TABLE 1.

Summary of data provided in Supplementary Tables 1–8.

Table #	Table File Name	Description of contents
S1	Supplementary Table 1_All-Unnormalized	Non-normalized intensity values for all proteins identified by mass spectrometry. Data are shown for 4 biological replicates of each experimental group (sex × treatment) and 4 pooled reference samples. Each of the 4 sheets shows this data for one brain region (VTA or NAc) after one nicotine administration experiment (sub-chronic or chronic).
S2	Supplementary Table 2_All-Normalized	Normalized intensity values for all proteins identified by mass spectrometry. Data are shown for 4 biological replicates of each experimental group (sex × treatment) and 4 pooled reference samples. Each of the 4 sheets shows this data for one brain region (VTA or NAc) after one nicotine administration experiment (sub-chronic or chronic).
S3	Supplementary Table 3_Pairwise Sub-chronic VTA	The results of pairwise comparisons to determine which proteins were differentially expressed between MC vs. FC, FN vs. FC, and MN vs. MC in the VTA after sub-chronic nicotine administration.
S4	Supplementary Table 4_Pairwise Sub-chronic NAc	The results of pairwise comparisons to determine which proteins were differentially expressed between MC vs. FC, FN vs. FC, and MN vs. MC in the NAc after sub-chronic nicotine administration.
S5	Supplementary Table 5_Pairwise Chronic VTA	The results of pairwise comparisons to determine which proteins were differentially expressed between MC vs. FC, FN vs. FC, and MN vs. MC in the VTA after chronic nicotine administration.
S6	Supplementary Table 6_Pairwise Chronic NAc	The results of pairwise comparisons to determine which proteins were differentially expressed between MC vs. FC, FN vs. FC, and MN vs. MC in the NAc after chronic nicotine administration.
S7	Supplementary Table 7_Commonly altered proteins	Proteins that were found to be differentially expressed in multiple pairwise comparisons. Each of the 4 sheets shows these commonly altered proteins for one type of pairwise comparison (e.g., MC vs. FC) in one brain region (VTA or NAc) across strains or nicotine administration experiments.
S8	Supplementary Table 8_Top 5 KEGG Pathways	Five most significantly enriched KEGG pathways for differentially expressed proteins in each pairwise comparison. Each of the 3 sheets shows the KEGG pathways enriched in each pairwise comparison (MC vs. FC, FN vs. FC, MN vs. MC) in one brain region (VTA or NAc) in one strain or nicotine administration experiment.