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Genome-wide analysis of promoter architecture in Drosophila melanogaster.
Hoskins RA, Landolin JM, Brown JB, Sandler JE, Takahashi H, Lassmann T, Yu C, Booth BW, Zhang D, Wan KH, Yang L, Boley N, Andrews J, Kaufman TC, Graveley BR, Bickel PJ, Carninci P, Carlson JW, Celniker SE. Hoskins RA, et al. Among authors: takahashi h. Genome Res. 2011 Feb;21(2):182-92. doi: 10.1101/gr.112466.110. Epub 2010 Dec 22. Genome Res. 2011. PMID: 21177961 Free PMC article.
The regulated retrotransposon transcriptome of mammalian cells.
Faulkner GJ, Kimura Y, Daub CO, Wani S, Plessy C, Irvine KM, Schroder K, Cloonan N, Steptoe AL, Lassmann T, Waki K, Hornig N, Arakawa T, Takahashi H, Kawai J, Forrest AR, Suzuki H, Hayashizaki Y, Hume DA, Orlando V, Grimmond SM, Carninci P. Faulkner GJ, et al. Among authors: takahashi h. Nat Genet. 2009 May;41(5):563-71. doi: 10.1038/ng.368. Epub 2009 Apr 19. Nat Genet. 2009. PMID: 19377475
Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan.
Plessy C, Bertin N, Takahashi H, Simone R, Salimullah M, Lassmann T, Vitezic M, Severin J, Olivarius S, Lazarevic D, Hornig N, Orlando V, Bell I, Gao H, Dumais J, Kapranov P, Wang H, Davis CA, Gingeras TR, Kawai J, Daub CO, Hayashizaki Y, Gustincich S, Carninci P. Plessy C, et al. Among authors: takahashi h. Nat Methods. 2010 Jul;7(7):528-34. doi: 10.1038/nmeth.1470. Epub 2010 Jun 13. Nat Methods. 2010. PMID: 20543846 Free PMC article.
Regional differences in gene expression and promoter usage in aged human brains.
Pardo LM, Rizzu P, Francescatto M, Vitezic M, Leday GG, Sanchez JS, Khamis A, Takahashi H, van de Berg WD, Medvedeva YA, van de Wiel MA, Daub CO, Carninci P, Heutink P. Pardo LM, et al. Among authors: takahashi h. Neurobiol Aging. 2013 Jul;34(7):1825-36. doi: 10.1016/j.neurobiolaging.2013.01.005. Epub 2013 Feb 19. Neurobiol Aging. 2013. PMID: 23428183 Free article.
Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis.
Nepal C, Hadzhiev Y, Previti C, Haberle V, Li N, Takahashi H, Suzuki AM, Sheng Y, Abdelhamid RF, Anand S, Gehrig J, Akalin A, Kockx CE, van der Sloot AA, van Ijcken WF, Armant O, Rastegar S, Watson C, Strähle U, Stupka E, Carninci P, Lenhard B, Müller F. Nepal C, et al. Among authors: takahashi h. Genome Res. 2013 Nov;23(11):1938-50. doi: 10.1101/gr.153692.112. Epub 2013 Sep 3. Genome Res. 2013. PMID: 24002785 Free PMC article.
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