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Items: 32

1.

Molecular Interaction Search Tool (MIST): an integrated resource for mining gene and protein interaction data.

Hu Y, Vinayagam A, Nand A, Comjean A, Chung V, Hao T, Mohr SE, Perrimon N.

Nucleic Acids Res. 2018 Jan 4;46(D1):D567-D574. doi: 10.1093/nar/gkx1116.

2.

Proteomic and Metabolomic Characterization of a Mammalian Cellular Transition from Quiescence to Proliferation.

Lee HJ, Jedrychowski MP, Vinayagam A, Wu N, Shyh-Chang N, Hu Y, Min-Wen C, Moore JK, Asara JM, Lyssiotis CA, Perrimon N, Gygi SP, Cantley LC, Kirschner MW.

Cell Rep. 2017 Jul 18;20(3):721-736. doi: 10.1016/j.celrep.2017.06.074.

3.

Bioinformatics Analysis of PTM-Modified Protein Interaction Networks and Complexes.

Woodsmith J, Stelzl U, Vinayagam A.

Methods Mol Biol. 2017;1558:321-332. doi: 10.1007/978-1-4939-6783-4_15.

PMID:
28150245
4.

FlyRNAi.org-the database of the Drosophila RNAi screening center and transgenic RNAi project: 2017 update.

Hu Y, Comjean A, Roesel C, Vinayagam A, Flockhart I, Zirin J, Perkins L, Perrimon N, Mohr SE.

Nucleic Acids Res. 2017 Jan 4;45(D1):D672-D678. doi: 10.1093/nar/gkw977. Epub 2016 Oct 23.

5.

An Integrative Analysis of the InR/PI3K/Akt Network Identifies the Dynamic Response to Insulin Signaling.

Vinayagam A, Kulkarni MM, Sopko R, Sun X, Hu Y, Nand A, Villalta C, Moghimi A, Yang X, Mohr SE, Hong P, Asara JM, Perrimon N.

Cell Rep. 2016 Sep 13;16(11):3062-3074. doi: 10.1016/j.celrep.2016.08.029.

6.

Controllability analysis of the directed human protein interaction network identifies disease genes and drug targets.

Vinayagam A, Gibson TE, Lee HJ, Yilmazel B, Roesel C, Hu Y, Kwon Y, Sharma A, Liu YY, Perrimon N, Barabási AL.

Proc Natl Acad Sci U S A. 2016 May 3;113(18):4976-81. doi: 10.1073/pnas.1603992113. Epub 2016 Apr 18.

7.

Separation and Identification of Phenolic Acid and Flavonoids from Nerium indicum Flowers.

Vinayagam A, Sudha PN.

Indian J Pharm Sci. 2015 Jan-Feb;77(1):91-5.

8.

Combining genetic perturbations and proteomics to examine kinase-phosphatase networks in Drosophila embryos.

Sopko R, Foos M, Vinayagam A, Zhai B, Binari R, Hu Y, Randklev S, Perkins LA, Gygi SP, Perrimon N.

Dev Cell. 2014 Oct 13;31(1):114-27. doi: 10.1016/j.devcel.2014.07.027. Epub 2014 Oct 2.

9.

A rapid genome-wide microRNA screen identifies miR-14 as a modulator of Hedgehog signaling.

Kim K, Vinayagam A, Perrimon N.

Cell Rep. 2014 Jun 26;7(6):2066-77. doi: 10.1016/j.celrep.2014.05.025. Epub 2014 Jun 12.

10.

A regulatory network of Drosophila germline stem cell self-renewal.

Yan D, Neumüller RA, Buckner M, Ayers K, Li H, Hu Y, Yang-Zhou D, Pan L, Wang X, Kelley C, Vinayagam A, Binari R, Randklev S, Perkins LA, Xie T, Cooley L, Perrimon N.

Dev Cell. 2014 Feb 24;28(4):459-73. doi: 10.1016/j.devcel.2014.01.020.

11.

Integrating protein-protein interaction networks with phenotypes reveals signs of interactions.

Vinayagam A, Zirin J, Roesel C, Hu Y, Yilmazel B, Samsonova AA, Neumüller RA, Mohr SE, Perrimon N.

Nat Methods. 2014 Jan;11(1):94-9. doi: 10.1038/nmeth.2733. Epub 2013 Nov 17.

12.

The Hippo signaling pathway interactome.

Kwon Y, Vinayagam A, Sun X, Dephoure N, Gygi SP, Hong P, Perrimon N.

Science. 2013 Nov 8;342(6159):737-40. doi: 10.1126/science.1243971. Epub 2013 Oct 10.

13.

Conserved regulators of nucleolar size revealed by global phenotypic analyses.

Neumüller RA, Gross T, Samsonova AA, Vinayagam A, Buckner M, Founk K, Hu Y, Sharifpoor S, Rosebrock AP, Andrews B, Winston F, Perrimon N.

Sci Signal. 2013 Aug 20;6(289):ra70. doi: 10.1126/scisignal.2004145.

14.

Genetic determinants of phosphate response in Drosophila.

Bergwitz C, Wee MJ, Sinha S, Huang J, DeRobertis C, Mensah LB, Cohen J, Friedman A, Kulkarni M, Hu Y, Vinayagam A, Schnall-Levin M, Berger B, Perkins LA, Mohr SE, Perrimon N.

PLoS One. 2013;8(3):e56753. doi: 10.1371/journal.pone.0056753. Epub 2013 Mar 8.

15.

Protein complex-based analysis framework for high-throughput data sets.

Vinayagam A, Hu Y, Kulkarni M, Roesel C, Sopko R, Mohr SE, Perrimon N.

Sci Signal. 2013 Feb 26;6(264):rs5. doi: 10.1126/scisignal.2003629.

16.

A computational framework for boosting confidence in high-throughput protein-protein interaction datasets.

Hosur R, Peng J, Vinayagam A, Stelzl U, Xu J, Perrimon N, Bienkowska J, Berger B.

Genome Biol. 2012 Aug 31;13(8):R76. doi: 10.1186/gb-2012-13-8-r76.

17.

Identification of human proteins that modify misfolding and proteotoxicity of pathogenic ataxin-1.

Petrakis S, Raskó T, Russ J, Friedrich RP, Stroedicke M, Riechers SP, Muehlenberg K, Möller A, Reinhardt A, Vinayagam A, Schaefer MH, Boutros M, Tricoire H, Andrade-Navarro MA, Wanker EE.

PLoS Genet. 2012;8(8):e1002897. doi: 10.1371/journal.pgen.1002897. Epub 2012 Aug 16.

18.

Detection of Mycobacterium tuberculosis directly from sputum specimens & phenotypic drug resistance pattern of M. tuberculosis isolates from suspected tuberculosis patients in Chennai.

Therese KL, Gayathri R, Dhanurekha L, Sridhar R, Meenakshi N, Madhavan HN, Manoj SE, Vinayagam AK.

Indian J Med Res. 2012 May;135(5):778-82.

19.

HIPPIE: Integrating protein interaction networks with experiment based quality scores.

Schaefer MH, Fontaine JF, Vinayagam A, Porras P, Wanker EE, Andrade-Navarro MA.

PLoS One. 2012;7(2):e31826. doi: 10.1371/journal.pone.0031826. Epub 2012 Feb 14.

20.

Proteomic and functional genomic landscape of receptor tyrosine kinase and ras to extracellular signal-regulated kinase signaling.

Friedman AA, Tucker G, Singh R, Yan D, Vinayagam A, Hu Y, Binari R, Hong P, Sun X, Porto M, Pacifico S, Murali T, Finley RL Jr, Asara JM, Berger B, Perrimon N.

Sci Signal. 2011 Oct 25;4(196):rs10. doi: 10.1126/scisignal.2002029.

21.

A directed protein interaction network for investigating intracellular signal transduction.

Vinayagam A, Stelzl U, Foulle R, Plassmann S, Zenkner M, Timm J, Assmus HE, Andrade-Navarro MA, Wanker EE.

Sci Signal. 2011 Sep 6;4(189):rs8. doi: 10.1126/scisignal.2001699.

22.

An integrative approach to ortholog prediction for disease-focused and other functional studies.

Hu Y, Flockhart I, Vinayagam A, Bergwitz C, Berger B, Perrimon N, Mohr SE.

BMC Bioinformatics. 2011 Aug 31;12:357. doi: 10.1186/1471-2105-12-357.

23.

An empirical framework for binary interactome mapping.

Venkatesan K, Rual JF, Vazquez A, Stelzl U, Lemmens I, Hirozane-Kishikawa T, Hao T, Zenkner M, Xin X, Goh KI, Yildirim MA, Simonis N, Heinzmann K, Gebreab F, Sahalie JM, Cevik S, Simon C, de Smet AS, Dann E, Smolyar A, Vinayagam A, Yu H, Szeto D, Borick H, Dricot A, Klitgord N, Murray RR, Lin C, Lalowski M, Timm J, Rau K, Boone C, Braun P, Cusick ME, Roth FP, Hill DE, Tavernier J, Wanker EE, Barabási AL, Vidal M.

Nat Methods. 2009 Jan;6(1):83-90. doi: 10.1038/nmeth.1280. Epub 2008 Dec 7.

24.

Genomic analysis of Xenopus organizer function.

Hufton AL, Vinayagam A, Suhai S, Baker JC.

BMC Dev Biol. 2006 Jun 6;6:27.

25.

GOPET: a tool for automated predictions of Gene Ontology terms.

Vinayagam A, del Val C, Schubert F, Eils R, Glatting KH, Suhai S, König R.

BMC Bioinformatics. 2006 Mar 20;7:161.

26.

Global gene expression profiling and cluster analysis in Xenopus laevis.

Baldessari D, Shin Y, Krebs O, König R, Koide T, Vinayagam A, Fenger U, Mochii M, Terasaka C, Kitayama A, Peiffer D, Ueno N, Eils R, Cho KW, Niehrs C.

Mech Dev. 2005 Mar;122(3):441-75.

27.

Native and modeled disulfide bonds in proteins: knowledge-based approaches toward structure prediction of disulfide-rich polypeptides.

Thangudu RR, Vinayagam A, Pugalenthi G, Manonmani A, Offmann B, Sowdhamini R.

Proteins. 2005 Mar 1;58(4):866-79.

PMID:
15645448
28.

Applying Support Vector Machines for Gene Ontology based gene function prediction.

Vinayagam A, König R, Moormann J, Schubert F, Eils R, Glatting KH, Suhai S.

BMC Bioinformatics. 2004 Aug 26;5:116.

29.

DSDBASE: a consortium of native and modelled disulphide bonds in proteins.

Vinayagam A, Pugalenthi G, Rajesh R, Sowdhamini R.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D200-2.

30.

DDBASE2.0: updated domain database with improved identification of structural domains.

Vinayagam A, Shi J, Pugalenthi G, Meenakshi B, Blundell TL, Sowdhamini R.

Bioinformatics. 2003 Sep 22;19(14):1760-4.

PMID:
14512346
31.

Electrophoretic pattern of blood and cuticular phenoloxidase of different crustaceans.

Nellaiappan K, Vinayagam A, Kalyani R.

Exp Biol. 1989;48(3):177-9.

PMID:
2498120
32.

A rapid method for detection of tyrosinase activity in electrophoresis.

Nellaiappan K, Vinayagam A.

Stain Technol. 1986 Sep;61(5):269-72.

PMID:
3097880

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