Additional file 1 of Bile acid distributions, sex-specificity, and prognosis in colorectal cancer
Creators: name: Cai, Yuping
name: Shen, Xinyi
name: Lu, Lingeng
name: Yan, Hong
name: Huang, Huang
name: Gaule, Patricia
name: Muca, Engjel
name: Theriot, Casey M.
name: Rattray, Zahra
name: Rattray, Nicholas J. W.
name: Lu, Jun
name: Ahuja, Nita
name: Zhang, Yawei
name: Paty, Philip B.
name: Khan, Sajid A.
name: Johnson, Caroline H.
Publisher: name: figshare
Year: 2022
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: Chemical Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Cancer

description: Additional file 1: Table S1. Names of the bile acids measured in tumor tissues. Table S2. Demographics of colon cancer patients from samples used within this study. Table S4. Comparison of bile acid abundance between RCCs and LCCs by sex and age. Table S5. Pearson correlation of glucuronic acid to bile acid abundances in patients with LCC ≥ 55 years old (n=99). Table S6. Correlations between prognosis-linked bile acid and T regulatory cell abundances in RCC tissues (n=6). Table S7. Multiple reaction monitoring transitions, retention times and collision energy levels for the detection of bile acids in colon tumor tissues. Fig. S1. Bile acid abundances in colon tumors from patients &lt; 55 years old. Bile acid abundance measured in stage I–III tumors combined from left-sided colon cancers (LCCs, n = 14) and right-sided colon cancers (RCCs, n = 17) from patients with age &lt; 55 years old. Data represent median with interquartile range. Nonparametric Wilcoxon Mann–Whitney U test, p values adjusted for false discovery rates (FDR) (Benjamini–Hochberg). ns. = not significant. CA, cholic acid; CDCA, chenodeoxycholic acid; TCA, taurocholic acid; TCDCA, taurochenodeoxycholic acid; GCA, glycocholic acid; GCDCA, glycochenodeoxycholic acid; DCA, deoxycholic acid; LCA, lithocholic acid; UDCA, ursodeoxycholic acid; TDCA, taurodeoxycholic acid; TLCA, taurolithocholic acid; GDCA, glycodeoxycholic acid; GLCA, glycolithocholic acid; GUDCA, glycoursodeoxycholic acid. Fig. S2. Differences in tumor tissue bile acids between left-sided colon cancers (LCCs) and right-sided colon cancers (RCCs) from patients ≥ 55 years old by stage. (A) stages I (LCC n = 25, RCC n = 22), and (B) stage II (LCC n = 42, RCC n = 44), and (C) stage III (LCCs, n = 32, RCCs, n = 32). Data represent median with interquartile range. Nonparametric Wilcoxon Mann–Whitney U test, p values adjusted for false discovery rates (FDR) (Benjamini–Hochberg). ns. = not significant. CA, cholic acid; CDCA, chenodeoxycholic acid; TCA, taurocholic acid; TCDCA, taurochenodeoxycholic acid; GCA, glycocholic acid; GCDCA, glycochenodeoxycholic acid; DCA, deoxycholic acid; LCA, lithocholic acid; UDCA, ursodeoxycholic acid; TDCA, taurodeoxycholic acid; TLCA, taurolithocholic acid; GDCA, glycodeoxycholic acid; GLCA, glycolithocholic acid; GUDCA, glycoursodeoxycholic acid. Fig. S3. Microbiota that differ in abundance between LCC and RCC tumor tissues using data from TCGA COAD. Abundances (log2) of A) Faecalibacterium, B) Coprococcus, C) Dorea, D) Luteibacter, and E) Sorangium, differences determined by t-test *FDR corrected p&lt;0.05, RCC, n=136; LCC, n=262. Fig. S4. No differences in tumor tissue bile acids between tumors from male and female patients ≥ 55 years old. (A) left-sided colon cancers (LCCs) and right-sided colon cancers (RCCs) combined, male n=118, female n=110 (B) RCCs, male n = 55, female n = 60, and (C) LCCs, male n = 63, female n = 50. Data represent median with interquartile range. Nonparametric Wilcoxon Mann–Whitney U test, p values adjusted for false discovery rates (FDR) (Benjamini–Hochberg) to compare bile acids between male and female patients, all comparisons were not statistically significant. CA, cholic acid; CDCA, chenodeoxycholic acid; TCA, taurocholic acid; TCDCA, taurochenodeoxycholic acid; GCA, glycocholic acid; GCDCA, glycochenodeoxycholic acid; DCA, deoxycholic acid; LCA, lithocholic acid; UDCA, ursodeoxycholic acid; TDCA, taurodeoxycholic acid; TLCA, taurolithocholic acid; GDCA, glycodeoxycholic acid; GLCA, glycolithocholic acid; GUDCA, glycoursodeoxycholic acid. Fig. S5. Kendall correlations between bile acids among patients with age ≥ 55 years old (n=197). Box with numerical value suggest that the correlation coefficient is calculated as equal or larger than 0.8. CA, cholic acid; CDCA, chenodeoxycholic acid; TCA, taurocholic acid; TCDCA, taurochenodeoxycholic acid; GCA, glycocholic acid; GCDCA, glycochenodeoxycholic acid; DCA, deoxycholic acid; LCA, lithocholic acid; UDCA, ursodeoxycholic acid; TDCA, taurodeoxycholic acid; TLCA, taurolithocholic acid; GDCA, glycodeoxycholic acid; GLCA, glycolithocholic acid; GUDCA, glycoursodeoxycholic acid. Fig. S6. Linear regression of CD4+T cell abundances examined by quantitative immunofluorescence (QIF), against the ratios of GUDCA/UDCA. All patients with CRC (n=10) and patients with RCC (n=6) * P&lt;0.05, 95% confidence bands shown.