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Results: 1 to 20 of 26

1.

ChIP-seq: advantages and challenges of a maturing technology.

Park PJ.

Nat Rev Genet. 2009 Oct;10(10):669-80. doi: 10.1038/nrg2641. Epub 2009 Sep 8. Review.

PMID:
19736561
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Histone modifications at human enhancers reflect global cell-type-specific gene expression.

Heintzman ND, Hon GC, Hawkins RD, Kheradpour P, Stark A, Harp LF, Ye Z, Lee LK, Stuart RK, Ching CW, Ching KA, Antosiewicz-Bourget JE, Liu H, Zhang X, Green RD, Lobanenkov VV, Stewart R, Thomson JA, Crawford GE, Kellis M, Ren B.

Nature. 2009 May 7;459(7243):108-12. doi: 10.1038/nature07829. Epub 2009 Mar 18.

PMID:
19295514
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

ChIP-seq accurately predicts tissue-specific activity of enhancers.

Visel A, Blow MJ, Li Z, Zhang T, Akiyama JA, Holt A, Plajzer-Frick I, Shoukry M, Wright C, Chen F, Afzal V, Ren B, Rubin EM, Pennacchio LA.

Nature. 2009 Feb 12;457(7231):854-8. doi: 10.1038/nature07730.

PMID:
19212405
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

The serum response factor and a putative novel transcription factor regulate expression of the immediate-early gene Arc/Arg3.1 in neurons.

Pintchovski SA, Peebles CL, Kim HJ, Verdin E, Finkbeiner S.

J Neurosci. 2009 Feb 4;29(5):1525-37. doi: 10.1523/JNEUROSCI.5575-08.2009.

PMID:
19193899
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Synaptic activity-responsive element in the Arc/Arg3.1 promoter essential for synapse-to-nucleus signaling in activated neurons.

Kawashima T, Okuno H, Nonaka M, Adachi-Morishima A, Kyo N, Okamura M, Takemoto-Kimura S, Worley PF, Bito H.

Proc Natl Acad Sci U S A. 2009 Jan 6;106(1):316-21. doi: 10.1073/pnas.0806518106. Epub 2008 Dec 30.

PMID:
19116276
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

From synapse to nucleus: calcium-dependent gene transcription in the control of synapse development and function.

Greer PL, Greenberg ME.

Neuron. 2008 Sep 25;59(6):846-60. doi: 10.1016/j.neuron.2008.09.002. Review.

PMID:
18817726
[PubMed - indexed for MEDLINE]
Free Article
7.

Activity-dependent regulation of inhibitory synapse development by Npas4.

Lin Y, Bloodgood BL, Hauser JL, Lapan AD, Koon AC, Kim TK, Hu LS, Malik AN, Greenberg ME.

Nature. 2008 Oct 30;455(7217):1198-204. doi: 10.1038/nature07319. Epub 2008 Sep 24.

PMID:
18815592
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Genome-wide relationship between histone H3 lysine 4 mono- and tri-methylation and transcription factor binding.

Robertson AG, Bilenky M, Tam A, Zhao Y, Zeng T, Thiessen N, Cezard T, Fejes AP, Wederell ED, Cullum R, Euskirchen G, Krzywinski M, Birol I, Snyder M, Hoodless PA, Hirst M, Marra MA, Jones SJ.

Genome Res. 2008 Dec;18(12):1906-17. doi: 10.1101/gr.078519.108. Epub 2008 Sep 11.

PMID:
18787082
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

ProSOM: core promoter prediction based on unsupervised clustering of DNA physical profiles.

Abeel T, Saeys Y, Rouzé P, Van de Peer Y.

Bioinformatics. 2008 Jul 1;24(13):i24-31. doi: 10.1093/bioinformatics/btn172.

PMID:
18586720
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Signaling mechanisms linking neuronal activity to gene expression and plasticity of the nervous system.

Flavell SW, Greenberg ME.

Annu Rev Neurosci. 2008;31:563-90. doi: 10.1146/annurev.neuro.31.060407.125631. Review.

PMID:
18558867
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Genome-wide RNA polymerase II: not genes only!

Koch F, Jourquin F, Ferrier P, Andrau JC.

Trends Biochem Sci. 2008 Jun;33(6):265-73. doi: 10.1016/j.tibs.2008.04.006. Epub 2008 May 6. Review.

PMID:
18467100
[PubMed - indexed for MEDLINE]
12.

Identification and characterization of cell type-specific and ubiquitous chromatin regulatory structures in the human genome.

Xi H, Shulha HP, Lin JM, Vales TR, Fu Y, Bodine DM, McKay RD, Chenoweth JG, Tesar PJ, Furey TS, Ren B, Weng Z, Crawford GE.

PLoS Genet. 2007 Aug;3(8):e136. Epub 2007 Jul 2.

PMID:
17708682
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

High-resolution profiling of histone methylations in the human genome.

Barski A, Cuddapah S, Cui K, Roh TY, Schones DE, Wang Z, Wei G, Chepelev I, Zhao K.

Cell. 2007 May 18;129(4):823-37.

PMID:
17512414
[PubMed - indexed for MEDLINE]
Free Article
14.

Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome.

Heintzman ND, Stuart RK, Hon G, Fu Y, Ching CW, Hawkins RD, Barrera LO, Van Calcar S, Qu C, Ching KA, Wang W, Weng Z, Green RD, Crawford GE, Ren B.

Nat Genet. 2007 Mar;39(3):311-8. Epub 2007 Feb 4.

PMID:
17277777
[PubMed - indexed for MEDLINE]
15.

Arc/Arg3.1 mediates homeostatic synaptic scaling of AMPA receptors.

Shepherd JD, Rumbaugh G, Wu J, Chowdhury S, Plath N, Kuhl D, Huganir RL, Worley PF.

Neuron. 2006 Nov 9;52(3):475-84.

PMID:
17088213
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Arc/Arg3.1 interacts with the endocytic machinery to regulate AMPA receptor trafficking.

Chowdhury S, Shepherd JD, Okuno H, Lyford G, Petralia RS, Plath N, Kuhl D, Huganir RL, Worley PF.

Neuron. 2006 Nov 9;52(3):445-59.

PMID:
17088211
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Arc/Arg3.1 is essential for the consolidation of synaptic plasticity and memories.

Plath N, Ohana O, Dammermann B, Errington ML, Schmitz D, Gross C, Mao X, Engelsberg A, Mahlke C, Welzl H, Kobalz U, Stawrakakis A, Fernandez E, Waltereit R, Bick-Sander A, Therstappen E, Cooke SF, Blanquet V, Wurst W, Salmen B, Bösl MR, Lipp HP, Grant SG, Bliss TV, Wolfer DP, Kuhl D.

Neuron. 2006 Nov 9;52(3):437-44.

PMID:
17088210
[PubMed - indexed for MEDLINE]
Free Article
18.

The role of enhancers as centres for general transcription factor recruitment.

Szutorisz H, Dillon N, Tora L.

Trends Biochem Sci. 2005 Nov;30(11):593-9. Epub 2005 Aug 29. Review.

PMID:
16126390
[PubMed - indexed for MEDLINE]
19.

Genomic mapping of RNA polymerase II reveals sites of co-transcriptional regulation in human cells.

Brodsky AS, Meyer CA, Swinburne IA, Hall G, Keenan BJ, Liu XS, Fox EA, Silver PA.

Genome Biol. 2005;6(8):R64. Epub 2005 Jul 15.

PMID:
16086846
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

A high-resolution map of active promoters in the human genome.

Kim TH, Barrera LO, Zheng M, Qu C, Singer MA, Richmond TA, Wu Y, Green RD, Ren B.

Nature. 2005 Aug 11;436(7052):876-80. Epub 2005 Jun 29.

PMID:
15988478
[PubMed - indexed for MEDLINE]
Free PMC Article

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