Hansen KD - Search Results

1

Simultaneous profiling of chromatin accessibility and methylation on human cell lines with nanopore sequencing.

Lee I, Razaghi R, Gilpatrick T, Molnar M, Gershman A, Sadowski N, Sedlazeck FJ, Hansen KD, Simpson JT, Timp W. Lee I, et al. Among authors: hansen kd. Nat Methods. 2020 Dec;17(12):1191-1199. doi: 10.1038/s41592-020-01000-7. Epub 2020 Nov 23. Nat Methods. 2020. PMID: 33230324 Free PMC article.

2

Increased methylation variation in epigenetic domains across cancer types.

Hansen KD, Timp W, Bravo HC, Sabunciyan S, Langmead B, McDonald OG, Wen B, Wu H, Liu Y, Diep D, Briem E, Zhang K, Irizarry RA, Feinberg AP. Hansen KD, et al. Nat Genet. 2011 Jun 26;43(8):768-75. doi: 10.1038/ng.865. Nat Genet. 2011. PMID: 21706001 Free PMC article.

3

Reversible switching between epigenetic states in honeybee behavioral subcastes.

Herb BR, Wolschin F, Hansen KD, Aryee MJ, Langmead B, Irizarry R, Amdam GV, Feinberg AP. Herb BR, et al. Among authors: hansen kd. Nat Neurosci. 2012 Oct;15(10):1371-3. doi: 10.1038/nn.3218. Epub 2012 Sep 16. Nat Neurosci. 2012. PMID: 22983211 Free PMC article.

4

Coverage recommendations for methylation analysis by whole-genome bisulfite sequencing.

Ziller MJ, Hansen KD, Meissner A, Aryee MJ. Ziller MJ, et al. Among authors: hansen kd. Nat Methods. 2015 Mar;12(3):230-2, 1 p following 232. doi: 10.1038/nmeth.3152. Epub 2014 Nov 2. Nat Methods. 2015. PMID: 25362363 Free PMC article.

5

Correcting for cell-type heterogeneity in epigenome-wide association studies: revisiting previous analyses.

Zheng SC, Beck S, Jaffe AE, Koestler DC, Hansen KD, Houseman AE, Irizarry RA, Teschendorff AE. Zheng SC, et al. Among authors: hansen kd. Nat Methods. 2017 Feb 28;14(3):216-217. doi: 10.1038/nmeth.4187. Nat Methods. 2017. PMID: 28245219 Free PMC article. No abstract available.

6

Reproducible RNA-seq analysis using recount2.

Collado-Torres L, Nellore A, Kammers K, Ellis SE, Taub MA, Hansen KD, Jaffe AE, Langmead B, Leek JT. Collado-Torres L, et al. Among authors: hansen kd. Nat Biotechnol. 2017 Apr 11;35(4):319-321. doi: 10.1038/nbt.3838. Nat Biotechnol. 2017. PMID: 28398307 Free PMC article. No abstract available.

7

Neuronal brain-region-specific DNA methylation and chromatin accessibility are associated with neuropsychiatric trait heritability.

Rizzardi LF, Hickey PF, Rodriguez DiBlasi V, Tryggvadóttir R, Callahan CM, Idrizi A, Hansen KD, Feinberg AP. Rizzardi LF, et al. Among authors: hansen kd. Nat Neurosci. 2019 Feb;22(2):307-316. doi: 10.1038/s41593-018-0297-8. Epub 2019 Jan 14. Nat Neurosci. 2019. PMID: 30643296 Free PMC article.

8

Analyzing whole genome bisulfite sequencing data from highly divergent genotypes.

Wulfridge P, Langmead B, Feinberg AP, Hansen KD. Wulfridge P, et al. Among authors: hansen kd. Nucleic Acids Res. 2019 Nov 4;47(19):e117. doi: 10.1093/nar/gkz674. Nucleic Acids Res. 2019. PMID: 31392989 Free PMC article.

9

A mammalian methylation array for profiling methylation levels at conserved sequences.

Arneson A, Haghani A, Thompson MJ, Pellegrini M, Kwon SB, Vu H, Maciejewski E, Yao M, Li CZ, Lu AT, Morselli M, Rubbi L, Barnes B, Hansen KD, Zhou W, Breeze CE, Ernst J, Horvath S. Arneson A, et al. Among authors: hansen kd. Nat Commun. 2022 Feb 10;13(1):783. doi: 10.1038/s41467-022-28355-z. Nat Commun. 2022. PMID: 35145108 Free PMC article.

10

Large-scale hypomethylated blocks associated with Epstein-Barr virus-induced B-cell immortalization.

Hansen KD, Sabunciyan S, Langmead B, Nagy N, Curley R, Klein G, Klein E, Salamon D, Feinberg AP. Hansen KD, et al. Genome Res. 2014 Feb;24(2):177-84. doi: 10.1101/gr.157743.113. Epub 2013 Sep 25. Genome Res. 2014. PMID: 24068705 Free PMC article.

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