The DOI matches its Crossref record; 23 of the 23 references it cites were found in a registry or an index.
apLCMS—adaptive processing of high-resolution LC/MS data
Open accessAbstract
Motivation: Liquid chromatography-mass spectrometry (LC/MS) profiling is a promising approach for the quantification of metabolites from complex biological samples. Significant challenges exist in the analysis of LC/MS data, including noise reduction, feature identification/ quantification, feature alignment and computation efficiency. Result: Here we present a set of algorithms for the processing of high-resolution LC/MS data. The major technical improvements include the adaptive tolerance level searching rather than hard cutoff or binning, the use of non-parametric methods to fine-tune intensity grouping, the use of run filter to better preserve weak signals and the model-based estimation of peak intensities for absolute quantification. The algorithms are implemented in an R package apLCMS, which can efficiently process large LC/ MS datasets. Availability: The R package apLCMS is available at www.sph.emory.edu/apLCMS. Contact: tyu8@sph.emory.edu Supplementary information: Supplementary data are available at Bioinformatics online.
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Mass spectrometry‐based metabolomics
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Cited by
Pang, Z., Zhou, G., Ewald, J., Chang, L., Hacariz, O., Basu, N., & Xia, J. (2022) · Nature Protocols · doi:10.1038/s41596-022-00710-w · Cited by 1,444
Predicting Network Activity from High Throughput Metabolomics
Li, S., Park, Y., Duraisingham, S., Strobel, F. H., Khan, N., Soltow, Q. A., Jones, D. P., & Pulendran, B. (2013) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1003123 · Cited by 936
Self-citationAntibiotics-Driven Gut Microbiome Perturbation Alters Immunity to Vaccines in Humans
Hagan, T., Cortese, M., Rouphael, N., Boudreau, C., Linde, C., Maddur, M. S., Das, J., Wang, H., Guthmiller, J., Zheng, N.-Y., et al. (2019) · Cell · doi:10.1016/j.cell.2019.08.010 · Cited by 572
IPO: a tool for automated optimization of XCMS parameters
Libiseller, G., Dvorzak, M., Kleb, U., Gander, E., Eisenberg, T., Madeo, F., Neumann, S., Trausinger, G., Sinner, F., Pieber, T., et al. (2015) · BMC Bioinformatics · doi:10.1186/s12859-015-0562-8 · Cited by 342
Go, Y.-M., & Jones, D. P. (2013) · Journal of Biological Chemistry · doi:10.1074/jbc.r113.464131 · Cited by 260
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Metadata
- Authors
- Yu, T., Park, Y., Johnson, J. M., & Jones, D. P.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2009-05-04
- Volume
- 25
- Issue
- 15
- Pages
- 1930-1936
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2130319566
- Cited by
- 406
- References
- 23
- FWCI
- 1.92
- Type
- journal article
- Language
- en
- Open access
- bronze
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