Relative abundances of significant genera between 386 controls and 165 individuals with late AMD.

<p>(-) and L-AMD denote controls and late AMD samples respectively. Statistical significance is indicated by (*<i>Adj-p</i> < 0.05), (**<i>Adj-p</i> < 0.005) or (***<i>Adj-p</i> < 0.0005). Mean relative abundances, standard deviations and P-values are presented in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0201768#pone.0201768.s009" target="_blank">S6 Table</a>.</p

Clinical parameters of study subjects.

<p>Clinical parameters of study subjects.</p

DESeq2 differential abundance analysis expressed as Log2FC comparison of AMD-positive samples and control samples.

<p>Negative fold change scores (log2) indicate genera with decreased abundance in AMD-positive samples, and positive fold change scores indicate genera with increased abundance in AMD-positive samples. Each point represents a genus. Genera detected to have significant difference in abundance (<i>Adj-p</i> < 0.05) are shown.</p

Microbial genera significantly associated with high <i>Prevotella</i> relative abundance.

<p>Microbial genera significantly associated with high <i>Prevotella</i> relative abundance.</p

Relative abundances of significant genera between 245 case and 386 control samples.

<p>AMD-positive and control samples are denoted by (+) and (-) respectively. Statistical significance is indicated by (*<i>Adj-p</i> < 0.05), (**<i>Adj-p</i> < 0.005) or (***<i>Adj-p</i> < 0.0005). Mean relative abundances, standard deviations and P-values are presented in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0201768#pone.0201768.s007" target="_blank">S4 Table</a>.</p

Linear regression of rs2794520 with CRVE and CRAE traits in datasets used in the study.

<p>The test allele for rs2794520 was the G allele.</p><p>Estimated power: based on average predicted effect estimate (0.45 µm CRVE) from SiMES, SP2 and SINDI datasets (see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0067650#pone-0067650-g001" target="_blank">Figure 1</a>) and a minor allele frequency of 0.40, at α = 0.05.</p

Association results of index CRP loci (7–10) in Singaporean datasets.

<p>22 SNPs were genotyped or imputed and passed QC procedures in all 3 datasets and were combined in a meta-analysis (see Table S5 in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0067650#pone.0067650.s001" target="_blank">File S1</a> for full results). Significant results (p-value <0.05) in bold.</p><p>TAF: Test allele frequency. ^† Variants which were significant but not directionally consistent with previous European study (7).</p>*<p>Mean allele frequency from 3 SNP-chips used for the SP2 study. Q_pvalue <0.1 indicates between study heterogeneity.</p

Clinical measures in SiMES, SP2 and SINDI datasets used in study.

*<p>Excluding 242 samples from SINDI, 190 samples from SiMES and 48 samples from SP2, respectively who had CRP values >10 mg/L.</p>†<p>hypertension defined as history of hypertension or SBP>140 mmHg or DBP>90 mmHg.</p>‡<p>diabetes defined as participants with a history of diabetes mellitus or fasting glucose levels ≥7.0 mmol/L in SP2 and HbA1c levels ≥6.5% in non-fasting blood samples and/or those with previous history in SiMES and SINDI.</p

Comparison of observed and expected association results for rs2794520 and CRVE in A) SP2, B) SiMES and C) SINDI datasets.

<p>Observed regression values presented in black and estimated values presented in gray. Regression models were adjusted for age and sex in SP2 and age, sex and population stratification (first 2 principal components in SiMES and first 3 principal components in SINDI only).</p

Regional association results for chromosome 19 SNPs in the <i>PVRL2</i>/<i>APOE</i>/<i>TOMM40</i> gene cluster.

<p>The index, associated SNP is named and shown as a purple diamond (rs2075650: <i>P</i> = 1.1×10⁻⁶).</p