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Items: 1 to 20 of 98

1.

Computational analysis of target hub gene repression regulated by multiple and cooperative miRNAs.

Lai X, Schmitz U, Gupta SK, Bhattacharya A, Kunz M, Wolkenhauer O, Vera J.

Nucleic Acids Res. 2012 Oct;40(18):8818-34. doi: 10.1093/nar/gks657.

2.

Identification and properties of 1,119 candidate lincRNA loci in the Drosophila melanogaster genome.

Young RS, Marques AC, Tibbit C, Haerty W, Bassett AR, Liu JL, Ponting CP.

Genome Biol Evol. 2012;4(4):427-42. doi: 10.1093/gbe/evs020.

3.

Modular regulatory principles of large non-coding RNAs.

Guttman M, Rinn JL.

Nature. 2012 Feb 15;482(7385):339-46. doi: 10.1038/nature10887. Review.

4.

Long non-coding RNAs and cancer: a new frontier of translational research?

Spizzo R, Almeida MI, Colombatti A, Calin GA.

Oncogene. 2012 Oct 25;31(43):4577-87. doi: 10.1038/onc.2011.621. Review.

5.

The emergence of lncRNAs in cancer biology.

Prensner JR, Chinnaiyan AM.

Cancer Discov. 2011 Oct;1(5):391-407. doi: 10.1158/2159-8290.CD-11-0209. Review.

6.

Ensembl 2012.

Flicek P, Amode MR, Barrell D, Beal K, Brent S, Carvalho-Silva D, Clapham P, Coates G, Fairley S, Fitzgerald S, Gil L, Gordon L, Hendrix M, Hourlier T, Johnson N, Kähäri AK, Keefe D, Keenan S, Kinsella R, Komorowska M, Koscielny G, Kulesha E, Larsson P, Longden I, McLaren W, Muffato M, Overduin B, Pignatelli M, Pritchard B, Riat HS, Ritchie GR, Ruffier M, Schuster M, Sobral D, Tang YA, Taylor K, Trevanion S, Vandrovcova J, White S, Wilson M, Wilder SP, Aken BL, Birney E, Cunningham F, Dunham I, Durbin R, Fernández-Suarez XM, Harrow J, Herrero J, Hubbard TJ, Parker A, Proctor G, Spudich G, Vogel J, Yates A, Zadissa A, Searle SM.

Nucleic Acids Res. 2012 Jan;40(Database issue):D84-90. doi: 10.1093/nar/gkr991.

7.

The UCSC Genome Browser database: extensions and updates 2011.

Dreszer TR, Karolchik D, Zweig AS, Hinrichs AS, Raney BJ, Kuhn RM, Meyer LR, Wong M, Sloan CA, Rosenbloom KR, Roe G, Rhead B, Pohl A, Malladi VS, Li CH, Learned K, Kirkup V, Hsu F, Harte RA, Guruvadoo L, Goldman M, Giardine BM, Fujita PA, Diekhans M, Cline MS, Clawson H, Barber GP, Haussler D, James Kent W.

Nucleic Acids Res. 2012 Jan;40(Database issue):D918-23. doi: 10.1093/nar/gkr1055.

8.

Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses.

Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL.

Genes Dev. 2011 Sep 15;25(18):1915-27. doi: 10.1101/gad.17446611.

9.

lincRNAs act in the circuitry controlling pluripotency and differentiation.

Guttman M, Donaghey J, Carey BW, Garber M, Grenier JK, Munson G, Young G, Lucas AB, Ach R, Bruhn L, Yang X, Amit I, Meissner A, Regev A, Rinn JL, Root DE, Lander ES.

Nature. 2011 Aug 28;477(7364):295-300. doi: 10.1038/nature10398.

10.

A transcriptomic atlas of mouse neocortical layers.

Belgard TG, Marques AC, Oliver PL, Abaan HO, Sirey TM, Hoerder-Suabedissen A, García-Moreno F, Molnár Z, Margulies EH, Ponting CP.

Neuron. 2011 Aug 25;71(4):605-16. doi: 10.1016/j.neuron.2011.06.039.

11.

Cistrome: an integrative platform for transcriptional regulation studies.

Liu T, Ortiz JA, Taing L, Meyer CA, Lee B, Zhang Y, Shin H, Wong SS, Ma J, Lei Y, Pape UJ, Poidinger M, Chen Y, Yeung K, Brown M, Turpaz Y, Liu XS.

Genome Biol. 2011 Aug 22;12(8):R83. doi: 10.1186/gb-2011-12-8-r83.

12.

Chromatin and transcriptional signatures for Nodal signaling during endoderm formation in hESCs.

Kim SW, Yoon SJ, Chuong E, Oyolu C, Wills AE, Gupta R, Baker J.

Dev Biol. 2011 Sep 15;357(2):492-504. doi: 10.1016/j.ydbio.2011.06.009.

13.

Genome-wide profiling of H3K56 acetylation and transcription factor binding sites in human adipocytes.

Lo KA, Bauchmann MK, Baumann AP, Donahue CJ, Thiede MA, Hayes LS, des Etages SA, Fraenkel E.

PLoS One. 2011;6(6):e19778. doi: 10.1371/journal.pone.0019778.

14.

Coassembly of REST and its cofactors at sites of gene repression in embryonic stem cells.

Yu HB, Johnson R, Kunarso G, Stanton LW.

Genome Res. 2011 Aug;21(8):1284-93. doi: 10.1101/gr.114488.110.

15.

Genome-wide CTCF distribution in vertebrates defines equivalent sites that aid the identification of disease-associated genes.

Martin D, Pantoja C, Fernández Miñán A, Valdes-Quezada C, Moltó E, Matesanz F, Bogdanović O, de la Calle-Mustienes E, Domínguez O, Taher L, Furlan-Magaril M, Alcina A, Cañón S, Fedetz M, Blasco MA, Pereira PS, Ovcharenko I, Recillas-Targa F, Montoliu L, Manzanares M, Guigó R, Serrano M, Casares F, Gómez-Skarmeta JL.

Nat Struct Mol Biol. 2011 Jun;18(6):708-14. doi: 10.1038/nsmb.2059. Erratum in: Nat Struct Mol Biol. 2011 Sep;18(9):1084.

16.

RAD21 cooperates with pluripotency transcription factors in the maintenance of embryonic stem cell identity.

Nitzsche A, Paszkowski-Rogacz M, Matarese F, Janssen-Megens EM, Hubner NC, Schulz H, de Vries I, Ding L, Huebner N, Mann M, Stunnenberg HG, Buchholz F.

PLoS One. 2011 May 12;6(5):e19470. doi: 10.1371/journal.pone.0019470.

17.

Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA.

Wang D, Garcia-Bassets I, Benner C, Li W, Su X, Zhou Y, Qiu J, Liu W, Kaikkonen MU, Ohgi KA, Glass CK, Rosenfeld MG, Fu XD.

Nature. 2011 May 15;474(7351):390-4. doi: 10.1038/nature10006.

18.

GATA4 regulates estrogen receptor-alpha-mediated osteoblast transcription.

Miranda-Carboni GA, Guemes M, Bailey S, Anaya E, Corselli M, Peault B, Krum SA.

Mol Endocrinol. 2011 Jul;25(7):1126-36. doi: 10.1210/me.2010-0463.

19.

The BTB and CNC homology 1 (BACH1) target genes are involved in the oxidative stress response and in control of the cell cycle.

Warnatz HJ, Schmidt D, Manke T, Piccini I, Sultan M, Borodina T, Balzereit D, Wruck W, Soldatov A, Vingron M, Lehrach H, Yaspo ML.

J Biol Chem. 2011 Jul 1;286(26):23521-32. doi: 10.1074/jbc.M111.220178.

20.

A user's guide to the encyclopedia of DNA elements (ENCODE).

ENCODE Project Consortium..

PLoS Biol. 2011 Apr;9(4):e1001046. doi: 10.1371/journal.pbio.1001046.

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