Predicting resistance to chemotherapy using chromosomal instability signatures

The aim of this study is to assess whether three chromosomal instability signature biomarkers are capable of predicting resistance to standard chemotherapies, namely platins, taxanes and anthracyclines. As part of this study we compiled a proof of principle cohort of ovarian cancers treated with these therapies, profiled using the Illumina TSO500 panel. Analysis of these data demonstrated that accurate biomarker calling can be computed from these gene panel data.

Type: Whole Genome Sequencing
Archiver: European Genome-Phenome Archive (EGA)

1 Dataset 1 Publication

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD50000001451	This dataset consists of 8 ovarian cancer DNA sample libraries prepared using the Illumina TruSight Oncology 500 Kit (Illumina, cat no. 20076480) following the manufacturer's protocol. Library quality and quantity were assessed with High Sensitivity/D5000 Screentape Assay (Agilent Technologies, cat no. 5067-5592) on 4150/4200 Tapestation Quant-IT/Qubit dsDNA HS (Qiagen, cat no. Q32851) assay according to the supplier’s recommendations. Libraries were then pooled together in equal ratios and sequenced using PE-150bp mode on NovaSeq S1 flow cell 300 cycles kit (Illumina, 20028317) or S4 flow cell 300 cycles kit (Illumina, 20028312) aiming for 100 million reads per sample. The dataset contains sequence reads in fastq file format.	Illumina NovaSeq X	8

Publications	Citations
Predicting resistance to chemotherapy using chromosomal instability signatures. Thompson JS, Madrid L, Hernando B, Sauer CM, Vias M, Escobar-Rey M, Leung WK, Garcia-Lopez D, Huckstep J, Sekowska M, Hosking K, Jimenez-Linan M, Reinius MAV, Roy A, Abdulle O, Pangonyte J, Dobson H, Cullen AE, De Silva D, Gómez-Sánchez D, Torres M, Fernández-Sanromán Á, Sanders D, Martins FC, Funingana IG, Codacci-Pisanelli G, Quintela-Fandino M, Markowetz F, Yip J, Brenton JD, Piskorz AM, Macintyre G. Nat Genet 57: 2025 1708-1717	1

Publications

Citations

Predicting resistance to chemotherapy using chromosomal instability signatures.
Thompson JS, Madrid L, Hernando B, Sauer CM, Vias M, Escobar-Rey M, Leung WK, Garcia-Lopez D, Huckstep J, Sekowska M, Hosking K, Jimenez-Linan M, Reinius MAV, Roy A, Abdulle O, Pangonyte J, Dobson H, Cullen AE, De Silva D, Gómez-Sánchez D, Torres M, Fernández-Sanromán Á, Sanders D, Martins FC, Funingana IG, Codacci-Pisanelli G, Quintela-Fandino M, Markowetz F, Yip J, Brenton JD, Piskorz AM, Macintyre G. Nat Genet 57: 2025 1708-1717