Transcriptome analysis of quiescent livers and regenerating livers after partial hepatectomy (PH) in young and aged mice

To elucidate the effects of aging and the regeneration process on the liver, we conducted transcriptome analyses on young (11–14 weeks old), old (60 weeks old), and very old (100 weeks old) C57BL/6 mice (Clea Japan) before and after partial hepatectomy (PH), as well as on sham control mice. Overall design: We also used RNA-seq analysis data with the following conditions for batch correction; RNA-seq analyses for 11-14 weeks old male mouse 52 hours after sham surgery (YM_Sh2d_1_mix18, YM_Sh2d_2_mix18 and YM_Sh2d_3_mix21), 11-14 weeks old male mouse 4 days after sham surgery (YM_Sh4d_1_mix19, YM_Sh4d_2_mix21 and YM_Sh4d_3_mix21), 60 weeks old male mouse 52 hours after sham surgery (OM_Sh2d_1_mix20, OM_Sh2d_2_mix17, OM_Sh2d_3_mix23 and OM_Sh2d_3X_mix17), 60 weeks old male mouse 4 days after sham surgery (OM_Sh4d_1_mix19, OM_Sh4d_2_mix20 and OM_Sh4d_3_mix20), 100 weeks old male mouse 52 hours after sham surgery (VOM_Sh2d_1_mix9, VOM_Sh2d_2_mix9 and VOM_Sh2d_3_mix9), 100 weeks old male mouse 4 days after sham surgery (VOM_Sh4d_1_mix13, VOM_Sh4d_2_mix13, VOM_Sh4d_3_mix23 and VOM_Sh4d_3X_mix17), 11-14 weeks old female mouse that did not undergo surgery (YF_Ctrl_1_mix2, YF_Ctrl_2_mix2, YF_Ctrl_3_mix2 and YF_Ctrl_4_mix18), 11-14 weeks old female mouse 52 hours after PH (YF_52h_1_mix3, YF_52h_2_mix3 and YF_52h_3_mix18), 11-14 weeks old female mouse 4 days after PH (YF_4d_1_mix4, YF_4d_2_mix4 and YF_4d_3_mix19), 11-14 weeks old female mouse 52 hours after sham surgery (YF_Sh2d_1_mix3, YF_Sh2d_1X_mix11, YF_Sh2d_2_mix3, YF_Sh2d_2X_mix10 and YF_Sh2d_3_mix17), 11-14 weeks old female mouse 4 days after sham surgery (YF_Sh4d_1_mix4, YF_Sh4d_1X_mix11, YF_Sh4d_2_mix4, YF_Sh4d_2X_mix10 and YF_Sh4d_3_mix19), 60 weeks old female mouse that did not undergo surgery (OF_Ctrl_1_mix12, OF_Ctrl_1X_mix1, OF_Ctrl_1X_mix10, OF_Ctrl_2_mix12, OF_Ctrl_2X_mix1, OF_Ctrl_3_mix12 and OF_Ctrl_3X_mix1), 60 weeks old female mouse 52 hours after PH (OF_52h_1_mix14, OF_52h_2_mix14 and OF_52h_3_mix19), 60 weeks old female mouse 4 days after PH (OF_4d_1_mix14, OF_4d_2_mix15 and OF_4d_3_mix15), 60 weeks old female mouse 52 hours after sham surgery (OF_Sh2d_1_mix14, OF_Sh2d_2_mix22, OF_Sh2d_2X_mix14 and OF_Sh2d_3_mix21), 60 weeks old female mouse 4 days after sham surgery (OF_Sh4d_1_mix13, OF_Sh4d_2_mix15, OF_Sh4d_3_mix22 and OF_Sh4d_3X_mix15), 100 weeks old female mouse that did not undergo surgery (VOF_Ctrl_1_mix2, VOF_Ctrl_2_mix2 and VOF_Ctrl_3_mix2), 100 weeks old female mouse 52 hours after PH (VOF_52h_1_mix5, VOF_52h_2_mix5 and VOF_52h_3_mix11), 100 weeks old female mouse 4 days after PH (VOF_4d_1_mix6, VOF_4d_2_mix6, VOF_4d_3_mix22 and VOF_4d_3X_mix11), 100 weeks old female mouse 52 hours after sham surgery (VOF_Sh2d_1_mix5, VOF_Sh2d_2_mix5 and VOF_Sh2d_3_mix13) and 100 weeks old female mouse 4 days after sham surgery (VOF_Sh4d_1_mix6, VOF_Sh4d_2_mix6 and VOF_Sh4d_3_mix15).