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GATA6 expression distinguishes classical and basal-like subtypes in advanced pancreatic cancer.

PURPOSE: To determine the impact of basal-like and classical subtypes in advanced PDAC and to explore GATA6 expression as a surrogate biomarker. EXPERIMENTAL DESIGN: Within the COMPASS trial patients proceeding to chemotherapy for advanced PDAC undergo tumour biopsy for RNA sequencing. Overall response rate (ORR) and overall survival (OS) were stratified by subtypes and according to chemotherapy received. Correlation of GATA6 with the subtypes using gene expression profiling, in situ hybridization (ISH) were explored. RESULTS: Between December 2015-May 2019, 195 patients (95%) had enough tissue for RNA sequencing; 39 (20%) were classified as basal-like and 156 (80%) as classical. RECIST response data were available for 157 patients; 29 basal-like and 128 classical where the ORR was 10% vs. 33% respectively (p=0.02). In patients with basal-like tumours treated with modified FOLFIRINOX (mFFX) (n=22) the progression rate was 60% compared to 15% in classical PDAC (p= 0.0002). Median OS in the intention to treat population (n=195) was 9.3 months for classical vs. 5.9 months for basal-like PDAC (HR 0.47 95% CI 0.32-0.69, p=0.0001). GATA6 expression by RNAseq highly correlated with the classifier (p<0.001) and ISH predicted the subtypes with sensitivity of 89% and specificity of 83%. In a multivariable analysis, GATA6 expression was prognostic (p=0.02). In exploratory analyses, basal-like tumours, could be identified by keratin 5, were more hypoxic and enriched for a T cell inflamed gene expression signature. CONCLUSIONS: The basal-like subtype is chemoresistant and can be distinguished from classical PDAC by GATA6 expression.

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Please only click the "Request Access" button after the Data Access Agreement is fully executed. OICR-DAC manages genomic and transcriptomic data sets generated at the Ontario Institute for Cancer Research. 1. To access data, you must complete the OICR Data Access Agreement (DAA, see Policy Url above). Fields in red are mandatory. 2. The DAA should include the name(s) of all investigators who will download and/or analyze data. 3. All investigators must be from the same institution, and institutional email addresses must be used. 4. The DAA must be signed by an institutional signatory who has authority to bind the corporation. 5. Once completed, forward to OICR-DAC@oicr.on.ca for review. Data access will be granted upon final execution of the agreement. Note: To access and download data, each investigator must submit a “Request Access” form on the EGA website. A separate DAA is not required if they are already named on a fully executed DAA (as per above).

Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS00001002543 Other

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Located in
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EGAF00001725517 bam 6.7 GB
EGAF00001725519 bam 7.9 GB
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EGAF00003212018 bam 8.4 GB
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EGAF00003212020 bam 6.1 GB
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EGAF00003247537 bam 7.4 GB
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EGAF00003247541 bam 6.5 GB
EGAF00003247542 bam 14.0 GB
EGAF00003247544 bam 11.6 GB
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EGAF00003247552 bam 4.9 GB
EGAF00003247554 bam 6.3 GB
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EGAF00003247557 bam 4.7 GB
EGAF00003247558 bam 6.1 GB
EGAF00003247561 bam 7.1 GB
EGAF00003247562 bam 5.3 GB
EGAF00003247564 bam 4.1 GB
EGAF00003247570 bam 5.5 GB
EGAF00003247574 bam 7.0 GB
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EGAF00003247577 bam 7.1 GB
EGAF00003247579 bam 6.6 GB
EGAF00003247658 bam 10.2 GB
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EGAF00003490869 fastq.gz 609.9 MB
EGAF00003490870 fastq.gz 574.9 MB
EGAF00003490871 fastq.gz 606.7 MB
EGAF00003490872 fastq.gz 759.7 MB
EGAF00003490873 fastq.gz 807.7 MB
EGAF00003490874 fastq.gz 601.4 MB
EGAF00003490875 fastq.gz 635.8 MB
EGAF00003490876 fastq.gz 1.4 GB
EGAF00003490877 fastq.gz 1.5 GB
EGAF00003490926 bam 5.1 GB
EGAF00003490927 bam 5.3 GB
EGAF00003490928 bam 5.2 GB
EGAF00003490929 bam 6.8 GB
EGAF00003490930 bam 4.5 GB
EGAF00003490931 bam 4.0 GB
EGAF00003490932 bam 6.6 GB
EGAF00003490933 bam 10.9 GB
EGAF00003490934 bam 9.1 GB
EGAF00003490935 bam 3.6 GB
EGAF00003490939 bam 13.3 GB
EGAF00003490940 bam 3.8 GB
EGAF00003490941 bam 12.8 GB
EGAF00003490942 bam 10.3 GB
EGAF00003490943 bam 4.1 GB
EGAF00003490944 bam 4.6 GB
EGAF00003490949 bam 7.5 GB
EGAF00003490950 bam 10.2 GB
EGAF00003490966 bam 10.4 GB
EGAF00003490967 bam 16.4 GB
EGAF00003490968 bam 16.0 GB
EGAF00003490969 bam 4.4 GB
EGAF00003490970 bam 3.4 GB
EGAF00003490971 bam 6.2 GB
EGAF00003490972 bam 4.4 GB
EGAF00003490973 bam 3.9 GB
EGAF00003490974 bam 7.5 GB
EGAF00003490975 bam 6.4 GB
EGAF00003490976 bam 4.2 GB
EGAF00003490977 bam 5.3 GB
EGAF00003490978 bam 6.3 GB
EGAF00003490979 bam 8.4 GB
EGAF00003490980 bam 4.0 GB
EGAF00003490981 bam 5.1 GB
EGAF00003490982 bam 4.4 GB
EGAF00003490983 bam 5.8 GB
EGAF00003490984 bam 3.8 GB
EGAF00003490985 bam 6.6 GB
EGAF00003490986 bam 7.0 GB
EGAF00003490987 bam 4.4 GB
EGAF00003490988 bam 5.4 GB
EGAF00003490989 bam 6.6 GB
EGAF00003490990 bam 7.2 GB
EGAF00003490991 bam 7.4 GB
EGAF00003490992 bam 8.2 GB
EGAF00003490993 bam 6.2 GB
EGAF00003490994 bam 15.4 GB
EGAF00003490995 bam 7.1 GB
EGAF00003490996 bam 4.2 GB
EGAF00003490997 bam 16.8 GB
EGAF00003490998 bam 13.4 GB
EGAF00003490999 bam 20.5 GB
EGAF00003491000 bam 4.1 GB
EGAF00003491001 bam 5.6 GB
EGAF00003491002 bam 4.5 GB
EGAF00003491003 bam 4.3 GB
EGAF00003491004 bam 4.1 GB
EGAF00003491005 bam 4.5 GB
EGAF00003491006 bam 3.5 GB
EGAF00003491007 bam 7.3 GB
EGAF00003491008 bam 7.1 GB
EGAF00003491009 bam 10.0 GB
EGAF00003491010 bam 5.1 GB
EGAF00003491011 bam 3.1 GB
EGAF00003491012 bam 15.0 GB
EGAF00003491013 bam 5.4 GB
EGAF00003491014 bam 6.6 GB
EGAF00003491015 bam 7.0 GB
EGAF00003491016 bam 5.6 GB
EGAF00003491017 bam 4.7 GB
EGAF00003491018 bam 9.5 GB
EGAF00003491019 bam 4.5 GB
EGAF00003491020 bam 7.9 GB
EGAF00003491021 bam 10.0 GB
EGAF00003491022 bam 9.4 GB
EGAF00003491023 bam 5.7 GB
EGAF00003491024 bam 10.7 GB
EGAF00003491025 bam 6.9 GB
EGAF00003491026 bam 13.0 GB
EGAF00003491027 bam 4.1 GB
EGAF00003491028 bam 5.7 GB
EGAF00003491029 bam 7.5 GB
EGAF00003491030 bam 18.9 GB
EGAF00003491031 bam 4.9 GB
EGAF00003491032 bam 5.1 GB
EGAF00003491033 bam 3.1 GB
EGAF00003491034 bam 7.6 GB
EGAF00003491035 bam 7.5 GB
EGAF00003491036 bam 12.1 GB
EGAF00003491264 fastq.gz 272.8 MB
EGAF00003491265 fastq.gz 287.9 MB
EGAF00003491266 fastq.gz 392.1 MB
EGAF00003491267 fastq.gz 405.1 MB
EGAF00003491268 fastq.gz 79.9 MB
EGAF00003491269 fastq.gz 77.9 MB
EGAF00003491270 fastq.gz 229.5 MB
EGAF00003491271 fastq.gz 229.2 MB
EGAF00003491272 fastq.gz 121.1 MB
EGAF00003491273 fastq.gz 114.8 MB
EGAF00003491274 fastq.gz 65.2 MB
EGAF00003491275 fastq.gz 59.4 MB
EGAF00003491276 fastq.gz 81.3 MB
EGAF00003491277 fastq.gz 74.6 MB
EGAF00003491278 fastq.gz 133.8 MB
EGAF00003491279 fastq.gz 126.1 MB
EGAF00003491280 fastq.gz 136.3 MB
EGAF00003491281 fastq.gz 130.4 MB
EGAF00003491282 fastq.gz 155.6 MB
EGAF00003491283 fastq.gz 145.3 MB
EGAF00003491284 fastq.gz 194.1 MB
EGAF00003491285 fastq.gz 195.2 MB
EGAF00003491286 fastq.gz 182.7 MB
EGAF00003491287 fastq.gz 183.0 MB
EGAF00003491288 fastq.gz 77.6 MB
EGAF00003491289 fastq.gz 77.7 MB
EGAF00003491290 fastq.gz 107.0 MB
EGAF00003491291 fastq.gz 106.1 MB
EGAF00003491292 bam 5.0 GB
EGAF00003491293 bam 4.8 GB
EGAF00003491294 bam 5.6 GB
EGAF00003491295 bam 13.2 GB
EGAF00003491296 bam 6.1 GB
EGAF00003491297 bam 4.6 GB
EGAF00003491298 bam 4.7 GB
EGAF00003491299 bam 6.6 GB
EGAF00003491300 bam 7.1 GB
EGAF00003491301 bam 7.9 GB
EGAF00003491302 bam 6.8 GB
EGAF00003491303 bam 7.2 GB
EGAF00003491304 bam 5.4 GB
EGAF00003491305 bam 4.6 GB
585 Files (1.5 TB)