Additional file 3: Figure_S1. of Remodeling adipose tissue through in silico modulation of fat storage for the prevention of type 2 diabetes

Graph of the effect of each gene’s deletion on both biomass and lipid droplet production compared to the wild type network when glucose and TAG uptake are restricted. Table_S1.docx. Biomass and lipid droplet constituent with stoichiometry as well as growth media definition. Table_S2.xlsx. List of metabolic tasks used to insure proper network behavior under various circumstances. Table_S3.xlsx. List of fluxes for imports and exports in the network at each time point when optimising for lipid droplet production with restrictions to the values of TAG extraction, glucose uptake and NEFA release to the experimental values from obese and lean subjects. Table_S4.xlsx. List of fluxes for imports and exports in the network at each time point when optimising for acetyl-CoA production with restrictions to the values of TAG extraction, glucose uptake and NEFA release to the experimental values from obese and lean subjects. Table_S5.xlsx. Effect of gene deletion in mouse models for the genes predicted to have an effect on adipocyte hypertrophy. Table_S6.docx. Number of genes having an increased effect on lipid droplet and biomass production in either of the adipose tissues compared to the other. Table_S7.xlsx. List of genes identified as potential targets when restricting the flux of reactions using gene fold differences between subcutaneous and visceral adipose tissues. iTC1390adip.xml and iTC1390adipRaven.xml files containing the iTC1390adip network in SDML and raven formats as described above. (ZIP 911 kb)

本数据集包含在葡萄糖与三酰甘油（TAG）摄取受限的条件下，相较于野生型代谢网络，各基因敲除对生物量生成与脂滴产生的影响关系图谱。配套文件Table_S1.docx收录了生物量与脂滴组分的化学计量学信息，以及生长培养基的定义。Table_S2.xlsx为代谢任务清单，用于保障代谢网络在各类情境下的行为符合预期。Table_S3.xlsx收录了以脂滴生成为优化目标，且将三酰甘油（TAG）提取量、葡萄糖摄取量与非酯化脂肪酸（NEFA）释放量限定为肥胖与瘦体型受试者实验数值时，代谢网络各时间点的进出口通量列表。Table_S4.xlsx收录了以乙酰辅酶A生成为优化目标，且将三酰甘油（TAG）提取量、葡萄糖摄取量与非酯化脂肪酸（NEFA）释放量限定为肥胖与瘦体型受试者实验数值时，代谢网络各时间点的进出口通量列表。Table_S5.xlsx为小鼠模型中基因敲除的影响数据，对应预测可影响脂肪细胞肥大的相关基因。Table_S6.docx统计了两种脂肪组织中，对脂滴生成与生物量产生增强影响的基因数量对比结果。Table_S7.xlsx为基于皮下与内脏脂肪组织的基因倍数差异，限制反应通量时筛选出的潜在靶基因清单。附带的iTC1390adip.xml与iTC1390adipRaven.xml文件分别以SDML格式与Raven格式存储了iTC1390adip代谢网络，整套文件以ZIP压缩包形式打包，总大小为911 KB。