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Results: 1 to 20 of 69

1.

Role of histone modifications and early termination in pervasive transcription and antisense-mediated gene silencing in yeast.

Castelnuovo M, Zaugg JB, Guffanti E, Maffioletti A, Camblong J, Xu Z, Clauder-Münster S, Steinmetz LM, Luscombe NM, Stutz F.

Nucleic Acids Res. 2014 Apr;42(7):4348-62. doi: 10.1093/nar/gku100. Epub 2014 Feb 4.

PMID:
24497191
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Small RNA profiling of Xenopus embryos reveals novel miRNAs and a new class of small RNAs derived from intronic transposable elements.

Harding JL, Horswell S, Heliot C, Armisen J, Zimmerman LB, Luscombe NM, Miska EA, Hill CS.

Genome Res. 2014 Jan;24(1):96-106. doi: 10.1101/gr.144469.112. Epub 2013 Sep 24.

PMID:
24065776
[PubMed - in process]
Free PMC Article
3.

Cellular resolution models for even skipped regulation in the entire Drosophila embryo.

Ilsley GR, Fisher J, Apweiler R, Depace AH, Luscombe NM.

Elife. 2013 Aug 6;2:e00522. doi: 10.7554/eLife.00522.

PMID:
23930223
[PubMed]
Free PMC Article
4.

Response to Comments on "Drosophila Dosage Compensation Involves Enhanced Pol II Recruitment to Male X-Linked Promoters".

Vaquerizas JM, Cavalli FM, Conrad T, Akhtar A, Luscombe NM.

Science. 2013 Apr 19;340(6130):273. doi: 10.1126/science.1232874.

PMID:
23599465
[PubMed - indexed for MEDLINE]
Free Article
5.

Direct competition between hnRNP C and U2AF65 protects the transcriptome from the exonization of Alu elements.

Zarnack K, König J, Tajnik M, Martincorena I, Eustermann S, Stévant I, Reyes A, Anders S, Luscombe NM, Ule J.

Cell. 2013 Jan 31;152(3):453-66. doi: 10.1016/j.cell.2012.12.023.

PMID:
23374342
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

DNA-binding specificities of human transcription factors.

Jolma A, Yan J, Whitington T, Toivonen J, Nitta KR, Rastas P, Morgunova E, Enge M, Taipale M, Wei G, Palin K, Vaquerizas JM, Vincentelli R, Luscombe NM, Hughes TR, Lemaire P, Ukkonen E, Kivioja T, Taipale J.

Cell. 2013 Jan 17;152(1-2):327-39. doi: 10.1016/j.cell.2012.12.009.

PMID:
23332764
[PubMed - indexed for MEDLINE]
Free Article
7.

Non-random mutation: the evolution of targeted hypermutation and hypomutation.

Martincorena I, Luscombe NM.

Bioessays. 2013 Feb;35(2):123-30. doi: 10.1002/bies.201200150. Epub 2012 Dec 20. Review.

PMID:
23281172
[PubMed - indexed for MEDLINE]
8.

Gene loops enhance transcriptional directionality.

Tan-Wong SM, Zaugg JB, Camblong J, Xu Z, Zhang DW, Mischo HE, Ansari AZ, Luscombe NM, Steinmetz LM, Proudfoot NJ.

Science. 2012 Nov 2;338(6107):671-5. doi: 10.1126/science.1224350. Epub 2012 Sep 27.

PMID:
23019609
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Drosophila dosage compensation involves enhanced Pol II recruitment to male X-linked promoters.

Conrad T, Cavalli FM, Vaquerizas JM, Luscombe NM, Akhtar A.

Science. 2012 Aug 10;337(6095):742-6. doi: 10.1126/science.1221428. Epub 2012 Jul 19.

PMID:
22821985
[PubMed - indexed for MEDLINE]
Free Article
10.

The NSL complex regulates housekeeping genes in Drosophila.

Lam KC, Mühlpfordt F, Vaquerizas JM, Raja SJ, Holz H, Luscombe NM, Manke T, Akhtar A.

PLoS Genet. 2012;8(6):e1002736. doi: 10.1371/journal.pgen.1002736. Epub 2012 Jun 14.

PMID:
22723752
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

m:Explorer: multinomial regression models reveal positive and negative regulators of longevity in yeast quiescence.

Reimand J, Aun A, Vilo J, Vaquerizas JM, Sedman J, Luscombe NM.

Genome Biol. 2012 Jun 21;13(6):R55. doi: 10.1186/gb-2012-13-6-r55.

PMID:
22720667
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Genomics of DNA cytosine methylation in Escherichia coli reveals its role in stationary phase transcription.

Kahramanoglou C, Prieto AI, Khedkar S, Haase B, Gupta A, Benes V, Fraser GM, Luscombe NM, Seshasayee AS.

Nat Commun. 2012 Jun 6;3:886. doi: 10.1038/ncomms1878.

PMID:
22673913
[PubMed - indexed for MEDLINE]
13.

Evidence of non-random mutation rates suggests an evolutionary risk management strategy.

Martincorena I, Seshasayee AS, Luscombe NM.

Nature. 2012 May 3;485(7396):95-8. doi: 10.1038/nature10995.

PMID:
22522932
[PubMed - indexed for MEDLINE]
14.

The MOF chromobarrel domain controls genome-wide H4K16 acetylation and spreading of the MSL complex.

Conrad T, Cavalli FM, Holz H, Hallacli E, Kind J, Ilik I, Vaquerizas JM, Luscombe NM, Akhtar A.

Dev Cell. 2012 Mar 13;22(3):610-24. doi: 10.1016/j.devcel.2011.12.016.

PMID:
22421046
[PubMed - indexed for MEDLINE]
Free Article
15.

Protein-RNA interactions: new genomic technologies and perspectives.

König J, Zarnack K, Luscombe NM, Ule J.

Nat Rev Genet. 2012 Jan 18;13(2):77-83. doi: 10.1038/nrg3141. Review. Erratum in: Nat Rev Genet. 2012 Mar;13(3):220.

PMID:
22251872
[PubMed - indexed for MEDLINE]
16.

Genomic analysis of DNA binding and gene regulation by homologous nucleoid-associated proteins IHF and HU in Escherichia coli K12.

Prieto AI, Kahramanoglou C, Ali RM, Fraser GM, Seshasayee AS, Luscombe NM.

Nucleic Acids Res. 2012 Apr;40(8):3524-37. doi: 10.1093/nar/gkr1236. Epub 2011 Dec 17.

PMID:
22180530
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

SpeCond: a method to detect condition-specific gene expression.

Cavalli FM, Bourgon R, Vaquerizas JM, Luscombe NM.

Genome Biol. 2011 Oct 18;12(10):R101. doi: 10.1186/gb-2011-12-10-r101. Erratum in: Genome Biol. 2011;12(12):413. Huber, Wolfgang [removed].

PMID:
22008066
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

How do you find transcription factors? Computational approaches to compile and annotate repertoires of regulators for any genome.

Vaquerizas JM, Teichmann SA, Luscombe NM.

Methods Mol Biol. 2012;786:3-19. doi: 10.1007/978-1-61779-292-2_1. Review.

PMID:
21938617
[PubMed - indexed for MEDLINE]
19.

A genomic model of condition-specific nucleosome behavior explains transcriptional activity in yeast.

Zaugg JB, Luscombe NM.

Genome Res. 2012 Jan;22(1):84-94. doi: 10.1101/gr.124099.111. Epub 2011 Sep 19.

PMID:
21930892
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Comparative genomics suggests differential deployment of linear and branched signaling across bacteria.

Seshasayee AS, Luscombe NM.

Mol Biosyst. 2011 Nov;7(11):3042-9. doi: 10.1039/c1mb05260h. Epub 2011 Aug 30.

PMID:
21879110
[PubMed - indexed for MEDLINE]

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