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Results: 1 to 20 of 94

1.

Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits.

Megraw M, Mukherjee S, Ohler U.

Genome Biol. 2013 Aug 23;14(8):R85. doi: 10.1186/gb-2013-14-8-r85.

PMID:
23972209
[PubMed - in process]
Free PMC Article
2.

Expression-based network biology identifies immune-related functional modules involved in plant defense.

Tully JP, Hill AE, Ahmed HM, Whitley R, Skjellum A, Mukhtar MS.

BMC Genomics. 2014 Jun 3;15:421. doi: 10.1186/1471-2164-15-421.

PMID:
24888606
[PubMed - in process]
Free PMC Article
3.

From gene expression to gene regulatory networks in Arabidopsis thaliana.

Needham CJ, Manfield IW, Bulpitt AJ, Gilmartin PM, Westhead DR.

BMC Syst Biol. 2009 Sep 3;3:85. doi: 10.1186/1752-0509-3-85.

PMID:
19728870
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Genome-wide survey of microRNA-transcription factor feed-forward regulatory circuits in human.

Re A, Corá D, Taverna D, Caselle M.

Mol Biosyst. 2009 Aug;5(8):854-67. doi: 10.1039/b900177h. Epub 2009 Jun 19.

PMID:
19603121
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Editorial: protein systems biology: method, regulation, and network.

Chen Q, Chen M.

Curr Protein Pept Sci. 2014;15(6):519-21.

PMID:
25135673
[PubMed - in process]
6.

A transcriptional dynamic network during Arabidopsis thaliana pollen development.

Wang J, Qiu X, Li Y, Deng Y, Shi T.

BMC Syst Biol. 2011 Dec 23;5 Suppl 3:S8. doi: 10.1186/1752-0509-5-S3-S8. Epub 2011 Dec 23.

PMID:
22784627
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Maximizing capture of gene co-expression relationships through pre-clustering of input expression samples: an Arabidopsis case study.

Feltus FA, Ficklin SP, Gibson SM, Smith MC.

BMC Syst Biol. 2013 Jun 5;7:44. doi: 10.1186/1752-0509-7-44.

PMID:
23738693
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Large cliques in Arabidopsis gene coexpression network and motif discovery.

Zheng X, Liu T, Yang Z, Wang J.

J Plant Physiol. 2011 Apr 15;168(6):611-8. doi: 10.1016/j.jplph.2010.09.010. Epub 2010 Nov 1.

PMID:
21044807
[PubMed - indexed for MEDLINE]
9.

Predictive regulatory models in Drosophila melanogaster by integrative inference of transcriptional networks.

Marbach D, Roy S, Ay F, Meyer PE, Candeias R, Kahveci T, Bristow CA, Kellis M.

Genome Res. 2012 Jul;22(7):1334-49. doi: 10.1101/gr.127191.111. Epub 2012 Mar 28.

PMID:
22456606
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

AGRIS: Arabidopsis gene regulatory information server, an information resource of Arabidopsis cis-regulatory elements and transcription factors.

Davuluri RV, Sun H, Palaniswamy SK, Matthews N, Molina C, Kurtz M, Grotewold E.

BMC Bioinformatics. 2003 Jun 23;4:25. Epub 2003 Jun 23.

PMID:
12820902
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

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, Corá D.

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

PMID:
20731828
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

The architecture of the gene regulatory networks of different tissues.

Li J, Hua X, Haubrock M, Wang J, Wingender E.

Bioinformatics. 2012 Sep 15;28(18):i509-i514. doi: 10.1093/bioinformatics/bts387.

PMID:
22962474
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Interplay between network structures, regulatory modes and sensing mechanisms of transcription factors in the transcriptional regulatory network of E. coli.

Balaji S, Babu MM, Aravind L.

J Mol Biol. 2007 Sep 28;372(4):1108-22. Epub 2007 Jul 3.

PMID:
17706247
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Global and local architecture of the mammalian microRNA-transcription factor regulatory network.

Shalgi R, Lieber D, Oren M, Pilpel Y.

PLoS Comput Biol. 2007 Jul;3(7):e131.

PMID:
17630826
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Identification of feedback loops in neural networks based on multi-step Granger causality.

Dong CY, Shin D, Joo S, Nam Y, Cho KH.

Bioinformatics. 2012 Aug 15;28(16):2146-53. doi: 10.1093/bioinformatics/bts354. Epub 2012 Jun 23.

PMID:
22730429
[PubMed - indexed for MEDLINE]
Free Article
16.

General trends in the evolution of prokaryotic transcriptional regulatory networks.

Madan Babu M, Balaji S, Aravind L.

Genome Dyn. 2007;3:66-80. doi: 10.1159/000107604. Review.

PMID:
18753785
[PubMed - indexed for MEDLINE]
Free Article
17.

Macromolecular crowding: chemistry and physics meet biology (Ascona, Switzerland, 10-14 June 2012).

Foffi G, Pastore A, Piazza F, Temussi PA.

Phys Biol. 2013 Aug 2;10(4):040301. [Epub ahead of print]

PMID:
23912807
[PubMed - as supplied by publisher]
18.
19.

Putative cold acclimation pathways in Arabidopsis thaliana identified by a combined analysis of mRNA co-expression patterns, promoter motifs and transcription factors.

Chawade A, Bräutigam M, Lindlöf A, Olsson O, Olsson B.

BMC Genomics. 2007 Sep 2;8:304.

PMID:
17764576
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Computational detection of microRNAs targeting transcription factor genes in Arabidopsis thaliana.

Li X, Zhang YZ.

Comput Biol Chem. 2005 Oct;29(5):360-7. Epub 2005 Oct 10.

PMID:
16221572
[PubMed - indexed for MEDLINE]

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