Quantifying complementarity between different cfDNA features
Detection of cancer using blood
A. Farooq (TU Delft - Electrical Engineering, Mathematics and Computer Science)
Marcel J. T. Reinders – Mentor (TU Delft - Pattern Recognition and Bioinformatics)
S. Makrodimitris – Mentor (TU Delft - Pattern Recognition and Bioinformatics)
Bram Pronk – Mentor (TU Delft - Pattern Recognition and Bioinformatics)
D.M. Hazelaar – Mentor (Erasmus MC)
JA Pouwelse – Graduation committee member (TU Delft - Data-Intensive Systems)
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Abstract
Recent research has indicated attributes of cell-free DNA (cfDNA) called fragmentomics
as a promising method for late stage cancer detection in a non-invasive manner. The pri-
mary objective of this research is to uncover hidden patterns and interactions that could
enhance the accuracy and sensitivity of blood-based cancer diagnostics. This study explores
the complementarity between three fragmentomics features; fragment length distribution,
and nucleotide fragment end sequence diversity and nucleosome positioning for four dif-
ferent sample groups; breast cancer, colorectal cancer, lung cancer and healthy controls.
Various machine learning techniques such as linear regression were employed to quantify
any complementary relationships between the features