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Items: 1 to 20 of 109

1.

SignaLink 2 - a signaling pathway resource with multi-layered regulatory networks.

Fazekas D, Koltai M, Türei D, Módos D, Pálfy M, Dúl Z, Zsákai L, Szalay-Bekő M, Lenti K, Farkas IJ, Vellai T, Csermely P, Korcsmáros T.

BMC Syst Biol. 2013 Jan 18;7:7. doi: 10.1186/1752-0509-7-7.

2.

Autophagy Regulatory Network - a systems-level bioinformatics resource for studying the mechanism and regulation of autophagy.

Türei D, Földvári-Nagy L, Fazekas D, Módos D, Kubisch J, Kadlecsik T, Demeter A, Lenti K, Csermely P, Vellai T, Korcsmáros T.

Autophagy. 2015;11(1):155-65. doi: 10.4161/15548627.2014.994346.

3.

SignaFish: A Zebrafish-Specific Signaling Pathway Resource.

Csályi K, Fazekas D, Kadlecsik T, Türei D, Gul L, Horváth B, Módos D, Demeter A, Pápai N, Lenti K, Csermely P, Vellai T, Korcsmáros T, Varga M.

Zebrafish. 2016 Dec;13(6):541-544. Epub 2016 Apr 20.

PMID:
27097230
4.

Uniformly curated signaling pathways reveal tissue-specific cross-talks and support drug target discovery.

Korcsmáros T, Farkas IJ, Szalay MS, Rovó P, Fazekas D, Spiró Z, Böde C, Lenti K, Vellai T, Csermely P.

Bioinformatics. 2010 Aug 15;26(16):2042-50. doi: 10.1093/bioinformatics/btq310. Epub 2010 Jun 11.

PMID:
20542890
5.

Uniform curation protocol of metazoan signaling pathways to predict novel signaling components.

Pálfy M, Farkas IJ, Vellai T, Korcsmáros T.

Methods Mol Biol. 2013;1021:285-97. doi: 10.1007/978-1-62703-450-0_15.

PMID:
23715991
6.

NRF2-ome: an integrated web resource to discover protein interaction and regulatory networks of NRF2.

Türei D, Papp D, Fazekas D, Földvári-Nagy L, Módos D, Lenti K, Csermely P, Korcsmáros T.

Oxid Med Cell Longev. 2013;2013:737591. doi: 10.1155/2013/737591. Epub 2013 Apr 17.

7.

Biological Network Inference and analysis using SEBINI and CABIN.

Taylor R, Singhal M.

Methods Mol Biol. 2009;541:551-76. doi: 10.1007/978-1-59745-243-4_24. Review.

PMID:
19381531
8.

HRGRN: A Graph Search-Empowered Integrative Database of Arabidopsis Signaling Transduction, Metabolism and Gene Regulation Networks.

Dai X, Li J, Liu T, Zhao PX.

Plant Cell Physiol. 2016 Jan;57(1):e12. doi: 10.1093/pcp/pcv200. Epub 2015 Dec 12.

9.

ReNE: a cytoscape plugin for regulatory network enhancement.

Politano G, Benso A, Savino A, Di Carlo S.

PLoS One. 2014 Dec 26;9(12):e115585. doi: 10.1371/journal.pone.0115585. eCollection 2014.

10.

Signalogs: orthology-based identification of novel signaling pathway components in three metazoans.

Korcsmáros T, Szalay MS, Rovó P, Palotai R, Fazekas D, Lenti K, Farkas IJ, Csermely P, Vellai T.

PLoS One. 2011 May 3;6(5):e19240. doi: 10.1371/journal.pone.0019240.

11.

BiNoM 2.0, a Cytoscape plugin for accessing and analyzing pathways using standard systems biology formats.

Bonnet E, Calzone L, Rovera D, Stoll G, Barillot E, Zinovyev A.

BMC Syst Biol. 2013 Mar 1;7:18. doi: 10.1186/1752-0509-7-18.

12.

IPAD: the Integrated Pathway Analysis Database for Systematic Enrichment Analysis.

Zhang F, Drabier R.

BMC Bioinformatics. 2012;13 Suppl 15:S7. doi: 10.1186/1471-2105-13-S15-S7. Epub 2012 Sep 11.

13.

SignaLink: Multilayered Regulatory Networks.

Csabai L, Ölbei M, Budd A, Korcsmáros T, Fazekas D.

Methods Mol Biol. 2018;1819:53-73. doi: 10.1007/978-1-4939-8618-7_3.

PMID:
30421399
14.

RegNetwork: an integrated database of transcriptional and post-transcriptional regulatory networks in human and mouse.

Liu ZP, Wu C, Miao H, Wu H.

Database (Oxford). 2015 Sep 30;2015. pii: bav095. doi: 10.1093/database/bav095. Print 2015.

15.

miRegulome: a knowledge-base of miRNA regulomics and analysis.

Barh D, Kamapantula B, Jain N, Nalluri J, Bhattacharya A, Juneja L, Barve N, Tiwari S, Miyoshi A, Azevedo V, Blum K, Kumar A, Silva A, Ghosh P.

Sci Rep. 2015 Aug 5;5:12832. doi: 10.1038/srep12832.

16.

HPD: an online integrated human pathway database enabling systems biology studies.

Chowbina SR, Wu X, Zhang F, Li PM, Pandey R, Kasamsetty HN, Chen JY.

BMC Bioinformatics. 2009 Oct 8;10 Suppl 11:S5. doi: 10.1186/1471-2105-10-S11-S5.

17.

MIR@NT@N: a framework integrating transcription factors, microRNAs and their targets to identify sub-network motifs in a meta-regulation network model.

Le Béchec A, Portales-Casamar E, Vetter G, Moes M, Zindy PJ, Saumet A, Arenillas D, Theillet C, Wasserman WW, Lecellier CH, Friederich E.

BMC Bioinformatics. 2011 Mar 4;12:67. doi: 10.1186/1471-2105-12-67.

18.

Regulators of Androgen Action Resource: a one-stop shop for the comprehensive study of androgen receptor action.

DePriest AD, Fiandalo MV, Schlanger S, Heemers F, Mohler JL, Liu S, Heemers HV.

Database (Oxford). 2016 Feb 13;2016. pii: bav125. doi: 10.1093/database/bav125. Print 2016.

19.

cPath: open source software for collecting, storing, and querying biological pathways.

Cerami EG, Bader GD, Gross BE, Sander C.

BMC Bioinformatics. 2006 Nov 13;7:497.

20.

BioPP: a tool for web-publication of biological networks.

Viswanathan GA, Nudelman G, Patil S, Sealfon SC.

BMC Bioinformatics. 2007 May 22;8:168.

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