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Items: 1 to 20 of 95

1.

Genome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq.

Sun H, Wu J, Wickramasinghe P, Pal S, Gupta R, Bhattacharyya A, Agosto-Perez FJ, Showe LC, Huang TH, Davuluri RV.

Nucleic Acids Res. 2011 Jan;39(1):190-201. doi: 10.1093/nar/gkq775. Epub 2010 Sep 14.

2.

Annotation of gene promoters by integrative data-mining of ChIP-seq Pol-II enrichment data.

Gupta R, Wikramasinghe P, Bhattacharyya A, Perez FA, Pal S, Davuluri RV.

BMC Bioinformatics. 2010 Jan 18;11 Suppl 1:S65. doi: 10.1186/1471-2105-11-S1-S65.

3.

Genome-wide mapping of RNA Pol-II promoter usage in mouse tissues by ChIP-seq.

Pal S, Gupta R, Davuluri RV.

Methods Mol Biol. 2014;1176:1-9. doi: 10.1007/978-1-4939-0992-6_1.

PMID:
25030914
4.

MPromDb update 2010: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-seq experimental data.

Gupta R, Bhattacharyya A, Agosto-Perez FJ, Wickramasinghe P, Davuluri RV.

Nucleic Acids Res. 2011 Jan;39(Database issue):D92-7. doi: 10.1093/nar/gkq1171. Epub 2010 Nov 21.

5.
6.

Integrative genome-wide chromatin signature analysis using finite mixture models.

Taslim C, Lin S, Huang K, Huang TH.

BMC Genomics. 2012;13 Suppl 6:S3. doi: 10.1186/1471-2164-13-S6-S3. Epub 2012 Oct 26.

7.

All and only CpG containing sequences are enriched in promoters abundantly bound by RNA polymerase II in multiple tissues.

Rozenberg JM, Shlyakhtenko A, Glass K, Rishi V, Myakishev MV, FitzGerald PC, Vinson C.

BMC Genomics. 2008 Feb 5;9:67. doi: 10.1186/1471-2164-9-67.

8.

Infection by Herpes Simplex Virus 1 Causes Near-Complete Loss of RNA Polymerase II Occupancy on the Host Cell Genome.

Abrisch RG, Eidem TM, Yakovchuk P, Kugel JF, Goodrich JA.

J Virol. 2015 Dec 16;90(5):2503-13. doi: 10.1128/JVI.02665-15. Erratum in: J Virol. 2016 Nov 28;90(24):11279.

9.

Epigenetic regulation of human cis-natural antisense transcripts.

Conley AB, Jordan IK.

Nucleic Acids Res. 2012 Feb;40(4):1438-45. doi: 10.1093/nar/gkr1010.

10.

Mammalian RNA polymerase II core promoters: insights from genome-wide studies.

Sandelin A, Carninci P, Lenhard B, Ponjavic J, Hayashizaki Y, Hume DA.

Nat Rev Genet. 2007 Jun;8(6):424-36. Epub 2007 May 8. Review.

PMID:
17486122
11.

Identification of regulatory regions of bidirectional genes in cervical cancer.

Wang G, Qi K, Zhao Y, Li Y, Juan L, Teng M, Li L, Liu Y, Wang Y.

BMC Med Genomics. 2013;6 Suppl 1:S5. doi: 10.1186/1755-8794-6-S1-S5. Epub 2013 Jan 23.

12.

Genome-wide mapping and analysis of active promoters in mouse embryonic stem cells and adult organs.

Barrera LO, Li Z, Smith AD, Arden KC, Cavenee WK, Zhang MQ, Green RD, Ren B.

Genome Res. 2008 Jan;18(1):46-59. Epub 2007 Nov 27.

13.

Genome-wide mapping of histone H3 lysine 4 trimethylation in Eucalyptus grandis developing xylem.

Hussey SG, Mizrachi E, Groover A, Berger DK, Myburg AA.

BMC Plant Biol. 2015 May 10;15:117. doi: 10.1186/s12870-015-0499-0.

14.

Features of mammalian microRNA promoters emerge from polymerase II chromatin immunoprecipitation data.

Corcoran DL, Pandit KV, Gordon B, Bhattacharjee A, Kaminski N, Benos PV.

PLoS One. 2009;4(4):e5279. doi: 10.1371/journal.pone.0005279. Epub 2009 Apr 23.

15.

RNA polymerase II binding patterns reveal genomic regions involved in microRNA gene regulation.

Wang G, Wang Y, Shen C, Huang YW, Huang K, Huang TH, Nephew KP, Li L, Liu Y.

PLoS One. 2010 Nov 2;5(11):e13798. doi: 10.1371/journal.pone.0013798.

16.

RNA polymerase II pausing downstream of core histone genes is different from genes producing polyadenylated transcripts.

Anamika K, Gyenis À, Poidevin L, Poch O, Tora L.

PLoS One. 2012;7(6):e38769. doi: 10.1371/journal.pone.0038769. Epub 2012 Jun 11.

17.

Stably paused genes revealed through inhibition of transcription initiation by the TFIIH inhibitor triptolide.

Chen F, Gao X, Shilatifard A.

Genes Dev. 2015 Jan 1;29(1):39-47. doi: 10.1101/gad.246173.114.

18.

A global change in RNA polymerase II pausing during the Drosophila midblastula transition.

Chen K, Johnston J, Shao W, Meier S, Staber C, Zeitlinger J.

Elife. 2013 Aug 13;2:e00861. doi: 10.7554/eLife.00861.

19.
20.

A map of the cis-regulatory sequences in the mouse genome.

Shen Y, Yue F, McCleary DF, Ye Z, Edsall L, Kuan S, Wagner U, Dixon J, Lee L, Lobanenkov VV, Ren B.

Nature. 2012 Aug 2;488(7409):116-20. doi: 10.1038/nature11243.

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