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Items: 1 to 20 of 95

1.

MAGIA²: from miRNA and genes expression data integrative analysis to microRNA-transcription factor mixed regulatory circuits (2012 update).

Bisognin A, Sales G, Coppe A, Bortoluzzi S, Romualdi C.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W13-21. doi: 10.1093/nar/gks460.

2.

MAGIA, a web-based tool for miRNA and Genes Integrated Analysis.

Sales G, Coppe A, Bisognin A, Biasiolo M, Bortoluzzi S, Romualdi C.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W352-9. doi: 10.1093/nar/gkq423.

3.

CircuitsDB: a database of mixed microRNA/transcription factor feed-forward regulatory circuits in human and mouse.

Friard O, Re A, Taverna D, De Bortoli M, Cor√° D.

BMC Bioinformatics. 2010 Aug 23;11:435. doi: 10.1186/1471-2105-11-435.

4.

Inter- and intra-combinatorial regulation by transcription factors and microRNAs.

Zhou Y, Ferguson J, Chang JT, Kluger Y.

BMC Genomics. 2007 Oct 30;8:396.

5.

Inferring microRNA and transcription factor regulatory networks in heterogeneous data.

Le TD, Liu L, Liu B, Tsykin A, Goodall GJ, Satou K, Li J.

BMC Bioinformatics. 2013 Mar 11;14:92. doi: 10.1186/1471-2105-14-92.

6.

The microRNA body map: dissecting microRNA function through integrative genomics.

Mestdagh P, Lefever S, Pattyn F, Ridzon D, Fredlund E, Fieuw A, Ongenaert M, Vermeulen J, De Paepe A, Wong L, Speleman F, Chen C, Vandesompele J.

Nucleic Acids Res. 2011 Nov 1;39(20):e136. doi: 10.1093/nar/gkr646.

7.

MicroRNA networks alter to conform to transcription factor networks adding redundancy and reducing the repertoire of target genes for coordinated regulation.

Iwama H, Murao K, Imachi H, Ishida T.

Mol Biol Evol. 2011 Jan;28(1):639-46. doi: 10.1093/molbev/msq231.

PMID:
20805189
8.

Integrative analysis of gene and miRNA expression profiles with transcription factor-miRNA feed-forward loops identifies regulators in human cancers.

Yan Z, Shah PK, Amin SB, Samur MK, Huang N, Wang X, Misra V, Ji H, Gabuzda D, Li C.

Nucleic Acids Res. 2012 Sep 1;40(17):e135.

9.

Participation of microRNAs in human interactome: extraction of microRNA-microRNA regulations.

Sengupta D, Bandyopadhyay S.

Mol Biosyst. 2011 Jun;7(6):1966-73. doi: 10.1039/c0mb00347f.

PMID:
21483898
10.

TransmiR: a transcription factor-microRNA regulation database.

Wang J, Lu M, Qiu C, Cui Q.

Nucleic Acids Res. 2010 Jan;38(Database issue):D119-22. doi: 10.1093/nar/gkp803.

11.

Coordinated networks of microRNAs and transcription factors with evolutionary perspectives.

Iwama H.

Adv Exp Med Biol. 2013;774:169-87. doi: 10.1007/978-94-007-5590-1_10. Review.

PMID:
23377974
12.
13.

Disentangling the microRNA regulatory milieu in multiple myeloma: integrative genomics analysis outlines mixed miRNA-TF circuits and pathway-derived networks modulated in t(4;14) patients.

Calura E, Bisognin A, Manzoni M, Todoerti K, Taiana E, Sales G, Morgan GJ, Tonon G, Amodio N, Tassone P, Neri A, Agnelli L, Romualdi C, Bortoluzzi S.

Oncotarget. 2016 Jan 19;7(3):2367-78. doi: 10.18632/oncotarget.6151.

14.

Combinatorial network of primary and secondary microRNA-driven regulatory mechanisms.

Tu K, Yu H, Hua YJ, Li YY, Liu L, Xie L, Li YX.

Nucleic Acids Res. 2009 Oct;37(18):5969-80. doi: 10.1093/nar/gkp638.

15.

An in silico analysis of dynamic changes in microRNA expression profiles in stepwise development of nasopharyngeal carcinoma.

Luo Z, Zhang L, Li Z, Li X, Li G, Yu H, Jiang C, Dai Y, Guo X, Xiang J, Li G.

BMC Med Genomics. 2012 Jan 19;5:3. doi: 10.1186/1755-8794-5-3.

16.

mirConnX: condition-specific mRNA-microRNA network integrator.

Huang GT, Athanassiou C, Benos PV.

Nucleic Acids Res. 2011 Jul;39(Web Server issue):W416-23. doi: 10.1093/nar/gkr276.

17.

Bioinformatics method to predict two regulation mechanism: TF-miRNA-mRNA and lncRNA-miRNA-mRNA in pancreatic cancer.

Ye S, Yang L, Zhao X, Song W, Wang W, Zheng S.

Cell Biochem Biophys. 2014 Dec;70(3):1849-58. doi: 10.1007/s12013-014-0142-y.

PMID:
25087086
18.

Regulatory coordination of clustered microRNAs based on microRNA-transcription factor regulatory network.

Wang J, Haubrock M, Cao KM, Hua X, Zhang CY, Wingender E, Li J.

BMC Syst Biol. 2011 Dec 16;5:199. doi: 10.1186/1752-0509-5-199.

19.

DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows.

Paraskevopoulou MD, Georgakilas G, Kostoulas N, Vlachos IS, Vergoulis T, Reczko M, Filippidis C, Dalamagas T, Hatzigeorgiou AG.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W169-73. doi: 10.1093/nar/gkt393.

20.

Infinity: An In-Silico Tool for Genome-Wide Prediction of Specific DNA Matrices in miRNA Genomic Loci.

Falcone E, Grandoni L, Garibaldi F, Manni I, Filligoi G, Piaggio G, Gurtner A.

PLoS One. 2016 Apr 15;11(4):e0153658. doi: 10.1371/journal.pone.0153658.

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