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Results: 1 to 20 of 22

1.

Functional analysis of multiple genomic signatures demonstrates that classification algorithms choose phenotype-related genes.

Shi W, Bessarabova M, Dosymbekov D, Dezso Z, Nikolskaya T, Dudoladova M, Serebryiskaya T, Bugrim A, Guryanov A, Brennan RJ, Shah R, Dopazo J, Chen M, Deng Y, Shi T, Jurman G, Furlanello C, Thomas RS, Corton JC, Tong W, Shi L, Nikolsky Y.

Pharmacogenomics J. 2010 Aug;10(4):310-23. doi: 10.1038/tpj.2010.35.

2.

"Topological significance" analysis of gene expression and proteomic profiles from prostate cancer cells reveals key mechanisms of androgen response.

Vellaichamy A, Dezso Z, JeBailey L, Chinnaiyan AM, Sreekumar A, Nesvizhskii AI, Omenn GS, Bugrim A.

PLoS One. 2010 Jun 3;5(6):e10936. doi: 10.1371/journal.pone.0010936.

3.

Bimodal gene expression patterns in breast cancer.

Bessarabova M, Kirillov E, Shi W, Bugrim A, Nikolsky Y, Nikolskaya T.

BMC Genomics. 2010 Feb 10;11 Suppl 1:S8. doi: 10.1186/1471-2164-11-S1-S8.

4.

Identifying disease-specific genes based on their topological significance in protein networks.

Dezso Z, Nikolsky Y, Nikolskaya T, Miller J, Cherba D, Webb C, Bugrim A.

BMC Syst Biol. 2009 Mar 23;3:36. doi: 10.1186/1752-0509-3-36.

5.

A comprehensive functional analysis of tissue specificity of human gene expression.

Dezso Z, Nikolsky Y, Sviridov E, Shi W, Serebriyskaya T, Dosymbekov D, Bugrim A, Rakhmatulin E, Brennan RJ, Guryanov A, Li K, Blake J, Samaha RR, Nikolskaya T.

BMC Biol. 2008 Nov 12;6:49. doi: 10.1186/1741-7007-6-49.

6.

Characteristics of genomic signatures derived using univariate methods and mechanistically anchored functional descriptors for predicting drug- and xenobiotic-induced nephrotoxicity.

Shi W, Bugrim A, Nikolsky Y, Nikolskya T, Brennan RJ.

Toxicol Mech Methods. 2008;18(2-3):267-76. doi: 10.1080/15376510701857072.

PMID:
20020920
7.

Signature pathways identified from gene expression profiles in the human uterine cervix before and after spontaneous term parturition.

Hassan SS, Romero R, Tarca AL, Draghici S, Pineles B, Bugrim A, Khalek N, Camacho N, Mittal P, Yoon BH, Espinoza J, Kim CJ, Sorokin Y, Malone J Jr.

Am J Obstet Gynecol. 2007 Sep;197(3):250.e1-7.

8.

Identification of interspecies concordance of mechanisms of arsenic-induced bladder cancer.

Sen B, Wolf DC, Turpaz Y, Bugrim A, Retief J, Hester SD.

Toxicol In Vitro. 2007 Dec;21(8):1513-29. Epub 2007 Jul 21.

PMID:
17720352
9.

Algorithms for network analysis in systems-ADME/Tox using the MetaCore and MetaDrug platforms.

Ekins S, Bugrim A, Brovold L, Kirillov E, Nikolsky Y, Rakhmatulin E, Sorokina S, Ryabov A, Serebryiskaya T, Melnikov A, Metz J, Nikolskaya T.

Xenobiotica. 2006 Oct-Nov;36(10-11):877-901.

PMID:
17118913
10.

Pathway mapping tools for analysis of high content data.

Ekins S, Nikolsky Y, Bugrim A, Kirillov E, Nikolskaya T.

Methods Mol Biol. 2007;356:319-50. Review.

PMID:
16988414
11.

Computational prediction of human drug metabolism.

Ekins S, Andreyev S, Ryabov A, Kirillov E, Rakhmatulin EA, Bugrim A, Nikolskaya T.

Expert Opin Drug Metab Toxicol. 2005 Aug;1(2):303-24. Review.

PMID:
16922645
12.

A combined approach to drug metabolism and toxicity assessment.

Ekins S, Andreyev S, Ryabov A, Kirillov E, Rakhmatulin EA, Sorokina S, Bugrim A, Nikolskaya T.

Drug Metab Dispos. 2006 Mar;34(3):495-503. Epub 2005 Dec 28.

13.

Biological networks and analysis of experimental data in drug discovery.

Nikolsky Y, Nikolskaya T, Bugrim A.

Drug Discov Today. 2005 May 1;10(9):653-62. Review.

PMID:
15894230
14.

A novel method for generation of signature networks as biomarkers from complex high throughput data.

Nikolsky Y, Ekins S, Nikolskaya T, Bugrim A.

Toxicol Lett. 2005 Jul 28;158(1):20-9.

PMID:
15871913
15.

Quantitative structure-metabolism relationship modeling of metabolic N-dealkylation reaction rates.

Balakin KV, Ekins S, Bugrim A, Ivanenkov YA, Korolev D, Nikolsky YV, Ivashchenko AA, Savchuk NP, Nikolskaya T.

Drug Metab Dispos. 2004 Oct;32(10):1111-20. Epub 2004 Jul 21.

16.

Kohonen maps for prediction of binding to human cytochrome P450 3A4.

Balakin KV, Ekins S, Bugrim A, Ivanenkov YA, Korolev D, Nikolsky YV, Skorenko AV, Ivashchenko AA, Savchuk NP, Nikolskaya T.

Drug Metab Dispos. 2004 Oct;32(10):1183-9. Epub 2004 Jul 1.

17.

Early prediction of drug metabolism and toxicity: systems biology approach and modeling.

Bugrim A, Nikolskaya T, Nikolsky Y.

Drug Discov Today. 2004 Feb 1;9(3):127-35. Review.

PMID:
14960390
18.

Sperm initiate a Ca2+ wave in frog eggs that is more similar to Ca2+ waves initiated by IP3 than by Ca2+.

Bugrim A, Fontanilla R, Eutenier BB, Keizer J, Nuccitelli R.

Biophys J. 2003 Mar;84(3):1580-90.

19.
20.

Calcium influx factor is synthesized by yeast and mammalian cells depleted of organellar calcium stores.

Csutora P, Su Z, Kim HY, Bugrim A, Cunningham KW, Nuccitelli R, Keizer JE, Hanley MR, Blalock JE, Marchase RB.

Proc Natl Acad Sci U S A. 1999 Jan 5;96(1):121-6.

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