemented by
10.17504/protocols.io.haub2ew (DOI)

References

  • Collins, J.R., Edwards, B.R., Fredricks, H.F. and Van Mooy, B.A.S. (2016) LOBSTAHS: An adduct-based lipidomics strategy for discovery and identification of oxidative stress biomarkers. Anal. Chem. 88, 7154-7162.
  • Benton, H.P., Want, E.J. and Ebbels, T.M.D. (2010) Correction of mass calibration gaps in liquid chromatography-mass spectrometry metabolomics data. Bioinformatics 26, 2488-2489.
  • Smith, C.A., Want, E.J., O'Maille, G., Abagyan, R. and Siuzdak, G. (2006) XCMS: processing mass spectrometry data for metabolite profiling using nonlinear peak alignment, matching, and identification. Anal. Chem. 78, 779–787.
  • Tautenhahn, R., Boettcher, C. and Neumann, S. (2008) Highly sensitive feature detection for high resolution LC/MS. BMC Bioinformatics 9, 504.
  • Libiseller, G., Dvorzak, M., Kleb, U., Gander, E., Eisenberg, T., Madeo, F., Neumann, S., Trausinger, G., Sinner, F., Pieber, T. and Magnes, C. (2015) IPO: a tool for automated optimization of XCMS parameters. BMC Bioinformatics 16, 118.
  • Popendorf, K.J., Fredricks, H.F. and Van Mooy, B.A.S. (2013) Molecular ion-independent quantification of polar glycerolipid classes in marine plankton using triple quadrupole MS. Lipids 48, 185-195.
  • Bligh, E.G. and Dyer, W.J. (1959) A rapid method of total lipid extraction and purification. Canadian Journal of Biochemistry and Physiology 37, 911-917.