Research interests: PF studies gene expression evolution and mechanisms of molecular evolution. CRL studies gene expression regulatory networks and protein-protein interaction networks. PJW studies genetic changes responsible for phenotypic differences within and between species. JDG is exploring fundamental characteristics of gene expression evolution. CN and CR are responsible for development, implementation and application of new sequencing technologies at the Broad Institute. DLH’s research interests include evolutionary genomics, molecular evolution and population genetics.
Key considerations for measuring allelic expression on a genomic scale using high-throughput sequencing
Version of Record online: 10 FEB 2010
© 2010 Blackwell Publishing Ltd
Special Issue: Next Generation Molecular Ecology
Volume 19, Issue Supplement s1, pages 212–227, March 2010
How to Cite
FONTANILLAS, P., LANDRY, C. R., WITTKOPP, P. J., RUSS, C., GRUBER, J. D., NUSBAUM, C. and HARTL, D. L. (2010), Key considerations for measuring allelic expression on a genomic scale using high-throughput sequencing. Molecular Ecology, 19: 212–227. doi: 10.1111/j.1365-294X.2010.04472.x
- Issue online: 10 FEB 2010
- Version of Record online: 10 FEB 2010
- Received 9 June 2009; revision received 5 August 2009; accepted 8 August 2009
Fig. S1 Alternative model for predicting the proportion of informative reads: incorporating the finite length of mRNA sequence.
Fig. S2 The location of a SNP within a sequence affects its probability of being sampled in a random sampling strategy.
Fig. S3 The number of informative reads per gene, as well as the magnitude of AI, affect the accuracy of AI estimates.
Fig. S4 Distribution of significant AI in F1 hybrids.
Table S1 Genes and intergenic regions with significant AI (binomial test, p<0.05).
Table S2 Comparisons between 454 sequencing and Pyrosequencing AI estimates.
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Please note: Wiley Blackwell is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.