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Items: 15

1.

Highly structured homolog pairing reflects functional organization of the Drosophila genome.

AlHaj Abed J, Erceg J, Goloborodko A, Nguyen SC, McCole RB, Saylor W, Fudenberg G, Lajoie BR, Dekker J, Mirny LA, Wu CT.

Nat Commun. 2019 Oct 3;10(1):4485. doi: 10.1038/s41467-019-12208-3.

2.

The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos.

Erceg J, AlHaj Abed J, Goloborodko A, Lajoie BR, Fudenberg G, Abdennur N, Imakaev M, McCole RB, Nguyen SC, Saylor W, Joyce EF, Senaratne TN, Hannan MA, Nir G, Dekker J, Mirny LA, Wu CT.

Nat Commun. 2019 Oct 3;10(1):4486. doi: 10.1038/s41467-019-12211-8.

3.

Walking along chromosomes with super-resolution imaging, contact maps, and integrative modeling.

Nir G, Farabella I, Pérez Estrada C, Ebeling CG, Beliveau BJ, Sasaki HM, Lee SD, Nguyen SC, McCole RB, Chattoraj S, Erceg J, AlHaj Abed J, Martins NMC, Nguyen HQ, Hannan MA, Russell S, Durand NC, Rao SSP, Kishi JY, Soler-Vila P, Di Pierro M, Onuchic JN, Callahan SP, Schreiner JM, Stuckey JA, Yin P, Aiden EL, Marti-Renom MA, Wu CT.

PLoS Genet. 2018 Dec 26;14(12):e1007872. doi: 10.1371/journal.pgen.1007872. eCollection 2018 Dec.

4.

Ultraconserved Elements Occupy Specific Arenas of Three-Dimensional Mammalian Genome Organization.

McCole RB, Erceg J, Saylor W, Wu CT.

Cell Rep. 2018 Jul 10;24(2):479-488. doi: 10.1016/j.celrep.2018.06.031.

5.

Genes with monoallelic expression contribute disproportionately to genetic diversity in humans.

Savova V, Chun S, Sohail M, McCole RB, Witwicki R, Gai L, Lenz TL, Wu CT, Sunyaev SR, Gimelbrant AA.

Nat Genet. 2016 Mar;48(3):231-237. doi: 10.1038/ng.3493. Epub 2016 Jan 25.

6.

Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes.

Beliveau BJ, Boettiger AN, Avendaño MS, Jungmann R, McCole RB, Joyce EF, Kim-Kiselak C, Bantignies F, Fonseka CY, Erceg J, Hannan MA, Hoang HG, Colognori D, Lee JT, Shih WM, Yin P, Zhuang X, Wu CT.

Nat Commun. 2015 May 12;6:7147. doi: 10.1038/ncomms8147.

7.

Abnormal dosage of ultraconserved elements is highly disfavored in healthy cells but not cancer cells.

McCole RB, Fonseka CY, Koren A, Wu CT.

PLoS Genet. 2014 Oct 23;10(10):e1004646. doi: 10.1371/journal.pgen.1004646. eCollection 2014 Oct.

8.

Genome-wide and parental allele-specific analysis of CTCF and cohesin DNA binding in mouse brain reveals a tissue-specific binding pattern and an association with imprinted differentially methylated regions.

Prickett AR, Barkas N, McCole RB, Hughes S, Amante SM, Schulz R, Oakey RJ.

Genome Res. 2013 Oct;23(10):1624-35. doi: 10.1101/gr.150136.112. Epub 2013 Jun 26.

9.

Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes.

Beliveau BJ, Joyce EF, Apostolopoulos N, Yilmaz F, Fonseka CY, McCole RB, Chang Y, Li JB, Senaratne TN, Williams BR, Rouillard JM, Wu CT.

Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):21301-6. doi: 10.1073/pnas.1213818110. Epub 2012 Dec 11.

10.

Short interspersed element (SINE) depletion and long interspersed element (LINE) abundance are not features universally required for imprinting.

Cowley M, de Burca A, McCole RB, Chahal M, Saadat G, Oakey RJ, Schulz R.

PLoS One. 2011 Apr 20;6(4):e18953. doi: 10.1371/journal.pone.0018953.

11.

A case-by-case evolutionary analysis of four imprinted retrogenes.

McCole RB, Loughran NB, Chahal M, Fernandes LP, Roberts RG, Fraternali F, O'Connell MJ, Oakey RJ.

Evolution. 2011 May;65(5):1413-27. doi: 10.1111/j.1558-5646.2010.01213.x. Epub 2011 Jan 10.

12.

Unwitting hosts fall victim to imprinting.

McCole RB, Oakey RJ.

Epigenetics. 2008 Sep;3(5):258-60. Epub 2008 Sep 19. No abstract available.

13.

Transcript- and tissue-specific imprinting of a tumour suppressor gene.

Schulz R, McCole RB, Woodfine K, Wood AJ, Chahal M, Monk D, Moore GE, Oakey RJ.

Hum Mol Genet. 2009 Jan 1;18(1):118-27. doi: 10.1093/hmg/ddn322. Epub 2008 Oct 4.

14.

Lateral line, otic and epibranchial placodes: developmental and evolutionary links?

Baker CV, O'Neill P, McCole RB.

J Exp Zool B Mol Dev Evol. 2008 Jun 15;310(4):370-83. Review.

15.

A molecular analysis of neurogenic placode and cranial sensory ganglion development in the shark, Scyliorhinus canicula.

O'Neill P, McCole RB, Baker CV.

Dev Biol. 2007 Apr 1;304(1):156-81. Epub 2006 Dec 19. Erratum in: Dev Biol. 2009 Aug;332(1):186-8.

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