Xingtong Liu

Zonglin Yang, Xingtong Liu, Xinyan Xu

AI scientist systems are increasingly deployed for autonomous research, yet their academic integrity has never been systematically evaluated. We introduce SCIINTEGRITY-BENCH, the first benchmark designed around a dilemmatic evaluation paradigm: each of its 33 scenarios across 11 trap categories is constructed so that honest acknowledgment of failure is the only correct response, while task completion requires misconduct. Across 231 evaluation runs spanning 7 state-of-the-art LLMs, the overall integrity problem rate reaches 34.2%, and no model achieves zero failures. Most strikingly, across missing-data scenarios, all seven models generate synthetic data rather than acknowledging infeasibility, differing only in whether they disclose the substitution. A further prompt ablation study separates two drivers: removing explicit completion pressure sharply reduces undisclosed fabrication from 20.6% to 3.2%, while the underlying synthesis rate remains unchanged, revealing an intrinsic completion bias that persists independent of prompt-level instructions. These findings point to the absence of honest refusal as a trained disposition as the primary driver of observed failures. We release SCIINTEGRITY-BENCH at https://github.com/liuxingtong/Sci-Integrity-Bench.

Xingtong Liu, Zhaoshuo Li, Masaru Ishii et al.

In endoscopy, many applications (e.g., surgical navigation) would benefit from a real-time method that can simultaneously track the endoscope and reconstruct the dense 3D geometry of the observed anatomy from a monocular endoscopic video. To this end, we develop a Simultaneous Localization and Mapping system by combining the learning-based appearance and optimizable geometry priors and factor graph optimization. The appearance and geometry priors are explicitly learned in an end-to-end differentiable training pipeline to master the task of pair-wise image alignment, one of the core components of the SLAM system. In our experiments, the proposed SLAM system is shown to robustly handle the challenges of texture scarceness and illumination variation that are commonly seen in endoscopy. The system generalizes well to unseen endoscopes and subjects and performs favorably compared with a state-of-the-art feature-based SLAM system. The code repository is available at https://github.com/lppllppl920/SAGE-SLAM.git.

Xingtong Liu, Maia Stiber, Jindan Huang et al.

Reconstructing accurate 3D surface models of sinus anatomy directly from an endoscopic video is a promising avenue for cross-sectional and longitudinal analysis to better understand the relationship between sinus anatomy and surgical outcomes. We present a patient-specific, learning-based method for 3D reconstruction of sinus surface anatomy directly and only from endoscopic videos. We demonstrate the effectiveness and accuracy of our method on in and ex vivo data where we compare to sparse reconstructions from Structure from Motion, dense reconstruction from COLMAP, and ground truth anatomy from CT. Our textured reconstructions are watertight and enable measurement of clinically relevant parameters in good agreement with CT. The source code is available at https://github.com/lppllppl920/DenseReconstruction-Pytorch.

Xingtong Liu, Yiping Zheng, Benjamin Killeen et al.

High-quality 3D reconstructions from endoscopy video play an important role in many clinical applications, including surgical navigation where they enable direct video-CT registration. While many methods exist for general multi-view 3D reconstruction, these methods often fail to deliver satisfactory performance on endoscopic video. Part of the reason is that local descriptors that establish pair-wise point correspondences, and thus drive reconstruction, struggle when confronted with the texture-scarce surface of anatomy. Learning-based dense descriptors usually have larger receptive fields enabling the encoding of global information, which can be used to disambiguate matches. In this work, we present an effective self-supervised training scheme and novel loss design for dense descriptor learning. In direct comparison to recent local and dense descriptors on an in-house sinus endoscopy dataset, we demonstrate that our proposed dense descriptor can generalize to unseen patients and scopes, thereby largely improving the performance of Structure from Motion (SfM) in terms of model density and completeness. We also evaluate our method on a public dense optical flow dataset and a small-scale SfM public dataset to further demonstrate the effectiveness and generality of our method. The source code is available at https://github.com/lppllppl920/DenseDescriptorLearning-Pytorch.

Laura Fink, Sing Chun Lee, Jie Ying Wu et al.

With the increasing computational power of today's workstations, real-time physically-based rendering is within reach, rapidly gaining attention across a variety of domains. These have expeditiously applied to medicine, where it is a powerful tool for intuitive 3D data visualization. Embedded devices such as optical see-through head-mounted displays (OST HMDs) have been a trend for medical augmented reality. However, leveraging the obvious benefits of physically-based rendering remains challenging on these devices because of limited computational power, memory usage, and power consumption. We navigate the compromise between device limitations and image quality to achieve reasonable rendering results by introducing a novel light field that can be sampled in real-time on embedded devices. We demonstrate its applications in medicine and discuss limitations of the proposed method. An open-source version of this project is available at https://github.com/lorafib/LumiPath which provides full insight on implementation and exemplary demonstrational material.

Xingtong Liu, Ayushi Sinha, Masaru Ishii et al.

We present a self-supervised approach to training convolutional neural networks for dense depth estimation from monocular endoscopy data without a priori modeling of anatomy or shading. Our method only requires monocular endoscopic videos and a multi-view stereo method, e.g., structure from motion, to supervise learning in a sparse manner. Consequently, our method requires neither manual labeling nor patient computed tomography (CT) scan in the training and application phases. In a cross-patient experiment using CT scans as groundtruth, the proposed method achieved submillimeter mean residual error. In a comparison study to recent self-supervised depth estimation methods designed for natural video on in vivo sinus endoscopy data, we demonstrate that the proposed approach outperforms the previous methods by a large margin. The source code for this work is publicly available online at https://github.com/lppllppl920/EndoscopyDepthEstimation-Pytorch.

Zhaoshuo Li, Xingtong Liu, Nathan Drenkow et al.

Stereo depth estimation relies on optimal correspondence matching between pixels on epipolar lines in the left and right images to infer depth. In this work, we revisit the problem from a sequence-to-sequence correspondence perspective to replace cost volume construction with dense pixel matching using position information and attention. This approach, named STereo TRansformer (STTR), has several advantages: It 1) relaxes the limitation of a fixed disparity range, 2) identifies occluded regions and provides confidence estimates, and 3) imposes uniqueness constraints during the matching process. We report promising results on both synthetic and real-world datasets and demonstrate that STTR generalizes across different domains, even without fine-tuning.

Cong Gao, Xingtong Liu, Wenhao Gu et al.

Differentiable rendering is a technique to connect 3D scenes with corresponding 2D images. Since it is differentiable, processes during image formation can be learned. Previous approaches to differentiable rendering focus on mesh-based representations of 3D scenes, which is inappropriate for medical applications where volumetric, voxelized models are used to represent anatomy. We propose a novel Projective Spatial Transformer module that generalizes spatial transformers to projective geometry, thus enabling differentiable volume rendering. We demonstrate the usefulness of this architecture on the example of 2D/3D registration between radiographs and CT scans. Specifically, we show that our transformer enables end-to-end learning of an image processing and projection model that approximates an image similarity function that is convex with respect to the pose parameters, and can thus be optimized effectively using conventional gradient descent. To the best of our knowledge, this is the first time that spatial transformers have been described for projective geometry. The source code will be made public upon publication of this manuscript and we hope that our developments will benefit related 3D research applications.

Javad Fotouhi, Xingtong Liu, Mehran Armand et al.

Stitching images acquired under perspective projective geometry is a relevant topic in computer vision with multiple applications ranging from smartphone panoramas to the construction of digital maps. Image stitching is an equally prominent challenge in medical imaging, where the limited field-of-view captured by single images prohibits holistic analysis of patient anatomy. The barrier that prevents straight-forward mosaicing of 2D images is depth mismatch due to parallax. In this work, we leverage the Fourier slice theorem to aggregate information from multiple transmission images in parallax-free domains using fundamental principles of X-ray image formation. The semantics of the stitched image are restored using a novel deep learning strategy that exploits similarity measures designed around frequency, as well as dense and sparse spatial image content. Our pipeline, not only stitches images, but also provides orthographic reconstruction that enables metric measurements of clinically relevant quantities directly on the 2D image plane.

Max Allan, Satoshi Kondo, Sebastian Bodenstedt et al.

In 2015 we began a sub-challenge at the EndoVis workshop at MICCAI in Munich using endoscope images of ex-vivo tissue with automatically generated annotations from robot forward kinematics and instrument CAD models. However, the limited background variation and simple motion rendered the dataset uninformative in learning about which techniques would be suitable for segmentation in real surgery. In 2017, at the same workshop in Quebec we introduced the robotic instrument segmentation dataset with 10 teams participating in the challenge to perform binary, articulating parts and type segmentation of da Vinci instruments. This challenge included realistic instrument motion and more complex porcine tissue as background and was widely addressed with modifications on U-Nets and other popular CNN architectures. In 2018 we added to the complexity by introducing a set of anatomical objects and medical devices to the segmented classes. To avoid over-complicating the challenge, we continued with porcine data which is dramatically simpler than human tissue due to the lack of fatty tissue occluding many organs.

Xingtong Liu, Ayushi Sinha, Masaru Ishii et al.

We present a self-supervised learning-based pipeline for dense 3D reconstruction from full-length monocular endoscopic videos without a priori modeling of anatomy or shading. Our method only relies on unlabeled monocular endoscopic videos and conventional multi-view stereo algorithms, and requires neither manual interaction nor patient CT in both training and application phases. In a cross-patient study using CT scans as groundtruth, we show that our method is able to produce photo-realistic dense 3D reconstructions with submillimeter mean residual errors from endoscopic videos from unseen patients and scopes.

Cong Gao, Xingtong Liu, Michael Peven et al.

Robotic surgery has been proven to offer clear advantages during surgical procedures, however, one of the major limitations is obtaining haptic feedback. Since it is often challenging to devise a hardware solution with accurate force feedback, we propose the use of "visual cues" to infer forces from tissue deformation. Endoscopic video is a passive sensor that is freely available, in the sense that any minimally-invasive procedure already utilizes it. To this end, we employ deep learning to infer forces from video as an attractive low-cost and accurate alternative to typically complex and expensive hardware solutions. First, we demonstrate our approach in a phantom setting using the da Vinci Surgical System affixed with an OptoForce sensor. Second, we then validate our method on an ex vivo liver organ. Our method results in a mean absolute error of 0.814 N in the ex vivo study, suggesting that it may be a promising alternative to hardware based surgical force feedback in endoscopic procedures.

Xingtong Liu, Ayushi Sinha, Mathias Unberath et al.

We present a self-supervised approach to training convolutional neural networks for dense depth estimation from monocular endoscopy data without a priori modeling of anatomy or shading. Our method only requires sequential data from monocular endoscopic videos and a multi-view stereo reconstruction method, e.g. structure from motion, that supervises learning in a sparse but accurate manner. Consequently, our method requires neither manual interaction, such as scaling or labeling, nor patient CT in the training and application phases. We demonstrate the performance of our method on sinus endoscopy data from two patients and validate depth prediction quantitatively using corresponding patient CT scans where we found submillimeter residual errors.

Ayushi Sinha, Xingtong Liu, Austin Reiter et al.

Clinical examinations that involve endoscopic exploration of the nasal cavity and sinuses often do not have a reference image to provide structural context to the clinician. In this paper, we present a system for navigation during clinical endoscopic exploration in the absence of computed tomography (CT) scans by making use of shape statistics from past CT scans. Using a deformable registration algorithm along with dense reconstructions from video, we show that we are able to achieve submillimeter registrations in in-vivo clinical data and are able to assign confidence to these registrations using confidence criteria established using simulated data.

Yi Liu, Xingtong Liu, Lei Zhang et al.

Electronic payment protocols play a vital role in electronic commerce security, which is essential for secure operation of electronic commerce activities. Formal method is an effective way to verify the security of protocols. But current formal method lacks the description and analysis of timeliness in electronic payment protocols. In order to improve analysis ability, a novel approach to analyze security properties such as accountability, fairness and timeliness in electronic payment protocols is proposed in this paper. This approach extends an existing logical method by adding a concise time expression and analysis method. It enables to describe the event time, and extends the time characteristics of logical inference rules. We analyzed the Netbill protocol with the new approach and found that the fairness of the protocol is not satisfied, due to timeliness problem. The result illustrates the new approach is able to analyze the key properties of electronic payment protocols. Furthermore, the new approach can be introduced to analyze other time properties of cryptographic protocols.