Hogenesch JB - Search Results

1

IVT-seq reveals extreme bias in RNA sequencing.

Lahens NF, Kavakli IH, Zhang R, Hayer K, Black MB, Dueck H, Pizarro A, Kim J, Irizarry R, Thomas RS, Grant GR, Hogenesch JB. Lahens NF, et al. Among authors: hogenesch jb. Genome Biol. 2014 Jun 30;15(6):R86. doi: 10.1186/gb-2014-15-6-r86. Genome Biol. 2014. PMID: 24981968 Free PMC article.

2

Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation.

Love MI, Hogenesch JB, Irizarry RA. Love MI, et al. Among authors: hogenesch jb. Nat Biotechnol. 2016 Dec;34(12):1287-1291. doi: 10.1038/nbt.3682. Epub 2016 Sep 26. Nat Biotechnol. 2016. PMID: 27669167 Free PMC article.

3

Detection theory in identification of RNA-DNA sequence differences using RNA-sequencing.

Toung JM, Lahens N, Hogenesch JB, Grant G. Toung JM, et al. Among authors: hogenesch jb. PLoS One. 2014 Nov 14;9(11):e112040. doi: 10.1371/journal.pone.0112040. eCollection 2014. PLoS One. 2014. PMID: 25396741 Free PMC article.

4

Considerations for RNA-seq analysis of circadian rhythms.

Li J, Grant GR, Hogenesch JB, Hughes ME. Li J, et al. Among authors: hogenesch jb. Methods Enzymol. 2015;551:349-67. doi: 10.1016/bs.mie.2014.10.020. Epub 2014 Dec 26. Methods Enzymol. 2015. PMID: 25662464

5

Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data.

Hayer KE, Pizarro A, Lahens NF, Hogenesch JB, Grant GR. Hayer KE, et al. Among authors: hogenesch jb. Bioinformatics. 2015 Dec 15;31(24):3938-45. doi: 10.1093/bioinformatics/btv488. Epub 2015 Sep 3. Bioinformatics. 2015. PMID: 26338770 Free PMC article.

6

Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (RUM).

Grant GR, Farkas MH, Pizarro AD, Lahens NF, Schug J, Brunk BP, Stoeckert CJ, Hogenesch JB, Pierce EA. Grant GR, et al. Among authors: hogenesch jb. Bioinformatics. 2011 Sep 15;27(18):2518-28. doi: 10.1093/bioinformatics/btr427. Epub 2011 Jul 19. Bioinformatics. 2011. PMID: 21775302 Free PMC article.

7

Ribosome profiling reveals an important role for translational control in circadian gene expression.

Jang C, Lahens NF, Hogenesch JB, Sehgal A. Jang C, et al. Among authors: hogenesch jb. Genome Res. 2015 Dec;25(12):1836-47. doi: 10.1101/gr.191296.115. Epub 2015 Sep 3. Genome Res. 2015. PMID: 26338483 Free PMC article.

8

A circadian gene expression atlas in mammals: implications for biology and medicine.

Zhang R, Lahens NF, Ballance HI, Hughes ME, Hogenesch JB. Zhang R, et al. Among authors: hogenesch jb. Proc Natl Acad Sci U S A. 2014 Nov 11;111(45):16219-24. doi: 10.1073/pnas.1408886111. Epub 2014 Oct 27. Proc Natl Acad Sci U S A. 2014. PMID: 25349387 Free PMC article.

9

CAMPAREE: a robust and configurable RNA expression simulator.

Lahens NF, Brooks TG, Sarantopoulou D, Nayak S, Lawrence C, Mrčela A, Srinivasan A, Schug J, Hogenesch JB, Barash Y, Grant GR. Lahens NF, et al. Among authors: hogenesch jb. BMC Genomics. 2021 Sep 25;22(1):692. doi: 10.1186/s12864-021-07934-2. BMC Genomics. 2021. PMID: 34563123 Free PMC article.

10

CircaDB: a database of mammalian circadian gene expression profiles.

Pizarro A, Hayer K, Lahens NF, Hogenesch JB. Pizarro A, et al. Among authors: hogenesch jb. Nucleic Acids Res. 2013 Jan;41(Database issue):D1009-13. doi: 10.1093/nar/gks1161. Epub 2012 Nov 24. Nucleic Acids Res. 2013. PMID: 23180795 Free PMC article.

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