An integrated clinical and genomic information system for cancer precision medicine

[1] Ghazani AA(2017)Assigning clinical meaning to somatic and germ-line whole-exome sequencing data in a prospective cancer precision medicine study Genet Med 19 787-219

[2] Oliver NM(2017)PathOS: a decision support system for reporting high throughput sequencing of cancers in clinical diagnostic laboratories Genome Med 9 38-1817

[3] St. Pierre JP(2017)CVE: an R package for interactive variant prioritisation in precision oncology BMC Med Genet 10 37-W10

[4] Doig KD(2013)Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples Nat Biotechnol 31 213-D783

[5] Fellowes A(2012)Strelka: accurate somatic small-variant calling from sequenced tumor–normal sample pairs Bioinformatics 28 1811-16

[6] Bell AH(2013)EXCAVATOR: detecting copy number variants from whole-exome sequencing data Genome Biol 14 R120-165

[7] Mock A(2010)MapSplice: accurate mapping of RNA-seq reads for splice junction discovery Nucleic Acids Res 38 e178-1438

[8] Murphy S(2011)RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome BMC Bioinformatics 12 323-E2429

[9] Morris J(2016)The galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update Nucleic Acids Res 44 W3-396

[10] Marass F(2017)COSMIC: somatic cancer genetics at high-resolution Nucleic Acids Res 45 D777-599

[1] Ghazani AA(2017)Assigning clinical meaning to somatic and germ-line whole-exome sequencing data in a prospective cancer precision medicine study Genet Med 19 787-219

[2] Oliver NM(2017)PathOS: a decision support system for reporting high throughput sequencing of cancers in clinical diagnostic laboratories Genome Med 9 38-1817

[3] St. Pierre JP(2017)CVE: an R package for interactive variant prioritisation in precision oncology BMC Med Genet 10 37-W10

[4] Doig KD(2013)Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples Nat Biotechnol 31 213-D783

[5] Fellowes A(2012)Strelka: accurate somatic small-variant calling from sequenced tumor–normal sample pairs Bioinformatics 28 1811-16

[6] Bell AH(2013)EXCAVATOR: detecting copy number variants from whole-exome sequencing data Genome Biol 14 R120-165

[7] Mock A(2010)MapSplice: accurate mapping of RNA-seq reads for splice junction discovery Nucleic Acids Res 38 e178-1438

[8] Murphy S(2011)RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome BMC Bioinformatics 12 323-E2429

[9] Morris J(2016)The galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update Nucleic Acids Res 44 W3-396

[10] Marass F(2017)COSMIC: somatic cancer genetics at high-resolution Nucleic Acids Res 45 D777-599