The DOI matches its Crossref record; 6 of the 6 references it cites were found in a registry or an index.
A variance-stabilizing transformation for gene-expression microarray data
Abstract
Motivation: Standard statistical techniques often assume that data are normally distributed, with constant variance not depending on the mean of the data. Data that violate these assumptions can often be brought in line with the assumptions by application of a transformation. Gene-expression microarray data have a complicated error structure, with a variance that changes with the mean in a non-linear fashion. Log transformations, which are often applied to microarray data, can inflate the variance of observations near background. Results: We introduce a transformation that stabilizes the variance of microarray data across the full range of expression. Simulation studies also suggest that this transformation approximately symmetrizes microarray data. Contact: bpdurbin@wald.ucdavis.edu Keywords: cDNA array; microarray; statistical analysis; transformation; normalization.
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Cites
An Analysis of Transformations
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A Model for Measurement Error for Gene Expression Arrays
Rocke, D. M., & Durbin, B. (2001) · Journal of Computational Biology · doi:10.1089/106652701753307485 · Cited by 434
Self-citationHodges, J. S., & Atkinson, A. C. (1987) · Journal of the American Statistical Association · doi:10.2307/2289498 · Cited by 396
Testing for Differentially-Expressed Genes by Maximum-Likelihood Analysis of Microarray Data
Ideker, T., Thorsson, V., Siegel, A. F., & Hood, L. E. (2000) · Journal of Computational Biology · doi:10.1089/10665270050514945 · Cited by 327
Diagnostics for conformity of paired quantitative measurements
Hawkins, D. M. (2002) · Statistics in Medicine · doi:10.1002/sim.1013 · Cited by 77
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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106
Du, P., Zhang, X., Huang, C.-C., Jafari, N., Kibbe, W. A., Hou, L., & Lin, S. M. (2010) · BMC Bioinformatics · doi:10.1186/1471-2105-11-587 · Cited by 2,136
A comparison of background correction methods for two-colour microarrays
Ritchie, M. E., Silver, J., Oshlack, A., Holmes, M., Diyagama, D., Holloway, A., & Smyth, G. K. (2007) · Bioinformatics · doi:10.1093/bioinformatics/btm412 · Cited by 907
Data-analysis strategies for image-based cell profiling
Caicedo, J. C., Cooper, S., Heigwer, F., Warchal, S., Qiu, P., Molnar, C., Vasilevich, A. S., Barry, J. D., Bansal, H. S., Kraus, O., et al. (2017) · Nature Methods · doi:10.1038/nmeth.4397 · Cited by 739
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Metadata
- Authors
- Durbin, B. P., Hardin, J. S., Hawkins, D. M., & Rocke, D. M.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2002-07-01
- Volume
- 18
- Issue
- suppl_1
- Pages
- S105-S110
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2146614932
- Cited by
- 470
- References
- 6
- FWCI
- 11.45
- Type
- journal article
- Language
- en
- Open access
- closed
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