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Combining cell-free DNA fragmentomes and total tumour volume improves prognostication and tumour response evaluation in patients with colorectal cancer liver metastases.

Nerma Crnovrsanin ,
J Michiel Zeeuw ,
Mahsoem Ali ,
Ruby Kemna ,
Bahar Alipanahi ,
Keith Lumbard ,
Zachary L Skidmore ,
Lorenzo Rinaldi ,
Iris van 't Erve ,
Nina J Wesdorp ,
Joost Huiskens ,
Denise van Steijn ,
Jan Hein van Waesberghe ,
Janneke van den Bergh ,
Irena Nota ,
Shira Moos ,
Marinde J G Bond ,
Lana Meiqari ,
Iris Huitink ,
Elisa Giovannetti ,
Jaap Stoker ,
Inez Verpalen ,
Daan van den Broek ,
Gerrit A Meijer ,
Rutger-Jan Swijnenburg ,
Cornelis J A Punt ,
Robert B Scharpf ,
Alessandro Leal ,
Nicholas C Dracopoli ,
Victor E Velculescu ,
Niels F M Kok ,
Geert Kazemier ,
Remond J A Fijneman

Abstract

METHODS

We analysed 202 plasma samples and CT scans collected at baseline and following induction systemic therapy from 101 patients with unresectable, liver-limited CRC enrolled in the phase-III CAIRO5 trial (NCT02162563), treated with FOLFOX/FOLFIRI plus bevacizumab. Total tumour volume (TTV) was centrally quantified via semi-automated segmentation of liver metastases. ctDNA was measured using the DELFI-TF score. Associations with overall survival (OS) and early recurrence were evaluated using multivariable Cox regression models.

BACKGROUND

Treatment decisions in patients with unresectable colorectal liver metastases (CRLM) are largely guided by radiological response to induction systemic therapy. However, radiological assessment alone provides an imprecise estimate of underlying tumour biology or treatment response. Circulating tumour DNA (ctDNA) is an emerging biomarker that can support clinical decision-making. This study evaluated the independent prognostic value of radiological tumour burden and DELFI-TF, a tumour tissue- and mutation-independent cell-free DNA (cfDNA) fragmentome-based ctDNA assay.

FUNDING

German Research Foundation (DFG, 513004649), Heidelberg Medical Faculty, Dutch Cancer Society/KWF Kankerbestrijding (10438), PPP Allowance via Health ∼ Holland (LSHM22027), Dr. Miriam and Sheldon G. Adelson Medical Research Foundation, Stand Up To Cancer (SU2C)in-Time Lung Cancer Interception Dream Team Grant, SU2C-Dutch Cancer Society International Translational Cancer Research Dream Team Grant (SU2C-AACR-DT1415), Gray Foundation, Commonwealth Foundation, Cole Foundation, Delfi Diagnostics (research grant), US National Institutes of Health (CA121113, CA233259, CA271896).

FINDINGS

At baseline, TTV (median = 139 mL, IQR = 23-497 mL) strongly correlated with DELFI-TF (median = 0.29, IQR = 0.13-0.41; Spearman's ρ = 0.70). DELFI-TF showed a more pronounced reduction than TTV on-treatment (-97.6% vs -49.9%). Baseline levels and on-treatment changes of DELFI-TF (P = 0.001; P = 0.012) and TTV (P = 0.002; P = 0.002) were independently associated with OS in the multivariable model; their combination improved prognostic performance (Uno's C-statistic 0.78 vs 0.73; P = 0.036). Baseline (P = 0.016) and on-treatment DELFI-TF (P = 0.001) also predicted early recurrence after local therapy.

INTERPRETATION

Following further validation, integrating cfDNA fragmentome-based testing with radiological tumour volume may provide complementary and clinically meaningful insights for prognostication and treatment response in patients with unresectable CRLM. This exploratory study supports a multimodal biomarker approach to guide personalised treatment strategies.

More about this publication

EBioMedicine

Volume 123
Pages 106081
Publication date 01-01-2026

Full text links

Publisher website (DOI) 10.1016/j.ebiom.2025.106081
Europe PubMed Central 41406506
Pubmed 41406506

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