System and method for cancer-cell specific transcription identification
AssigneeThe Hospital for Sick Children
InventorsAdam SHLIEN, Matthew ZATZMAN
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Abstract
The present invention relates a system and method for cancer-cell specific transcription identification. The method including: receiving nucleic acid data from one or more samples; determining variant allele fraction (VAF) of markers in ribonucleic acid (RNA) in the nucleic acid data and markers for deoxyribonucleic acid (DNA) in the nucleic acid data; comparing the VAF of the RNA relative to the DNA for each of the markers; and outputting the comparison as a quantification of cancer-cell specific changes in transcriptional output as a marker of prognosis or therapeutic response in cancer.
Claims20
A computer-implemented method for cancer-cell specific transcription identification, the method comprising:
- receiving nucleic acid data from one or more samples;
- determining variant allele fraction (VAF) of markers in ribonucleic acid (RNA) in the nucleic acid data and markers for deoxyribonucleic acid (DNA) in the nucleic acid data;
- comparing the VAF of the RNA relative to the DNA for each of the markers;
- and
- outputting the comparison as a quantification of cancer-cell specific changes in transcriptional output as a marker of prognosis or therapeutic response in cancer.
A system for cancer-cell specific transcription identification, the system comprising one or more processors and a data storage, the one or more processors receiving instructions from the data storage to execute:
- an input module to receive nucleic acid data from one or more samples;
- a comparison module to determine variant allele fraction (VAF) of markers in ribonucleic acid (RNA) in the nucleic acid data and markers for deoxyribonucleic acid (DNA) in the nucleic acid data, and to compare the VAF of the RNA relative to the DNA for each of the markers;
- and
- an output module to output the comparison as a quantification of cancer-cell specific changes in transcriptional output as a marker of prognosis or therapeutic response in cancer.
Dependencies are inferred from the claim text.