Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

Siepel, Adam, Bejerano, Gill, Pedersen, Jakob S., Hinrichs, Angie S., Hou, Minmei, Rosenbloom, Kate, Clawson, Hiram, Spieth, John +8 more·2005·Genome Research

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  26. TargetMiner: microRNA target prediction with systematic identification of tissue-specific negative examples
    S. Bandyopadhyay, R. Mitra · 2009 · Bioinform.
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  28. Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison
    Daniel L. Halligan, Peter D. Keightley · 2006 · Genome Research
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  30. Implications of chimaeric non-co-linear transcripts
    T Gingeras · 2009 · Nature
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    Deyou Zheng, Adam Frankish, Robert Baertsch, Philipp Kapranov, Alexandre Reymond, Siew Woh Choo, Yontao Lu, France Denœud, Stylianos E. Antonarakis, Michael P. Snyder et al. · 2007 · Genome Research
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