Extraction of Treatment Margins from CT Scans for Evaluation of Lung Tumor Cryoablation

Type: MA thesis

Status: running

Date: September 1, 2022 - February 28, 2023

Supervisors: Leonhard Rist, Andreas Maier, Florian Fintelmann (Harvard Medical School)

Thesis Description

Among all cancer types, lung cancer is responsible for the most deaths [1]. Cryoablation is a promising minimal
invasive method for treating lung cancer [2]. During percutaneous cryoablation, one or more probes are advanced
into the lung. Subsequently, a cycle of freezing and thawing using Argon gas achieves cell death [3]. Using
computed tomography (CT) images, the radiologist plans the type, number, and placement of probes based
on the expected geometry of the ice ball forming around each probe as provided by the manufacturer and the
tumor location.
The key parameter for assessing treatment success is to compare the margin created by the ablation around
the tumor with the desired safety margin. Margins of 2-10 mm [4] are required for eradication, depending
on tumor origin and type. The minimum safety margin required for eradication depends on the extent of
microscopic tumor extension beyond the tumor visible on CT.
Determining the margin is not a straight forward task, since it requires comparing CT scans taken before the
procedure to CT scans taken weeks or months later. Also, the ice ball forming during the procedure obscures
the tumor on subsequent CT scans. So far, radiologists evaluate treatment success in a binary yes/no manner
by mentally mapping 2D slices of pre- and post-procedure CT scans to mentally calculate treatment margins.
The goal of this thesis is to build an algorithm that evaluates treatment margins objectively and quantitatively,
leveraging readily available 3D CT imaging datasets. This algorithm may facilitate the early detection
of treatment failures in ex-post quality assurance and may ultimately also help estimate margins during the
procedure (i.e. to help decide for or against the addition of a probe).
From a technical point of view, the pre and post lung cryoablation 3D CT volumes have to be aligned
(registration task), tumors and ablation zones have to be either given, i.e., manually annotated, or automatically
generated (segmentation task) to compute and visualize geometrical margins.
Similar tools [5] [6] have been developed for microwave ablation which achieves cell death with high temperatures,
where tissue distortion of the tumor and surrounding tissue due to dehydration makes registration of pre
and post lung microwave ablation CT volumes difficult [7]. During cryoablation, dehydration does not occur
and tissue distortion is not noticeable. However, breathing is still expected to cause non-rigid deformation of
the volumes. Classical registration (i.e. SimpleElastix [8]) could be combined with unsupervised deep learning
approaches (i.e. Voxelmorph [9]) to achieve the desired registration.
To automatically segment tumors and ablation zones, a small convolutional neural network (CNN) could
be trained using the difference of the pre- and post-procedure scans as prior positional information. To assure
correct and time-efficient segmentation, a quality assurance step could be introduced in which a radiologist can
correct suggested segmentations.
To calculate the geometrical margin around the tumor volume, its parallel shifted surface is constructed
using an euclidean distance transform. The volumes of the tumor and the ablation zone should be visualized
by highlighting areas violating the targeted minimum margin and indicating proximity to blood vessels which
can act as thermal sinks [10].
To analyze the connections between clinical outcomes and pre/post CT imaging, applying end-to-end deep
learning would be the most desirable. However, since the amount of both labeled and unlabeled data is very
limited (approx. 50/300), machine learning methods could be applied to medically sensible features (e.g. margins)
derived from the tumor/ablation zone geometries. Alternatively a small CNN could be trained on these
geometries directly instead of the full scans.

Summary:
1. Register CT volumes
2. Segment tumors and ablation zones
3. Calculate and visualize margins and other features
4. Investigate relationships of features to outcomes of procedure

References

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