Graphical representation of expression changes between the B10k and NODk strains. Probesets falling in specific B10k clusters were assessed for the ratio of expression during negative selection in NODk:B10k mice. A value of 1 represents equal expression during negative selection, <1 represents lower expression in NODk thymocytes than B10k thymocytes during negative selection, and >1 represents higher expression in NODk thymocytes than B10k thymocytes during negative selection. (a) Probeset patterns from the B10k analysis increased (D, E, L) or decreased (J, K, F) specifically during negative selection trended towards showing that the same probeset in NODk thymocytes had a lower/higher expression, respectively. (b) The probeset pattern from the B10k analysis increased during maturation (A) showed roughly the same level of expression during negative selection in NODk thymocytes (divided into random groups for clarity).