Supplementary Figures 1-5, Tables 1-8 from Genome-wide Analysis Identifies Novel Loci Associated with Ovarian Cancer Outcomes: Findings from the Ovarian Cancer Association Consortium
Authors: Johnatty Sharon E. , Tyrer Jonathan P. , Kar Siddhartha , Beesley Jonathan , Lu Yi , Gao Bo , Fasching Peter A. , Hein Alexander , Ekici Arif B. , Beckmann Matthias W. , Lambrechts Diether , Van Nieuwenhuysen Els , Vergote Ignace , Lambrechts Sandrina , Rossing Mary Anne , Doherty Jennifer A. , Chang-Claude Jenny , Modugno Francesmary , Ness Roberta B. , Moysich Kirsten B. , Levine Douglas A. , Kiemeney Lambertus A. , Massuger Leon F.A.G. , Gronwald Jacek , Lubiński Jan , Jakubowska Anna , Cybulski Cezary , Brinton Louise , Lissowska Jolanta , Wentzensen Nicolas , Song Honglin , Rhenius Valerie , Campbell Ian , Eccles Diana , Sieh Weiva , Whittemore Alice S. , McGuire Valerie , Rothstein Joseph H. , Sutphen Rebecca , Anton-Culver Hoda , Ziogas Argyrios , Gayther Simon A. , Gentry-Maharaj Aleksandra , Menon Usha , Ramus Susan J. , Pearce Celeste L. , Pike Malcolm C. , Stram Daniel O. , Wu Anna H. , Kupryjanczyk Jolanta , Dansonka-Mieszkowska Agnieszka , Rzepecka Iwona K. , Spiewankiewicz Beata , Goodman Marc T. , Wilkens Lynne R. , Carney Michael E. , Thompson Pamela J. , Heitz Florian , du Bois Andreas , Schwaab Ira , Harter Philipp , Pisterer Jacobus , Hillemanns Peter , Karlan Beth Y. , Walsh Christine , Lester Jenny , Orsulic Sandra , Winham Stacey J. , Earp Madalene , Larson Melissa C. , Fogarty Zachary C. , Høgdall Estrid , Jensen Allan , Kjaer Susanne Kruger , Fridley Brooke L. , Cunningham Julie M. , Vierkant Robert A. , Schildkraut Joellen M. , Iversen Edwin S. , Terry Kathryn L. , Cramer Daniel W. , Bandera Elisa V. , Orlow Irene , Pejovic Tanja , Bean Yukie , Høgdall Claus , Lundvall Lene , McNeish Ian , Paul James , Carty Karen , Siddiqui Nadeem , Glasspool Rosalind , Sellers Thomas , Kennedy Catherine , Chiew Yoke-Eng , Berchuck Andrew , MacGregor Stuart , Pharoah Paul D.P. , Goode Ellen L. , deFazio Anna , Webb Penelope M. , Chenevix-Trench Georgia 
Published: April 2023

<p>Supplementary Figures 1-5, Tables 1-8. Supplementary Figure 1: Overview of the analytic approach. Supplementary Figure 2: QQ plots of SNPs with MAF â‰¥0.02 and imputation r2 â‰¥0.9 associated with Overall Survival in A. Supplementary Figure 3: â€˜All OCACâ€™ histology-adjusted analysis. Supplementary Figure 4: Forest plots of promising SNPs. Supplementary Figure 5: KM-Plotter graphs of significant associations with outcome. Supplementary Table 1: All studies (OCAC & TCGA) eligible for analyses according to first-line chemotherapy. Supplementary Table 2: Description of individual OCAC studies included in the secondary 'all OCAC' analysis. Supplementary Table 3a: Overall Survival estimates for selected SNPs (MAF â‰¥0.02) comparing iCOGS imputed (r2 â‰¥0.3) and iPLEX genotyped samples. Supplementary Table 3b: Progression-free Survival estimates for selected SNPs (MAF â‰¥0.02) comparing iCOGS imputed (r2 â‰¥0.3) and iPLEX genotyped samples. Supplementary Table 4: SNPs with imputation r2 â‰¥0.9, EAF â‰¥0.02 and p â‰¤ 1E-05 for at least one of four outcomes analyzed in cases selected according to first-line chemotherapy. Supplementary Table 5: Meta-analysis of largest possible sample (TCGA, non-overlapping iCOGS and iplex genotyped) for selected promising SNPs analyzed in cases selected according to first-line chemotherapy. Supplementary Table 6: Significant association between protein-coding genes within 1Mb of promising SNPs and ovarian cancer outcomes. Supplementary Table 7: SNPs with imputation r-sqâ‰¥0.9 and p â‰¤ 1E-05 for Overall Survival in histology-adj 'all OCAC' analysis. Supplementary Table 8: iCOGS estimates for SNPs previously identified to be associated with response to chemotherapy as reported in the aNHGRI GWAS catalog.</p>