Journal
Nature Communications
Publication Date
2014
Volume
5
Inclusive Pages
3156
Document Type
Open Access Publication
DOI
10.1038/ncomms4156
Rights and Permissions
K.L. Kanchi, et al. 22 January 2014. Integrated analysis of germline and somatic variants in ovarian cancer. Scientific reports. Art. No. 3156. DOI: 10.1038/ncomms4156. http://www.nature.com/ncomms/2014/140122/ncomms4156/full/ncomms4156.html
Recommended Citation
Kanchi, Krishna L.; Johnson, Kimberly J.; Lu, Charles; McLellan, Michael D.; Wendl, Michael C.; Zhang, Qunyuan; Koboldt, Daniel C.; Xie, Mingchao; Kandoth, Cyriac; McMichael, Joshua F.; Wyczalkowski, Matthew A.; Larson, David E.; Schmidt, Heather K.; Miller, Christopher A.; Fulton, Robert S.; Mardis, Elaine R.; Druley, Todd E.; Graubert, Timothy A.; Wilson, Richard K.; Ding, Li; and et al, "Integrated analysis of germline and somatic variants in ovarian cancer." Nature Communications. 5, 3156. (2014).
https://digitalcommons.wustl.edu/open_access_pubs/4296
Supplementary Figures S1-S5 and Supplementary Tables S1-S5
ncomms4156-s2.xlsx (39 kB)
Clinical Information For 557 WHI Cases
ncomms4156-s3.xlsx (21 kB)
429 TCGA Ovarian Cases Data Types and Clinical Information
ncomms4156-s4.xlsx (3642 kB)
Somatic Mutations in 429 TCGA Ovarian cases
ncomms4156-s5.xlsx (466 kB)
All 3,635 high confidence, rare (<1% population variant allele frequency) germline truncations including 115 validated germline truncations in cancer
ncomms4156-s6.xlsx (9 kB)
Validated Truncation Variants in Cancer Genes
ncomms4156-s7.xlsx (2691 kB)
All 22,953 missense variants (<1% population variant allele frequency), predicted to be functional by Condel in 387 Caucasians
ncomms4156-s8.xlsx (575 kB)
All truncation variants (<1% population variant allele frequency), in 557 Caucasians
ncomms4156-s9.xlsx (2434 kB)
All 30335 missense variants (<1% population variant allele frequency), predicted to be functional by Condel in 557 Caucasians
ncomms4156-s10.xlsx (224 kB)
Burden Analysis results for the Missense variants
ncomms4156-s11.xlsx (16 kB)
Burden Analysis Results for the Missense and Truncation Variants in Cancer Genes
ncomms4156-s12.xlsx (13 kB)
Germline truncation and missense within close proximity (5 amino acid) to COSMIC/OMIM variants
ncomms4156-s13.xlsx (67 kB)
Germline truncations display LOH in corresponding tumor
ncomms4156-s14.xlsx (14 kB)
Germline missense variants in cancer genes display LOH in corresponding tumor
ncomms4156-s15.xlsx (21 kB)
High confidence, functional truncation and missense variants identified by integrated approaches
ncomms4156-s16.xlsx (21 kB)
Significant pathways identified by PathScan using germline truncations and somatic mutations
ncomms4156-s17.xlsx (8 kB)
Four significant subnetworks identified by HotNet using germline truncations and somatic mutations (P = 0.17)
ncomms4156-s18.xlsx (17 kB)
672 cancer genes
ncomms4156-s19.xlsx (36 kB)
Validated Missense Variants using 11 Whole Genome Sequencing BAMs
ncomms4156-s20.xlsx (12 kB)
Primers for TCGA Germline Validation using 3730 sequencing platform
ncomms4156-s21.xlsx (49 kB)
