1 Supplementary Materials Modeling cholesterol metabolism by gene expression profiling in the hippocampus Christopher M. Valdez 1 , Clyde F. Phelix 1 , Mark A. Smith 3 , George Perry 1,2 , and Fidel Santamaria 1,2 1 Biology Department and 2 Neurosciences Institute, The University of Texas at San Antonio, One UTSA circle, San Antonio, TX, 78249; 3 Department of Pathology, Case Western Reserve University, Cleveland, Ohio 44106. Corresponding author: Fidel Santamaria, One UTSA circle, San Antonio, TX, 78249. Email: fidel.santamaria@utsa.edu . Table S1 Cholesterol metabolite index. Fifty one cholesterol metabolites were included in the brain cholesterol metabolism model, plus acetate (M1) and coenzyme A (M2). The index (M) is used to ease location of metabolites mentioned in the text. M1 acetate M28 4alpha-carboxy-5alpha-cholesta-8-en-3beta-ol M2 coenzyme A M29 5alpha-cholesta-8-en-3-one M3 acetyl-CoA M30 zymostenol M4 acetoacetyl-CoA M31 7-dehydrodesmosterol M5 3-hydroxy-3-methyl-glutaryl CoA M32 desmosterol M6 mevalonate M33 4,4-dimethyl-14alpha-hydroxymethyl-5alpha- cholesta-8,24-dien-3beta-ol M7 mevalonate-5 phosphate M34 4,4-dimethyl-14alpha-formyl-5alpha-cholesta-8,24- dien-3beta-ol M8 mevalonate-5-pyrophosphate M35 4,4-dimethyl-5alpha-cholesta-8,14,24-trien-3beta- ol M9 delta3-isopentenyl pyrophosphate M36 4,4-dimethyl-5alpha-cholesta-8,24-dien-3beta-ol M10 dimethylallyl pyrophosphate M37 4alpha-hydroxymethyl-4beta-methyl-5alpha- cholesta-8,24-dien-3beta-ol M11 geranyl pyrophosphate M38 4alpha-formyl-4beta-methyl-5alpha-cholesta-8,24- dien-3beta-ol M12 farnesyl pyrophosphate M39 4alpha-carboxy-4beta-methyl-5alpha-cholesta- 8,24-dien-3beta-ol M13 squalene M40 4alpha-methyl-5alpha-cholesta-8,24-dien-3-one M14 (S)-squalene-2,3-epoxide M41 4alpha-methyl-zymosterol M15 lanosterol M42 4alpha-hydroxymethyl-5alpha-cholesta-8,24-dien- 3beta-ol M16 24,25-dihydrolanosterol M43 4alpha-formyl-5alpha-cholesta-8,24-dien-3beta-ol M17 4,4-dimethyl-14alpha-hydroxymethyl- 5alpha-cholesta-8-en-3beta-ol M44 4alpha-carboxy-5alpha-cholesta-8,24-dien-3beta-ol M18 4,4-dimethyl-14alpha-formyl-5alpha- cholesta-8-en-3beta-ol M45 5alpha-cholesta-8,24-dien-3-one M19 4,4-dimethyl-5alpha-cholesta-8,14-dien- 3beta-ol M46 zymosterol M20 4,4-dimethyl-5alpha-cholesta-8-en-3beta-ol M47 5alpha-cholesta-7,24-dien-3beta-ol M21 4alpha-hydroxymethyl-4beta-methyl- 5alpha-cholesta-8-en-3beta-ol M48 lathosterol Supplementary Material (ESI) for Molecular BioSystems This journal is (c) The Royal Society of Chemistry, 2011