16. Edelman L, Toia G, Geman D, Zhang W, Price N (2009) Two-transcript gene expression classifiers in the diagnosis and prognosis of human diseases. BMC Genomics 10: 583. 17. Perou CM, Jeffrey SS, van de Rijn M, Rees CA, Eisen MB, et al. (1999) Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. Proc Natl Acad Sci USA 96: 9212–9217. 18. Schena M, Shalon D, Davis RW, Brown PO (1995) Quantitative monitoring of gene expression patterns with a complementary DNA microarray. Science 270: 467–470. 19. Brenner S, Johnson M, Bridgham J, Golda G, Lloyd DH, et al. (2000) Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays. Nat Biotechnol 18: 630–634. 20. Velculescu VE, Zhang L, Vogelstein B, Kinzler KW (1995) Serial analysis of gene expression. Science 270: 484–487. 21. Matsumura H, Bin Nasir KH, Yoshida K, Ito A, Kahl G, et al. (2006) SuperSAGE array: the direct use of 26-base-pair transcript tags in oligonucle- otide arrays. Nat Methods 3: 469–474. 22. Wang Z, Gerstein M, Snyder M (2009) RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 10: 57–63. 23. Wittwer CT, Herrmann MG, Gundry CN, Elenitoba-Johnson KS (2001) Real- time multiplex PCR assays. Methods 25: 430–442. 24. Erdner D, Anderson D (2006) Global transcriptional profiling of the toxic dinoflagellate Alexandrium fundyense using Massively Parallel Signature Sequenc- ing. BMC Genomics 7: 88. 25. Daxboeck F, Krause R, Wenisch C (2003) Laboratory diagnosis of Mycoplasma pneumoniae infection. Clin Microbiol Infect 9: 263–273. 26. Zarlenga DS, Higgins J (2001) PCR as a diagnostic and quantitative technique in veterinary parasitology. Vet Parasitol 101: 215–230. 27. Kuo WP, Whipple ME, Sonis ST, Ohno-Machado L, Jenssen TK (2002) Gene expression profiling by DNA microarrays and its application to dental research. Oral Oncol 38: 650–656. 28. Yamamoto M, Wakatsuki T, Hada A, Ryo A (2001) Use of serial analysis of gene expression (SAGE) technology. J Immunol Methods 250: 45–66. Multigene Expression Profiling 29. Reinartz J, Bruyns E, Lin JZ, Burcham T, Brenner S, et al. (2002) Massively parallel signature sequencing (MPSS) as a tool for in-depth quantitative gene expression profiling in all organisms. Brief Funct Genomic Proteomic 1: 95–104. 30. Fan X, Shi L, Fang H, Cheng Y, Perkins R, et al. DNA microarrays are predictive of cancer prognosis: a re-evaluation. Clin Cancer Res 16: 629–636. 31. Zembutsu H, Ohnishi Y, Tsunoda T, Furukawa Y, Katagiri T, et al. (2002) Genome-wide cDNA microarray screening to correlate gene expression profiles with sensitivity of 85 human cancer xenografts to anticancer drugs. Cancer Res 62: 518–527. 32. van’t Veer LJ, Dai H, van de Vijver MJ, He YD, Hart AA, et al. (2002) Gene expression profiling predicts clinical outcome of breast cancer. Nature 415: 484–485. 33. Smith GW, Rosa GJ (2007) Interpretation of microarray data: trudging out of the abyss towards elucidation of biological significance. J Anim Sci 85: E20–23. 34. Liang P (2007) MAQC papers over the cracks. Nat Biotechnol 25: 27–28. 35. Wang SM (2006) Applying the SAGE technique to study the effects of electromagnetic field on biological systems. Proteomics 6: 4765–4768. 36. Gunson R, Gillespie G, W FC (2003) Optimisation of PCR reactions using primer chessboarding. J Clin Virol 26: 369–373. 37. Henegariu O, Heerema NA, Dlouhy SR, Vance GH, Vogt PH (1997) Multiplex PCR: critical parameters and step-by-step protocol. Biotechniques 23: 504–511. 38. Nagel MA, Gilden D, Shade T, Gao B, Cohrs RJ (2009) Rapid and sensitive detection of 68 unique varicella zoster virus gene transcripts in five multiplex reverse transcription-polymerase chain reactions. J Virol Methods 157: 62–68. 39. Rai AJ, Kamath RM, Gerald W, Fleisher M (2009) Analytical validation of the GeXP analyzer and design of a workflow for cancer-biomarker discovery using multiplexed gene-expression profiling. Anal Bioanal Chem 393: 1505–1511. 40. Schuller C, Mamnun YM, Mollapour M, Krapf G, Schuster M, et al. (2004) Global phenotypic analysis and transcriptional profiling defines the weak acid stress response regulon in Saccharomyces cerevisiae. Mol Biol Cell 15: 706–720. 41. Schoske R, Vallone PM, Ruitberg CM, Butler JM (2003) Multiplex PCR design strategy used for the simultaneous amplification of 10 Y chromosome short tandem repeat (STR) loci. Anal Bioanal Chem 375: 333–343. PLoS ONE | www.plosone.org 6 January 2011 | Volume 6 | Issue 1 | e15711