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Twin approaches were used: an information\u2013theoretic analysis of the existing annotated transcriptome to identify the most tissue-specific genes and a de-novo transcriptome annotation to evaluate general features of the transcription landscape. Expression was detected for 97% of the Ensembl transcriptome with at least one read in one sample and between 28% and 66% at a level of 10 tags per million (TPM) or greater in individual tissues. Over 95% of genes exhibited some level of tissue-specific gene expression. This was mostly due to different levels of expression in different tissues rather than exclusive expression in a single tissue. Less than 1% of annotated genes exhibited a highly restricted tissue-specific expression profile and approximately 2% exhibited classic housekeeping profiles. In conclusion, it is the combined effects of the variable expression of large numbers of genes (73%\u201393% of the genome) and the specific expression of a small number of genes (&amp;lt;1% of the transcriptome) that contribute to determining the outcome of the function of individual tissues.<\/jats:p>","DOI":"10.1071\/rd15354","type":"journal-article","created":{"date-parts":[[2015,12,2]],"date-time":"2015-12-02T20:32:45Z","timestamp":1449088365000},"page":"11-24","source":"Crossref","is-referenced-by-count":12,"title":["Fertility and genomics: comparison of gene expression in contrasting reproductive tissues of female cattle"],"prefix":"10.1071","volume":"28","author":[{"given":"P. A.","family":"McGettigan","sequence":"first","affiliation":[{"name":"ASchool of Agriculture and Food Science, University College Dublin, Belfield, Dublin 4, Ireland."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"J. 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