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Leveraging Lexical Link Analysis (LLA) to discover new knowledge
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Functional Anatomy of Recognition of Chinese Multi-Character Words: Convergent Evidence from Effects of Transposable Nonwords, Lexicality, and Word Frequency
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Diabetes and Hypertension Consistently Predict the Presence and Extent of Coronary Artery Calcification in Symptomatic Patients: A Systematic Review and Meta-Analysis
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Leveraging Lexical Link Analysis (LLA) To Discover New Knowledge
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In: Military Cyber Affairs (2016)
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Cis-regulatory architecture of a brain-signaling center predates the origin of chordates
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Yao, Yao; Minor, Paul J.; Zhao, Ying-Tao; Jeong, Yongsu; Pani, Ariel M.; King, Anna N.; Symmons, Orsolya; Gan, Lin; Cardoso, Wellington V.; Spitz, François; Lowe, Christopher J.; Epstein, Douglas J.. - 2016
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Abstract:
Genomic approaches have predicted hundreds of thousands of tissue specific cis-regulatory sequences, but the determinants critical to their function and evolutionary history are mostly unknown1–4. Here, we systematically decode a set of brain enhancers active in the zona limitans intrathalamica (zli), a signaling center essential for vertebrate forebrain development via the secreted morphogen, Sonic hedgehog (Shh)5,6. We apply a de novo motif analysis tool to identify six position-independent sequence motifs together with their cognate transcription factors that are essential for zli enhancer activity and Shh expression in the mouse embryo. Using knowledge of this regulatory lexicon, we discover novel Shh zli enhancers in mice, and a functionally equivalent element in hemichordates, indicating an ancient origin of the Shh zli regulatory network that predates the chordate phylum. These findings support a strategy for delineating functionally conserved enhancers in the absence of overt sequence homologies, and over extensive evolutionary distances.
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URL: https://doi.org/10.1038/ng.3542 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4848136/ http://www.ncbi.nlm.nih.gov/pubmed/27064252
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Functional Anatomy of Recognition of Chinese Multi-Character Words: Convergent Evidence from Effects of Transposable Nonwords, Lexicality, and Word Frequency
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