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TIPR: transcription initiation pattern recognition on a genome scale.
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High sensitivity TSS prediction: estimates of locations where TSS cannot occur.
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Computational annotation of miRNA transcription start sites.
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Small Genetic Circuits and MicroRNAs: Big Players in Polymerase II Transcriptional Control in Plants.
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1
Promoter analysis reveals globally differential regulation of human long non-coding RNA and protein-coding genes.
PLoS One. 2014 Oct 2;9(10):e109443. doi: 10.1371/journal.pone.0109443. eCollection 2014.
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Paired-end analysis of transcription start sites in Arabidopsis reveals plant-specific promoter signatures.
Plant Cell. 2014 Jul;26(7):2746-60. doi: 10.1105/tpc.114.125617. Epub 2014 Jul 17.
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Two independent transcription initiation codes overlap on vertebrate core promoters.
Nature. 2014 Mar 20;507(7492):381-385. doi: 10.1038/nature12974. Epub 2014 Feb 16.
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A unified model for yeast transcript definition.
Genome Res. 2014 Jan;24(1):154-66. doi: 10.1101/gr.164327.113. Epub 2013 Oct 29.
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Microsatellite tandem repeats are abundant in human promoters and are associated with regulatory elements.
PLoS One. 2013;8(2):e54710. doi: 10.1371/journal.pone.0054710. Epub 2013 Feb 6.
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Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level.
PLoS Genet. 2011 Jan 13;7(1):e1001274. doi: 10.1371/journal.pgen.1001274.
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A paired-end sequencing strategy to map the complex landscape of transcription initiation.
Nat Methods. 2010 Jul;7(7):521-7. doi: 10.1038/nmeth.1464. Epub 2010 May 23.
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Promoting developmental transcription.
Development. 2010 Jan;137(1):15-26. doi: 10.1242/dev.035493.

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