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Table 6 Candidates for upstream regulatory roles in functional pathways altered by diets

From: Molecular alterations induced by a high-fat high-fiber diet in porcine adipose tissues: variations according to the anatomical fat location

Genes proposed as regulatory candidatesa Associated biological processes
SREBF1, MLXIPL, PPARδ, PPARα, PPARγ, USF1, OGT, GALNT1, PPP1R1A, PPP1R3C, B4GALT5, FGFR4 Glucose metabolic process
SREBF1, MLXIPL, PPARδ, PPARα, PPARγ, RXRA, RXRG, SREBF2, GATA4 Co-factor metabolic processes related to lipids and cholesterol
RXRA, RXRG, RARA, OGT Response to organic substances
MLXIPL, GLOD4, NRF1, PPARGC1A, ACOX2 Phosphorus metabolic process
PPARδ, OGT, NFE2L2, RARA, MEF2A, MEF2C, MEF2D, ASNS, ZNF268, EBAG9, DLC1, MASP1 Regulation of apoptosis and cell death
PPARδ, MLXIPL, MAFG, KLF13, CCDC85B, ZNF268, IKZF1, COPS2, NFYA Cell cycle process
OGT, GALNT1, NFE2L2, UBL4A, ASNS, NR1H3, B4GALT5, RFN10, ZNF268, FEM1A, TOMM7 Protein metabolic process
SREBF1, UBL4A, TOMM7 Protein transport
PPARδ, NRF1, NFE2L2, PPARGC1A Response to stress
PPARα, PPARγ, NFE2L1, IL25 Defense response, inflammatory response
PPARγ, MEF2A, CNIH, MASP1, FGFR4 Innate immune response
  1. aThe lists of differentially-expressed genes in porcine perirenal (PRAT) or subcutaneous (SCAT) adipose tissues in response to diet were automatically confronted to the academic information on regulations and reactions in mammalian cell signaling. Genes that were able to regulate a significant number of the differentially-expressed genes were proposed as upstream regulatory candidates. The biological processes in which these genes could be involved were indicated as referenced in the gene ontology (GO) Entrez database. The complete lists of candidates are given in Additional file 5: Table S5 for PRAT and Additional file 6: Table S6 for SCAT