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Open Access Highly Accessed Research article

Comparison of transcriptomic landscapes of bovine embryos using RNA-Seq

Wen Huang and Hasan Khatib*

Author Affiliations

Department of Dairy Science, University of Wisconsin, Madison, WI 53706, USA

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BMC Genomics 2010, 11:711  doi:10.1186/1471-2164-11-711

Published: 17 December 2010

Additional files

Additional file 1:

List of differentially expressed genes and novel TUs identified by DESeq.

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Additional file 2:

RNA-seq is more sensitive than microarrays. Histogram of RNA-seq gene expression was plotted according to MAS5 Present/Marginal/Absent calls for blastocysts (a) and degeneratives (b).

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Additional file 3:

Test for DNA contamination in aRNA samples.

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Additional file 4:

Intronic read fraction as a function of pre-mRNA fraction. In this hypothetical example, exons were assumed to constitute 1/20 of the bases of genes. As pre-mRNA fraction increases, intronic read fraction also increases at a faster rate.

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Open Data

Additional file 5:

Bioanalyzer quality check of RNA extracted from pools of embryos. Approximately 5 ng of total RNA was analyzed on a RNA Pico6000 chip.

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Open Data