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Results: 1 to 20 of 27

1.

Novel Human Embryonic Stem Cell Regulators Identified by Conserved and Distinct CpG Island Methylation State.

Pells S, Koutsouraki E, Morfopoulou S, Valencia-Cadavid S, Tomlinson SR, Kalathur R, Futschik ME, De Sousa PA.

PLoS One. 2015 Jul 7;10(7):e0131102. doi: 10.1371/journal.pone.0131102. eCollection 2015.

2.

StemChecker: a web-based tool to discover and explore stemness signatures in gene sets.

Pinto JP, Kalathur RK, Oliveira DV, Barata T, Machado RS, Machado S, Pacheco-Leyva I, Duarte I, Futschik ME.

Nucleic Acids Res. 2015 Jul 1;43(W1):W72-7. doi: 10.1093/nar/gkv529. Epub 2015 May 24.

3.

Systematic interaction network filtering identifies CRMP1 as a novel suppressor of huntingtin misfolding and neurotoxicity.

Stroedicke M, Bounab Y, Strempel N, Klockmeier K, Yigit S, Friedrich RP, Chaurasia G, Li S, Hesse F, Riechers SP, Russ J, Nicoletti C, Boeddrich A, Wiglenda T, Haenig C, Schnoegl S, Fournier D, Graham RK, Hayden MR, Sigrist S, Bates GP, Priller J, Andrade-Navarro MA, Futschik ME, Wanker EE.

Genome Res. 2015 May;25(5):701-13. doi: 10.1101/gr.182444.114.

PMID:
25908449
4.

Toward a systems-level understanding of gene regulatory, protein interaction, and metabolic networks in cyanobacteria.

Hernández-Prieto MA, Semeniuk TA, Futschik ME.

Front Genet. 2014 Jul 2;5:191. doi: 10.3389/fgene.2014.00191. eCollection 2014. Review.

5.

Targeting molecular networks for drug research.

Pinto JP, Machado RS, Xavier JM, Futschik ME.

Front Genet. 2014 Jun 4;5:160. doi: 10.3389/fgene.2014.00160. eCollection 2014. Review.

6.

StemCellNet: an interactive platform for network-oriented investigations in stem cell biology.

Pinto JP, Reddy Kalathur RK, Machado RS, Xavier JM, Bragança J, Futschik ME.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W154-60. doi: 10.1093/nar/gku455. Epub 2014 May 22.

7.

UniHI 7: an enhanced database for retrieval and interactive analysis of human molecular interaction networks.

Kalathur RK, Pinto JP, Hernández-Prieto MA, Machado RS, Almeida D, Chaurasia G, Futschik ME.

Nucleic Acids Res. 2014 Jan;42(Database issue):D408-14. doi: 10.1093/nar/gkt1100. Epub 2013 Nov 8.

8.

Dynamic circadian protein-protein interaction networks predict temporal organization of cellular functions.

Wallach T, Schellenberg K, Maier B, Kalathur RK, Porras P, Wanker EE, Futschik ME, Kramer A.

PLoS Genet. 2013 Mar;9(3):e1003398. doi: 10.1371/journal.pgen.1003398. Epub 2013 Mar 28.

9.

Iron deprivation in Synechocystis: inference of pathways, non-coding RNAs, and regulatory elements from comprehensive expression profiling.

Hernández-Prieto MA, Schön V, Georg J, Barreira L, Varela J, Hess WR, Futschik ME.

G3 (Bethesda). 2012 Dec;2(12):1475-95. doi: 10.1534/g3.112.003863. Epub 2012 Dec 1.

10.

CyanoEXpress: A web database for exploration and visualisation of the integrated transcriptome of cyanobacterium Synechocystis sp. PCC6803.

Hernandez-Prieto MA, Futschik ME.

Bioinformation. 2012;8(13):634-8. doi: 10.6026/97320630008634. Epub 2012 Jul 6.

11.

Huntington's disease and its therapeutic target genes: a global functional profile based on the HD Research Crossroads database.

Kalathur RK, Hernández-Prieto MA, Futschik ME.

BMC Neurol. 2012 Jun 28;12:47. doi: 10.1186/1471-2377-12-47.

12.

Comparison and consolidation of microarray data sets of human tissue expression.

Russ J, Futschik ME.

BMC Genomics. 2010 May 14;11:305. doi: 10.1186/1471-2164-11-305.

13.

Choreography of the transcriptome, photophysiology, and cell cycle of a minimal photoautotroph, prochlorococcus.

Zinser ER, Lindell D, Johnson ZI, Futschik ME, Steglich C, Coleman ML, Wright MA, Rector T, Steen R, McNulty N, Thompson LR, Chisholm SW.

PLoS One. 2009;4(4):e5135. doi: 10.1371/journal.pone.0005135. Epub 2009 Apr 8.

14.

Tight regulation of unstructured proteins: from transcript synthesis to protein degradation.

Gsponer J, Futschik ME, Teichmann SA, Babu MM.

Science. 2008 Nov 28;322(5906):1365-8. doi: 10.1126/science.1163581.

15.

UniHI 4: new tools for query, analysis and visualization of the human protein-protein interactome.

Chaurasia G, Malhotra S, Russ J, Schnoegl S, Hänig C, Wanker EE, Futschik ME.

Nucleic Acids Res. 2009 Jan;37(Database issue):D657-60. doi: 10.1093/nar/gkn841. Epub 2008 Nov 4.

16.

The challenge of regulation in a minimal photoautotroph: non-coding RNAs in Prochlorococcus.

Steglich C, Futschik ME, Lindell D, Voss B, Chisholm SW, Hess WR.

PLoS Genet. 2008 Aug 29;4(8):e1000173. doi: 10.1371/journal.pgen.1000173. Erratum in: PLoS Genet. 2008 Nov;4(11):. doi:10.1371/annotation/411b74ae-c4ce-43c9-bdd2-60c2bf60e672.

17.

Graph-theoretical comparison reveals structural divergence of human protein interaction networks.

Futschik ME, Tschaut A, Chaurasia G, Herzel H.

Genome Inform. 2007;18:141-51.

PMID:
18546482
18.

Are we overestimating the number of cell-cycling genes? The impact of background models on time-series analysis.

Futschik ME, Herzel H.

Bioinformatics. 2008 Apr 15;24(8):1063-9. doi: 10.1093/bioinformatics/btn072. Epub 2008 Feb 29.

19.

Genome-wide expression dynamics of a marine virus and host reveal features of co-evolution.

Lindell D, Jaffe JD, Coleman ML, Futschik ME, Axmann IM, Rector T, Kettler G, Sullivan MB, Steen R, Hess WR, Church GM, Chisholm SW.

Nature. 2007 Sep 6;449(7158):83-6.

PMID:
17805294
20.

Systematic functional assessment of human protein-protein interaction maps.

Chaurasia G, Herzel H, Wanker EE, Futschik ME.

Genome Inform. 2006;17(1):36-45.

PMID:
17503354
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