###
gene_info:
gencode_vM20
there are total 54658 genes based on the gene name

###
tissues:
liver_wl_pseudo_corrected
liver_adt_pseudo_corrected
liver_aged_pseudo_corrected
blood_wl_pseudo_corrected
blood_adt_pseudo_corrected
blood_aged_ruv_corrected
heart_wl_ruv_corrected
lung_wl_ruv_corrected
lung_adt_ruv_corrected
brain_adt_ruv_corrected

###
there are total 22107 genes expressed in any of those tissues

there are total 32551 gene do not express in any of those tissues; those genes are filtered due to low expression.

update: update the liver_aged result: add 11 Bartolomei male samples of aged liver

###
files:
20230821_heart_lung_brain_treatment_deg_after_RUVr.txt: DEGs file in heart, lung and brain
20240130_blood_aged_treatment_deg_after_RUVr.txt: DEGs in aged blood (only PM2.5)
20240130_liver_blood_treatment_deg_after_PseudoCtrl_using_all_control.txt: DEGs in weanling, adult and aged liver; DEG in weanling and adult blood

column-"sig": TRUE if the gene is identified as DEG;

DEG_alltissue.txt: log2FC of DEGs in different condition groups
Gene_CPM_table_alltissue.txt: CPM of Gene across all tissues

###
DEG:

condution group

Walker_TBT_Female_weanling_liver
Walker_TBT_Male_weanling_liver
Mutlu_PM2.5_Female_weanling_liver
Mutlu_PM2.5_Male_weanling_liver
Biswal_PM2.5_Female_weanling_liver
Biswal_PM2.5_Male_weanling_liver
Bartolomei_BPA10mg_Female_weanling_liver
Bartolomei_BPA10ug_Female_weanling_liver
Bartolomei_BPA10mg_Male_weanling_liver
Bartolomei_BPA10ug_Male_weanling_liver
Dolinoy_Pb_Female_weanling_liver
Dolinoy_DEHP_Female_weanling_liver
Dolinoy_Pb_Male_weanling_liver
Dolinoy_DEHP_Male_weanling_liver
Zhibin_As_Female_weanling_liver
Zhibin_As_Male_weanling_liver
Aylor_TCDD_Female_weanling_liver
Aylor_TCDD_Male_weanling_liver
Aylor_TCDD_Female_adult_liver
Aylor_TCDD_Male_adult_liver
Bartolomei_BPA10mg_Female_adult_liver
Bartolomei_BPA10ug_Female_adult_liver
Bartolomei_BPA10mg_Male_adult_liver
Bartolomei_BPA10ug_Male_adult_liver
Biswal_PM2.5_Female_adult_liver
Biswal_PM2.5_Male_adult_liver
Dolinoy_Pb_Female_adult_liver
Dolinoy_DEHP_Female_adult_liver
Dolinoy_Pb_Male_adult_liver
Dolinoy_DEHP_Male_adult_liver
Mutlu_PM2.5_Female_adult_liver
Mutlu_PM2.5_Male_adult_liver
Walker_TBT_Female_adult_liver
Walker_TBT_Male_adult_liver
Zhibin_As_Female_adult_liver
Zhibin_As_Male_adult_liver
Bartolomei_BPA10mg_Female_aged_liver
Bartolomei_BPA10ug_Female_aged_liver
Bartolomei_BPA10mg_Male_aged_liver
Bartolomei_BPA10ug_Male_aged_liver
Mutlu_PM2.5_Female_aged_liver
Mutlu_PM2.5_Male_aged_liver
Walker_TBT_Female_aged_liver
Walker_TBT_Male_aged_liver
Dolinoy_DEHP_Female_aged_liver
Dolinoy_DEHP_Male_aged_liver
Dolinoy_Pb_Female_aged_liver
Dolinoy_Pb_Male_aged_liver
Biswal_PM2.5_Female_weanling_blood
Biswal_PM2.5_Male_weanling_blood
Dolinoy_Pb_Female_weanling_blood
Dolinoy_DEHP_Female_weanling_blood
Dolinoy_Pb_Male_weanling_blood
Dolinoy_DEHP_Male_weanling_blood
Mutlu_PM2.5_Female_weanling_blood
Mutlu_PM2.5_Male_weanling_blood
Zhibin_As_Female_weanling_blood
Zhibin_As_Male_weanling_blood
Bartolomei_BPA10mg_Female_weanling_blood
Bartolomei_BPA10ug_Female_weanling_blood
Bartolomei_BPA10mg_Male_weanling_blood
Bartolomei_BPA10ug_Male_weanling_blood
Aylor_TCDD_Female_weanling_blood
Aylor_TCDD_Male_weanling_blood
Aylor_TCDD_Female_adult_blood
Aylor_TCDD_Male_adult_blood
Bartolomei_BPA10mg_Female_adult_blood
Bartolomei_BPA10ug_Female_adult_blood
Bartolomei_BPA10mg_Male_adult_blood
Bartolomei_BPA10ug_Male_adult_blood
Biswal_PM2.5_Female_adult_blood
Biswal_PM2.5_Male_adult_blood
Dolinoy_Pb_Female_adult_blood
Dolinoy_DEHP_Female_adult_blood
Dolinoy_Pb_Male_adult_blood
Dolinoy_DEHP_Male_adult_blood
Mutlu_PM2.5_Female_adult_blood
Mutlu_PM2.5_Male_adult_blood
Zhibin_As_Female_adult_blood
Zhibin_As_Male_adult_blood
Mutlu_PM2.5_Female_aged_blood
Mutlu_PM2.5_Male_aged_blood
Mutlu_PM2.5_Female_weanling_heart
Mutlu_PM2.5_Male_weanling_heart
Mutlu_PM2.5_Female_weanling_lung
Mutlu_PM2.5_Male_weanling_lung
Mutlu_PM2.5_Female_adult_lung
Mutlu_PM2.5_Male_adult_lung
Bartolomei_BPA10mg_Female_adult_brain
Bartolomei_BPA10ug_Female_adult_brain
Bartolomei_BPA10mg_Male_adult_brain
Bartolomei_BPA10ug_Male_adult_brain
Walker_TBT_Male_adult_blood
Walker_TBT_Female_adult_blood