Pathways Knowlegdes

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Pathway DOIs Note
Metabolism of lipids

Accession ID: Reactome:R-MMU-556833		 -
Metabolism of steroids

Accession ID: Reactome:R-MMU-8957322
  • 10.1007/bf00054556
  • 10.1146/annurev.biochem.72.121801.161712
  • 10.1152/ajprenal.00336.2004
  • 10.1194/jlr.r800054-jlr200
  • 10.1210/er.2003-0030
 Brown MS, Goldstein JL. Cholesterol feedback: from Schoenheimer's bottle to Scap's MELADL. Journal of Lipid Research. 2009 Apr;50():S15–27. doi: 10.1194/jlr.r800054-jlr200.; Dusso AS, Brown AJ, Slatopolsky E. Vitamin D. American Journal of Physiology-Renal Physiology. 2005 Jul;289(1):F8–F28. doi: 10.1152/ajprenal.00336.2004.; Payne AH, Hales DB. Overview of steroidogenic enzymes in the pathway from cholesterol to active steroid hormones. Endocr Rev. 2004 Dec;25(6):947–70. doi: 10.1210/er.2003-0030. PMID: 15583024.; Russell DW. The enzymes, regulation, and genetics of bile acid synthesis. Annu Rev Biochem. 2003;72():137–74. doi: 10.1146/annurev.biochem.72.121801.161712. PMID: 12543708.; Russell DW. Cholesterol biosynthesis and metabolism. Cardiovasc Drugs Ther. 1992 Apr;6(2):103–10. doi: 10.1007/bf00054556. PMID: 1390320.
Biological oxidations

Accession ID: Reactome:R-MMU-211859		 -
Phase I - Functionalization of compounds

Accession ID: Reactome:R-RNO-211945
  • 10.1208/aapsj080112
  • 10.1517/17425255.2.6.895
  • 10.2174/1389200023337054
 Strolin Benedetti M, Whomsley R, Baltes E. Involvement of enzymes other than CYPs in the oxidative metabolism of xenobiotics. Expert Opinion on Drug Metabolism & Toxicology. 2006 Nov 24;2(6):895–921. doi: 10.1517/17425255.2.6.895.; Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Danielson PB. The cytochrome P450 superfamily: biochemistry, evolution and drug metabolism in humans. Curr Drug Metab. 2002 Dec;3(6):561–97. doi: 10.2174/1389200023337054. PMID: 12369887.
Phase I - Functionalization of compounds

Accession ID: Reactome:R-SSC-211945
  • 10.1208/aapsj080112
  • 10.1517/17425255.2.6.895
  • 10.2174/1389200023337054
 Strolin Benedetti M, Whomsley R, Baltes E. Involvement of enzymes other than CYPs in the oxidative metabolism of xenobiotics. Expert Opinion on Drug Metabolism & Toxicology. 2006 Nov 24;2(6):895–921. doi: 10.1517/17425255.2.6.895.; Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Danielson PB. The cytochrome P450 superfamily: biochemistry, evolution and drug metabolism in humans. Curr Drug Metab. 2002 Dec;3(6):561–97. doi: 10.2174/1389200023337054. PMID: 12369887.
Vitamin D (calciferol) metabolism

Accession ID: Reactome:R-XTR-196791
  • 10.1002/cbf.2835
  • 10.1016/j.bbagrm.2017.07.002
  • 10.1016/j.beem.2015.06.006
  • 10.1016/j.mayocp.2013.05.011
  • 10.1152/physrev.00014.2015
  • 10.1371/journal.pone.0058725
 Neme A, Seuter S, Carlberg C. Selective regulation of biological processes by vitamin D based on the spatio-temporal cistrome of its receptor. Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms. 2017 Sep;1860(9):952–61. doi: 10.1016/j.bbagrm.2017.07.002.; Christakos S, Dhawan P, Verstuyf A, Verlinden L, Carmeliet G. Vitamin D: Metabolism, Molecular Mechanism of Action, and Pleiotropic Effects. Physiological Reviews. 2016 Jan;96(1):365–408. doi: 10.1152/physrev.00014.2015.; Delanghe JR, Speeckaert R, Speeckaert MM. Behind the scenes of vitamin D binding protein: More than vitamin D binding. Best Practice & Research Clinical Endocrinology & Metabolism. 2015 Oct;29(5):773–86. doi: 10.1016/j.beem.2015.06.006.; Hossein-nezhad A, Holick MF. Vitamin D for Health: A Global Perspective. Mayo Clinic Proceedings. 2013 Jul;88(7):720–55. doi: 10.1016/j.mayocp.2013.05.011.; Hossein-nezhad A, Spira A, Holick MF. Influence of Vitamin D Status and Vitamin D3 Supplementation on Genome Wide Expression of White Blood Cells: A Randomized Double-Blind Clinical Trial. PLoS ONE. 2013 Mar 20;8(3):e58725. doi: 10.1371/journal.pone.0058725.; Chun RF. New perspectives on the vitamin D binding protein. Cell Biochemistry & Function. 2012 Apr 23;30(6):445–56. doi: 10.1002/cbf.2835.
Cytochrome P450 - arranged by substrate type

Accession ID: Reactome:R-XTR-211897
  • 10.1097/00008571-200401000-00001
  • 10.1208/aapsj080112
  • 10.1517/phgs.5.3.305.29827
  • 10.2174/1389200023337054
 Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Lewis DF. 57 varieties: the human cytochromes P450. Pharmacogenomics. 2004 Apr;5(3):305–18. doi: 10.1517/phgs.5.3.305.29827. PMID: 15102545.; Nelson DR, Zeldin DC, Hoffman SM, Maltais LJ, Wain HM, Nebert DW. Comparison of cytochrome P450 (CYP) genes from the mouse and human genomes, including nomenclature recommendations for genes, pseudogenes and alternative-splice variants. Pharmacogenetics. 2004 Jan;14(1):1–18. doi: 10.1097/00008571-200401000-00001. PMID: 15128046.; Danielson PB. The cytochrome P450 superfamily: biochemistry, evolution and drug metabolism in humans. Curr Drug Metab. 2002 Dec;3(6):561–97. doi: 10.2174/1389200023337054. PMID: 12369887.
Vitamins

Accession ID: Reactome:R-XTR-211916
  • 10.1208/aapsj080112
  • 10.1517/phgs.5.3.305.29827
 Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Lewis DF. 57 varieties: the human cytochromes P450. Pharmacogenomics. 2004 Apr;5(3):305–18. doi: 10.1517/phgs.5.3.305.29827. PMID: 15102545.
Metabolism of steroids

Accession ID: Reactome:R-BTA-8957322
  • 10.1007/bf00054556
  • 10.1146/annurev.biochem.72.121801.161712
  • 10.1152/ajprenal.00336.2004
  • 10.1194/jlr.r800054-jlr200
  • 10.1210/er.2003-0030
 Brown MS, Goldstein JL. Cholesterol feedback: from Schoenheimer's bottle to Scap's MELADL. Journal of Lipid Research. 2009 Apr;50():S15–27. doi: 10.1194/jlr.r800054-jlr200.; Dusso AS, Brown AJ, Slatopolsky E. Vitamin D. American Journal of Physiology-Renal Physiology. 2005 Jul;289(1):F8–F28. doi: 10.1152/ajprenal.00336.2004.; Payne AH, Hales DB. Overview of steroidogenic enzymes in the pathway from cholesterol to active steroid hormones. Endocr Rev. 2004 Dec;25(6):947–70. doi: 10.1210/er.2003-0030. PMID: 15583024.; Russell DW. The enzymes, regulation, and genetics of bile acid synthesis. Annu Rev Biochem. 2003;72():137–74. doi: 10.1146/annurev.biochem.72.121801.161712. PMID: 12543708.; Russell DW. Cholesterol biosynthesis and metabolism. Cardiovasc Drugs Ther. 1992 Apr;6(2):103–10. doi: 10.1007/bf00054556. PMID: 1390320.
Biological oxidations

Accession ID: Reactome:R-BTA-211859		 -
Metabolism of lipids

Accession ID: Reactome:R-CEL-556833		 -
Metabolism of steroids

Accession ID: Reactome:R-CEL-8957322
  • 10.1007/bf00054556
  • 10.1146/annurev.biochem.72.121801.161712
  • 10.1152/ajprenal.00336.2004
  • 10.1194/jlr.r800054-jlr200
  • 10.1210/er.2003-0030
 Brown MS, Goldstein JL. Cholesterol feedback: from Schoenheimer's bottle to Scap's MELADL. Journal of Lipid Research. 2009 Apr;50():S15–27. doi: 10.1194/jlr.r800054-jlr200.; Dusso AS, Brown AJ, Slatopolsky E. Vitamin D. American Journal of Physiology-Renal Physiology. 2005 Jul;289(1):F8–F28. doi: 10.1152/ajprenal.00336.2004.; Payne AH, Hales DB. Overview of steroidogenic enzymes in the pathway from cholesterol to active steroid hormones. Endocr Rev. 2004 Dec;25(6):947–70. doi: 10.1210/er.2003-0030. PMID: 15583024.; Russell DW. The enzymes, regulation, and genetics of bile acid synthesis. Annu Rev Biochem. 2003;72():137–74. doi: 10.1146/annurev.biochem.72.121801.161712. PMID: 12543708.; Russell DW. Cholesterol biosynthesis and metabolism. Cardiovasc Drugs Ther. 1992 Apr;6(2):103–10. doi: 10.1007/bf00054556. PMID: 1390320.
Metabolism of steroids

Accession ID: Reactome:R-CFA-8957322
  • 10.1007/bf00054556
  • 10.1146/annurev.biochem.72.121801.161712
  • 10.1152/ajprenal.00336.2004
  • 10.1194/jlr.r800054-jlr200
  • 10.1210/er.2003-0030
 Brown MS, Goldstein JL. Cholesterol feedback: from Schoenheimer's bottle to Scap's MELADL. Journal of Lipid Research. 2009 Apr;50():S15–27. doi: 10.1194/jlr.r800054-jlr200.; Dusso AS, Brown AJ, Slatopolsky E. Vitamin D. American Journal of Physiology-Renal Physiology. 2005 Jul;289(1):F8–F28. doi: 10.1152/ajprenal.00336.2004.; Payne AH, Hales DB. Overview of steroidogenic enzymes in the pathway from cholesterol to active steroid hormones. Endocr Rev. 2004 Dec;25(6):947–70. doi: 10.1210/er.2003-0030. PMID: 15583024.; Russell DW. The enzymes, regulation, and genetics of bile acid synthesis. Annu Rev Biochem. 2003;72():137–74. doi: 10.1146/annurev.biochem.72.121801.161712. PMID: 12543708.; Russell DW. Cholesterol biosynthesis and metabolism. Cardiovasc Drugs Ther. 1992 Apr;6(2):103–10. doi: 10.1007/bf00054556. PMID: 1390320.
Cytochrome P450 - arranged by substrate type

Accession ID: Reactome:R-CFA-211897
  • 10.1097/00008571-200401000-00001
  • 10.1208/aapsj080112
  • 10.1517/phgs.5.3.305.29827
  • 10.2174/1389200023337054
 Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Lewis DF. 57 varieties: the human cytochromes P450. Pharmacogenomics. 2004 Apr;5(3):305–18. doi: 10.1517/phgs.5.3.305.29827. PMID: 15102545.; Nelson DR, Zeldin DC, Hoffman SM, Maltais LJ, Wain HM, Nebert DW. Comparison of cytochrome P450 (CYP) genes from the mouse and human genomes, including nomenclature recommendations for genes, pseudogenes and alternative-splice variants. Pharmacogenetics. 2004 Jan;14(1):1–18. doi: 10.1097/00008571-200401000-00001. PMID: 15128046.; Danielson PB. The cytochrome P450 superfamily: biochemistry, evolution and drug metabolism in humans. Curr Drug Metab. 2002 Dec;3(6):561–97. doi: 10.2174/1389200023337054. PMID: 12369887.
Vitamins

Accession ID: Reactome:R-CFA-211916
  • 10.1208/aapsj080112
  • 10.1517/phgs.5.3.305.29827
 Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Lewis DF. 57 varieties: the human cytochromes P450. Pharmacogenomics. 2004 Apr;5(3):305–18. doi: 10.1517/phgs.5.3.305.29827. PMID: 15102545.
Phase I - Functionalization of compounds

Accession ID: Reactome:R-DRE-211945
  • 10.1208/aapsj080112
  • 10.1517/17425255.2.6.895
  • 10.2174/1389200023337054
 Strolin Benedetti M, Whomsley R, Baltes E. Involvement of enzymes other than CYPs in the oxidative metabolism of xenobiotics. Expert Opinion on Drug Metabolism & Toxicology. 2006 Nov 24;2(6):895–921. doi: 10.1517/17425255.2.6.895.; Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Danielson PB. The cytochrome P450 superfamily: biochemistry, evolution and drug metabolism in humans. Curr Drug Metab. 2002 Dec;3(6):561–97. doi: 10.2174/1389200023337054. PMID: 12369887.
Metabolism of steroids

Accession ID: Reactome:R-DDI-8957322
  • 10.1007/bf00054556
  • 10.1146/annurev.biochem.72.121801.161712
  • 10.1152/ajprenal.00336.2004
  • 10.1194/jlr.r800054-jlr200
  • 10.1210/er.2003-0030
 Brown MS, Goldstein JL. Cholesterol feedback: from Schoenheimer's bottle to Scap's MELADL. Journal of Lipid Research. 2009 Apr;50():S15–27. doi: 10.1194/jlr.r800054-jlr200.; Dusso AS, Brown AJ, Slatopolsky E. Vitamin D. American Journal of Physiology-Renal Physiology. 2005 Jul;289(1):F8–F28. doi: 10.1152/ajprenal.00336.2004.; Payne AH, Hales DB. Overview of steroidogenic enzymes in the pathway from cholesterol to active steroid hormones. Endocr Rev. 2004 Dec;25(6):947–70. doi: 10.1210/er.2003-0030. PMID: 15583024.; Russell DW. The enzymes, regulation, and genetics of bile acid synthesis. Annu Rev Biochem. 2003;72():137–74. doi: 10.1146/annurev.biochem.72.121801.161712. PMID: 12543708.; Russell DW. Cholesterol biosynthesis and metabolism. Cardiovasc Drugs Ther. 1992 Apr;6(2):103–10. doi: 10.1007/bf00054556. PMID: 1390320.
Metabolism of steroids

Accession ID: Reactome:R-GGA-8957322
  • 10.1007/bf00054556
  • 10.1146/annurev.biochem.72.121801.161712
  • 10.1152/ajprenal.00336.2004
  • 10.1194/jlr.r800054-jlr200
  • 10.1210/er.2003-0030
 Brown MS, Goldstein JL. Cholesterol feedback: from Schoenheimer's bottle to Scap's MELADL. Journal of Lipid Research. 2009 Apr;50():S15–27. doi: 10.1194/jlr.r800054-jlr200.; Dusso AS, Brown AJ, Slatopolsky E. Vitamin D. American Journal of Physiology-Renal Physiology. 2005 Jul;289(1):F8–F28. doi: 10.1152/ajprenal.00336.2004.; Payne AH, Hales DB. Overview of steroidogenic enzymes in the pathway from cholesterol to active steroid hormones. Endocr Rev. 2004 Dec;25(6):947–70. doi: 10.1210/er.2003-0030. PMID: 15583024.; Russell DW. The enzymes, regulation, and genetics of bile acid synthesis. Annu Rev Biochem. 2003;72():137–74. doi: 10.1146/annurev.biochem.72.121801.161712. PMID: 12543708.; Russell DW. Cholesterol biosynthesis and metabolism. Cardiovasc Drugs Ther. 1992 Apr;6(2):103–10. doi: 10.1007/bf00054556. PMID: 1390320.
Cytochrome P450 - arranged by substrate type

Accession ID: Reactome:R-GGA-211897
  • 10.1097/00008571-200401000-00001
  • 10.1208/aapsj080112
  • 10.1517/phgs.5.3.305.29827
  • 10.2174/1389200023337054
 Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Lewis DF. 57 varieties: the human cytochromes P450. Pharmacogenomics. 2004 Apr;5(3):305–18. doi: 10.1517/phgs.5.3.305.29827. PMID: 15102545.; Nelson DR, Zeldin DC, Hoffman SM, Maltais LJ, Wain HM, Nebert DW. Comparison of cytochrome P450 (CYP) genes from the mouse and human genomes, including nomenclature recommendations for genes, pseudogenes and alternative-splice variants. Pharmacogenetics. 2004 Jan;14(1):1–18. doi: 10.1097/00008571-200401000-00001. PMID: 15128046.; Danielson PB. The cytochrome P450 superfamily: biochemistry, evolution and drug metabolism in humans. Curr Drug Metab. 2002 Dec;3(6):561–97. doi: 10.2174/1389200023337054. PMID: 12369887.
Vitamins

Accession ID: Reactome:R-GGA-211916
  • 10.1208/aapsj080112
  • 10.1517/phgs.5.3.305.29827
 Guengerich FP. Cytochrome P450s and other enzymes in drug metabolism and toxicity. The AAPS Journal. 2006 Mar 01;8(1):e101–11. doi: 10.1208/aapsj080112.; Lewis DF. 57 varieties: the human cytochromes P450. Pharmacogenomics. 2004 Apr;5(3):305–18. doi: 10.1517/phgs.5.3.305.29827. PMID: 15102545.