Contextual Genomics profiled on Global TV News.
- Contextual Genomics Inc. receives funding from the Government of CanadaOctober 3, 2018
- PacBridge Capital Partners (HK) Limited makes investment in Contextual Genomics Inc. – a Leading Canadian Cancer Genomics CompanyFebruary 25, 2018
- Idengene SA to bring Contextual Genomics’ Revolutionary Cancer Genomic Test Find-It™ to BrazilNovember 15, 2017
Dr. David Huntsman’s Selected Publications
Small cell carcinoma of the ovary, hypercalcemic type, displays frequent inactivating germline and somatic mutations in SMARCA4. Nat Genet. 2014 May;46(5):427-9. doi: 10.1038/ng.2928. Epub 2014 Mar 23.
Use of mutation profiles to refine the classification of endometrial carcinomas. J Pathol. 2012 Sep;228(1):20-30. doi: 10.1002/path.4056
Recurrent Somatic DICER1 Mutations in Nonepithelial Ovarian Cancers. N Engl J Med. 2011 Dec 21. [Epub ahead of print]
Olaparib in patients with recurrent high-grade serous or poorly differentiated ovarian carcinoma or triple-negative breast cancer: a phase 2, multicentre, open-label, non-randomised study. Lancet Oncol. 2011 Sep; 12 (9): 852-61.
Subtype-specific mutation of PPP2R1A in endometrial and ovarian carcinomas J Pathol. 2011 Apr;223(5):567-73. doi: 10.1002/path.2848. Epub 2011 Mar 7
ARID1A Mutations in Endometriosis-Associated Ovarian Carcinomas. N Engl J Med. 2010 Sep 8. [Epub ahead of print]
Subtyping of Breast Cancer by Immunohistochemistry to Investigate a Relationship between Subtype and Short and Long Term Survival: A Collaborative Analysis of Data for 10,159 Cases from 12 Studies. PLoS Med. 2010 May 25;7(5):e1000279.
Identification of Sister Chromatids by DNA Template Strand Sequences. Nature. 2010 Jan 7;463(7277):93-7.
Does Massively Parallel DNA Resequencing Signify the End of Histopathology As We Know It? J Pathol. 2010 Jan;220(2):307-15.
Mutation of FOXL2 Gene in Granulosa-Cell Tumors of the Ovary. N Engl J Med. 2009 Jun 25;360(26):2719-29.
Germline CDH1 Deletions in Hereditary Diffuse Gastric Cancer Families. Hum Mol Genet. 2009 May 1;18(9):1545-55.
Ovarian Carcinoma Subtypes are Different Diseases: Implications for Biomarker Studies. PLoS Med. 2008 Dec 2;5(12):e232.
Founder and Recurrent CDH1 Mutations in Families with Hereditary Diffuse Gastric Cancer. Jama. 2007 Jun 6;297(21):2360-72.
A Landscape Effect in Tenosynovial Giant-cell Tumor from Activation of CSF1 Expression by a Translocation in a Minority of Tumor cells. Proc Natl Acad Sci USA. 2006 Jan 17;103(3):690-5
EMSY Links the BRCA2 Pathway to Sporadic Breast and Ovarian Cancer. Cell. 2003 Nov 26;115(5):523-35.
Expression of the ETV6-NTRK3 Gene Fusion as a Primary Event in Human Secretory Breast Carcinoma. Cancer Cell. 2002 Nov;2(5):367-76.
Early Gastric Cancer in Young, Asymptomatic Carriers of Germ-Line E-Cadherin Mutations. N Engl J Med. 2001 Jun 21;344(25):1904-9.
Use of mutation profiles to refine the classification of endometrial carcinomas. J Pathol. 2012 Sep;228(1):20-30. doi: 10.1002/path.4056
Recurrent Somatic DICER1 Mutations in Nonepithelial Ovarian Cancers. N Engl J Med. 2011 Dec 21. [Epub ahead of print]
Olaparib in patients with recurrent high-grade serous or poorly differentiated ovarian carcinoma or triple-negative breast cancer: a phase 2, multicentre, open-label, non-randomised study. Lancet Oncol. 2011 Sep; 12 (9): 852-61.
Subtype-specific mutation of PPP2R1A in endometrial and ovarian carcinomas J Pathol. 2011 Apr;223(5):567-73. doi: 10.1002/path.2848. Epub 2011 Mar 7
ARID1A Mutations in Endometriosis-Associated Ovarian Carcinomas. N Engl J Med. 2010 Sep 8. [Epub ahead of print]
Subtyping of Breast Cancer by Immunohistochemistry to Investigate a Relationship between Subtype and Short and Long Term Survival: A Collaborative Analysis of Data for 10,159 Cases from 12 Studies. PLoS Med. 2010 May 25;7(5):e1000279.
Identification of Sister Chromatids by DNA Template Strand Sequences. Nature. 2010 Jan 7;463(7277):93-7.
Does Massively Parallel DNA Resequencing Signify the End of Histopathology As We Know It? J Pathol. 2010 Jan;220(2):307-15.
Mutation of FOXL2 Gene in Granulosa-Cell Tumors of the Ovary. N Engl J Med. 2009 Jun 25;360(26):2719-29.
Germline CDH1 Deletions in Hereditary Diffuse Gastric Cancer Families. Hum Mol Genet. 2009 May 1;18(9):1545-55.
Ovarian Carcinoma Subtypes are Different Diseases: Implications for Biomarker Studies. PLoS Med. 2008 Dec 2;5(12):e232.
Founder and Recurrent CDH1 Mutations in Families with Hereditary Diffuse Gastric Cancer. Jama. 2007 Jun 6;297(21):2360-72.
A Landscape Effect in Tenosynovial Giant-cell Tumor from Activation of CSF1 Expression by a Translocation in a Minority of Tumor cells. Proc Natl Acad Sci USA. 2006 Jan 17;103(3):690-5
EMSY Links the BRCA2 Pathway to Sporadic Breast and Ovarian Cancer. Cell. 2003 Nov 26;115(5):523-35.
Expression of the ETV6-NTRK3 Gene Fusion as a Primary Event in Human Secretory Breast Carcinoma. Cancer Cell. 2002 Nov;2(5):367-76.
Early Gastric Cancer in Young, Asymptomatic Carriers of Germ-Line E-Cadherin Mutations. N Engl J Med. 2001 Jun 21;344(25):1904-9.
Dr. Sohrab Shah’s Selected Publications
TITAN: inference of copy number architectures in clonal cell populations from tumor whole-genome sequence data.. J Pathol. 2013 Sep;231(1):21-34. doi: 10.1002/path.4230. PubMed PMID: 23780408; PubMed Central PMCID: PMC3864404.
Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing. Blood. 2013 Aug 15;122(7):1256-65. doi: 10.1182/blood-2013-02-483727. Epub 2013 May 22. PubMed PMID: 23699601; PubMed Central PMCID: PMC3744992.
DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer. Genome Biol. 2012 Dec 22;13(12):R124. doi: 10.1186/gb-2012-13-12-r124. PubMed PMID: 23383675; PubMed Central PMCID: PMC4056374.
Integrative analysis of genome-wide loss of heterozygosity and monoallelic expression at nucleotide resolution reveals disrupted pathways in triple-negative breast cancer. Genome Res. 2012 Oct;22(10):1995-2007. doi: 10.1101/gr.137570.112. Epub 2012 May 25. PubMed PMID: 22637570; PubMed Central PMCID: PMC3460194.
The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature. 2012 Apr 18;486(7403):346-52. doi: 10.1038/nature10983. PubMed PMID: 22522925; PubMed Central PMCID: PMC3440846.
The clonal and mutational evolution spectrum of primary triple-negative breast cancers. Nature. 2012 Apr 4;486(7403):395-9. doi: 10.1038/nature10933. PubMed PMID: 22495314; PubMed Central PMCID: PMC3863681.
JointSNVMix: a probabilistic model for accurate detection of somatic mutations in normal/tumour paired next-generation sequencing data. Bioinformatics. 2012 Apr 1;28(7):907-13. doi: 10.1093/bioinformatics/bts053. Epub 2012 Jan 27. PubMed PMID: 22285562; PubMed Central PMCID: PMC3315723.
Feature-based classifiers for somatic mutation detection in tumour-normal paired sequencing data. Bioinformatics. 2012 Jan 15;28(2):167-75. doi: 10.1093/bioinformatics/btr629. Epub 2011 Nov 13. PubMed PMID: 22084253; PubMed Central PMCID: PMC3259434.
deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data. PLoS Comput Biol. 2011 May;7(5):e1001138. doi: 10.1371/journal.pcbi.1001138. Epub 2011 May 19. PubMed PMID: 21625565; PubMed Central PMCID: PMC3098195.
ARID1A mutations in endometriosis-associated ovarian carcinomas. N Engl J Med. 2010 Oct 14;363(16):1532-43. doi: 10.1056/NEJMoa1008433. Epub 2010 Sep 8. PubMed PMID: 20942669; PubMed Central PMCID: PMC2976679.
MHC class II transactivator CIITA is a recurrent gene fusion partner in lymphoid cancers. Nature. 2011 Mar 17;471(7338):377-81. doi: 10.1038/nature09754. Epub 2011 Mar 2. PubMed PMID: 21368758; PubMed Central PMCID: PMC3902849.
SNVMix: predicting single nucleotide variants from next-generation sequencing of tumors. Bioinformatics. 2010 Mar 15;26(6):730-6. doi: 10.1093/bioinformatics/btq040. Epub 2010 Feb 3. PubMed PMID: 20130035; PubMed Central PMCID: PMC2832826.
Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution. Nature. 2009 Oct 8;461(7265):809-13. doi: 10.1038/nature08489. PubMed PMID: 19812674.
Mutation of FOXL2 in granulosa-cell tumors of the ovary. N Engl J Med. 2009 Jun 25;360(26):2719-29. doi: 10.1056/NEJMoa0902542. Epub 2009 Jun 10. PubMed PMID: 19516027.
Mutational and structural analysis of diffuse large B-cell lymphoma using whole-genome sequencing. Blood. 2013 Aug 15;122(7):1256-65. doi: 10.1182/blood-2013-02-483727. Epub 2013 May 22. PubMed PMID: 23699601; PubMed Central PMCID: PMC3744992.
DriverNet: uncovering the impact of somatic driver mutations on transcriptional networks in cancer. Genome Biol. 2012 Dec 22;13(12):R124. doi: 10.1186/gb-2012-13-12-r124. PubMed PMID: 23383675; PubMed Central PMCID: PMC4056374.
Integrative analysis of genome-wide loss of heterozygosity and monoallelic expression at nucleotide resolution reveals disrupted pathways in triple-negative breast cancer. Genome Res. 2012 Oct;22(10):1995-2007. doi: 10.1101/gr.137570.112. Epub 2012 May 25. PubMed PMID: 22637570; PubMed Central PMCID: PMC3460194.
The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature. 2012 Apr 18;486(7403):346-52. doi: 10.1038/nature10983. PubMed PMID: 22522925; PubMed Central PMCID: PMC3440846.
The clonal and mutational evolution spectrum of primary triple-negative breast cancers. Nature. 2012 Apr 4;486(7403):395-9. doi: 10.1038/nature10933. PubMed PMID: 22495314; PubMed Central PMCID: PMC3863681.
JointSNVMix: a probabilistic model for accurate detection of somatic mutations in normal/tumour paired next-generation sequencing data. Bioinformatics. 2012 Apr 1;28(7):907-13. doi: 10.1093/bioinformatics/bts053. Epub 2012 Jan 27. PubMed PMID: 22285562; PubMed Central PMCID: PMC3315723.
Feature-based classifiers for somatic mutation detection in tumour-normal paired sequencing data. Bioinformatics. 2012 Jan 15;28(2):167-75. doi: 10.1093/bioinformatics/btr629. Epub 2011 Nov 13. PubMed PMID: 22084253; PubMed Central PMCID: PMC3259434.
deFuse: an algorithm for gene fusion discovery in tumor RNA-Seq data. PLoS Comput Biol. 2011 May;7(5):e1001138. doi: 10.1371/journal.pcbi.1001138. Epub 2011 May 19. PubMed PMID: 21625565; PubMed Central PMCID: PMC3098195.
ARID1A mutations in endometriosis-associated ovarian carcinomas. N Engl J Med. 2010 Oct 14;363(16):1532-43. doi: 10.1056/NEJMoa1008433. Epub 2010 Sep 8. PubMed PMID: 20942669; PubMed Central PMCID: PMC2976679.
MHC class II transactivator CIITA is a recurrent gene fusion partner in lymphoid cancers. Nature. 2011 Mar 17;471(7338):377-81. doi: 10.1038/nature09754. Epub 2011 Mar 2. PubMed PMID: 21368758; PubMed Central PMCID: PMC3902849.
SNVMix: predicting single nucleotide variants from next-generation sequencing of tumors. Bioinformatics. 2010 Mar 15;26(6):730-6. doi: 10.1093/bioinformatics/btq040. Epub 2010 Feb 3. PubMed PMID: 20130035; PubMed Central PMCID: PMC2832826.
Mutational evolution in a lobular breast tumour profiled at single nucleotide resolution. Nature. 2009 Oct 8;461(7265):809-13. doi: 10.1038/nature08489. PubMed PMID: 19812674.
Mutation of FOXL2 in granulosa-cell tumors of the ovary. N Engl J Med. 2009 Jun 25;360(26):2719-29. doi: 10.1056/NEJMoa0902542. Epub 2009 Jun 10. PubMed PMID: 19516027.
Job openings
- Senior Manager, Bioinformatics & Computational BiologyAugust 1, 2018
- Systems AdministratorJune 26, 2018
- Bioinformatics ScientistJune 1, 2018
- Computational BiologistJune 1, 2018
- Laboratory Scientist, Assay DevelopmentMay 16, 2018
- Laboratory TechnologistFebruary 13, 2018