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. 2009 Apr 6;22(1):35–52. doi: 10.1293/tox.22.35

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©2009 The Japanese Society of Toxicologic Pathology

This is an open-access article distributed under the terms of the Creative Commons Attribution Non-Commercial No Derivatives (by-nc-nd) License.

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Fig. 5. — Overcoming the discrepancy between old and new GeneChip data. Even within the same GeneChip platform, the inconsistency in microarray data is evident among the different generations of rat GeneChips, namely RG U34A and RAE 230A arrays, and this hinders utilization of ‘legacy TGx knowledge’ obtained from older microarrays. (A) The median signal values of the vehicle-treated rats were adjusted between the RG U34A and RAE 230A GeneChip data. The results for 4 representative genes are presented. (B) Principal component analysis using baseline-corrected RG U34A and RAE 230A GeneChip data was performed using the glutathione depletion-associated genes presented in Fig. 3. Adjustment of the baseline signal levels considerably improved the data compatibility between the RG U34A and RAE 230A GeneChip data; the spots for each treated chemical moved closer together (cf. inside area of the dashed circles). Reprinted from Reference¹⁸⁹, with permission from Elsevier.