Diagnosis of drug-induced renal tubular toxicity using global gene expression profiles

Journal of Translational Medicine

Volumn 5, Issue , 2007, Pages

  Jiang, Ying ^a   Gerhold, David L ^a   Holder, Daniel J ^a   Figueroa, David J ^a   Bailey, Wendy J ^a   Guan, Ping ^a   Skopek, Thomas R ^a   Sistare, Frank D ^a   Sina, Joseph F ^a  

^a MERCK RESEARCH LABORATORIES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALLOPURINOL; CISPLATIN; CYCLOSPORIN A; DEXTRO SERINE; FLUORIDE SODIUM; GENTAMICIN; HEXACHLOROBUTADIENE; PUROMYCIN; TOBRAMYCIN;

ANIMAL EXPERIMENT; ANIMAL MODEL; ANIMAL TISSUE; ARTICLE; CLASSIFICATION ALGORITHM; CONTROLLED STUDY; DIAGNOSTIC TEST; DRUG INDUCED DISEASE; DRUG SAFETY; GENE EXPRESSION PROFILING; GENETIC TOXICOLOGY; HISTOPATHOLOGY; KIDNEY TUBULE DAMAGE; MALE; NEPHROTOXICITY; NONHUMAN; PREDICTION; RAT; SENSITIVITY AND SPECIFICITY; SINGLE DRUG DOSE; SUPPORT VECTOR MACHINE; TOXICITY TESTING; TOXICOGENETICS; VALIDATION STUDY; ANIMAL; CHEMICALLY INDUCED DISORDER; DRUG TOXICITY; GENETICS; KIDNEY DISEASE; SPRAGUE DAWLEY RAT;

ANIMALS; DRUG TOXICITY; GENE EXPRESSION PROFILING; KIDNEY DISEASES; MALE; RATS; RATS, SPRAGUE-DAWLEY; TOXICITY TESTS;

EID: 38149041694     PISSN: None     EISSN: 14795876     Source Type: Journal    
DOI: 10.1186/1479-5876-5-47     Document Type: Article

References (18)

1. Kola I Landis J Can the pharmaceutical industry reduce attrition rates? Nat Rev Drug Discov 2004, 3(8):711-715 10.1038/nrd1470 15286737
2. Garrett MD Workman P Discovering novel chemotherapeutic drugs for the third millennium Eur J Cancer 1999, 35:2010-30 10.1016/ S0959-8049(99)00280-4 10711243
3. Lesko LK Atkinson AJ Jr Use of biomarkers and surrogate endpoints in drug development and regulatory decision making: Criteria, validation, strategies Annu Rev Pharmacol Toxicol 2001, 41:347-366 10.1146/ annurev.pharmtox.41.1.347 11264461
4. Fielden MR Kolaja KL The state-of-the-art in predictive toxicogenomics Curr Opin Drug Discov Devel 2006, 9(1):84-91 Review. 16445120
5. Perazella MA Drug-induced nephropathy: An update Expert Opin Drug Saf 2005, 4(4):689-706 10.1517/14740338.4.4.689 16011448
6. Fielden MR Eynon BP Natsoulis G Jarnagin K Banas D Kolaja KL A gene expression signature that predicts the future onset of drug-induced renal tubular toxicity Toxicol Pathol 2005, 33(6):675-83 10.1080/ 01926230500321213 16239200
7. Thukral SK Nordone PJ Hu R Sullivan L Galambos E Fitzpatrick VD Healy L Bass MB Cosenza ME Afshari CA Prediction of nephrotoxicant action and identification of candidate toxicity-related biomarkers Toxicol Pathol 2005, 33(3):343-55 10.1080/01926230590927230 15805072
8. Somorjai RL Dolenko B Baumgartner R Class prediction and discovery using gene microarray and proteomics mass spectroscopy data: Curses, caveats, cautions Bioinformatics 2003, 19(12):1484-91 10.1093/bioinformatics/ btg182 12912828
9. Thomas RS Rank DR Penn SG Zastrow GM Hayes KR Pande K Glover E Silander T Craven MW Reddy JK Jovanovich SB Bradfield CA Identification of toxicologically predictive gene sets using cDNA microarrays Mol Pharmacol 2001, 60(6):1189-94 11723225
10. Waring JF Jolly RA Ciurlionis R Lum PY Praestgaard JT Morfitt DC Buratto B Roberts C Schadt E Ulrich RG Clustering of hepatotoxins based on mechanism of toxicity using gene expression profiles Toxicol Appl Pharmacol 2001, 175(1):28-42 10.1006/taap.2001.9243 11509024
11. Hamadeh HK Knight BL Haugen AC Sieber S Amin RP Bushel PR Stoll R Blanchard K Jayadev S Tennant RW Cunningham ML Afshari CA Paules RS Methapyrilene toxicity: Anchorage of pathologic observations to gene expression alterations Toxicol Pathol 2002, 30(4):470-82 12187938
12. Amin RP Vickers AE Sistare F Thompson KL Roman RJ Lawton M Kramer J Hamadeh HK Collins J Grissom S Bennett L Tucker CJ Wild S Kind C Oreffo V Davis JW 2nd Curtiss S Naciff JM Cunningham M Tennant R Stevens J Car B Bertram TA Afshari CA Identification of putative gene based markers of renal toxicity Environ Health Perspect 2004, 112(4):465-79 1241901 15033597
13. Brown MP Grundy WN Lin D Cristianini N Sugnet CW Furey TS Ares M Jr Haussler D Knowledge-based analysis of microarray gene expression data by using support vector machines Proc Natl Acad Sci U S A 2000, 97(1):262-267 10.1073/pnas.97.1.262 10618406 26651
14. Furey TS Cristianini N Duffy N Bednarski DW Schummer M Haussler D Support vector machine classification and validation of cancer tissue samples using microarray expression data Bioinformatics 2000, 16(10):906-14 10.1093/bioinformatics/16.10.906 11120680
15. Ramaswamy S Tamayo P Rifkin R Mukherjee S Yeang CH Angelo M Ladd C Reich M Latulippe E Mesirov JP Poggio T Gerald W Loda M Lander ES Golub TR Multiclass cancer diagnosis using tumor gene expression signatures Proc Natl Acad Sci U S A 2001, 98(26):15149-15154 64998 11742071 10.1073/ pnas.211566398
16. Joachims T Making large-Scale SVM Learning Practical Advances in Kernel Methods - Support Vector Learning MIT Press Schölkopf B, Burges C, Smola A 1999
17. TIBCO http://www.tibco.com/
18. SVM weight http://www.cs.cornell.edu/People/tj/svm_light/ svm_light_faq.html