Additional files Additional file 1: Figure S1: Pathological expressions among different groups. Additional file 2: Table S1: Significantly differential expression genes in the 3 h, 12 h, and 24 h groups. Abbreviations AN Analyze networks BBB Blood–brain barrier I-R Ischemia-reperfusion GK Glucokinase GKRP Glucokinase regulatory protein ECA External carotid artery ANOVA One-way analysis of variance SAM Significance Analysis of Microarrays Competing interests The authors declare that they have no competing interests. Authors’ contributions ZW and Y-YW conceived the study. JL and Z-WJ conducted the mouse experiment. BL drew the figures. Y-YZ and Y-N Yu provided the analysis of GeneGo MetaCore™ software. H-XL and S-SG participated in discussing article design. L-YW and YL drafted the manuscript. All authors read and approved the final manuscript. Acknowledgements This study was supported by National Natural Science Foundation of China (90209015) and National 11th Five-years-plan Supporting R&D Project (2006BAI08B04-06). This study was also supported by the ninth (Z0405) autonomously selected subject projects of the China Academy of Chinese Medical Sciences.