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Background. A large number of algorithms is being developed to reconstruct evolutionary models of individual tumours from genome sequencing data. Most methods can analyze multiple samples collected either through bulk multi-region…

Genomics · Quantitative Biology 2019-03-26 Daniele Ramazzotti , Alex Graudenzi , Luca De Sano , Marco Antoniotti , Giulio Caravagna

The accurate diagnosis of pathological subtypes of lung cancer is of paramount importance for follow-up treatments and prognosis managements. Assessment methods utilizing deep learning technologies have introduced novel approaches for…

Image and Video Processing · Electrical Eng. & Systems 2024-07-19 Yuan Jin , Gege Ma , Geng Chen , Tianling Lyu , Jan Egger , Junhui Lyu , Shaoting Zhang , Wentao Zhu

We present multiscale models of cancer tumor invasion with components at the molecular, cellular, and tissue levels. We provide biological justifications for the model components, present computational results from the model, and discuss…

Quantitative Methods · Quantitative Biology 2023-02-14 Bruce P. Ayati , Glenn F. Webb , Alexander R. A. Anderson

Artificial intelligence (AI) has drawn significant inspiration from neuroscience to develop artificial neural network (ANN) models. However, these models remain constrained by the Von Neumann architecture and struggle to capture the…

Neurons and Cognition · Quantitative Biology 2025-11-18 Gautier-Edouard Filardo , Thibaut Heckmann

Brain tumor segmentation is an active research area due to the difficulty in delineating highly complex shaped and textured tumors as well as the failure of the commonly used U-Net architectures. The combination of different neural…

Image and Video Processing · Electrical Eng. & Systems 2023-08-02 Lanhong Yao , Zheyuan Zhang , Ulas Bagci

Despite great advances, molecular cancer pathology is often limited to the use of a small number of biomarkers rather than the whole transcriptome, partly due to computational challenges. Here, we introduce a novel architecture of Deep…

Machine Learning · Statistics 2019-08-14 Behrooz Azarkhalili , Ali Saberi , Hamidreza Chitsaz , Ali Sharifi-Zarchi

At its core, Quantum Mechanics is a theory developed to describe fundamental observations in the spectroscopy of solids and gases. Despite these practical roots, however, quantum theory is infamous for being highly counterintuitive, largely…

Quantum Physics · Physics 2020-01-20 Emmanuel Flurin , Leigh S. Martin , Shay Hacohen-Gourgy , Irfan Siddiqi

Tumor mutational burden (TMB) is a potential genomic biomarker of immunotherapy. However, TMB detected through whole exome sequencing lacks clinical penetration in low-resource settings. In this study, we proposed a multi-scale deep…

Computer Vision and Pattern Recognition · Computer Science 2023-05-30 Siteng Chen , Jinxi Xiang , Xiyue Wang , Jun Zhang , Sen Yang , Junzhou Huang , Wei Yang , Junhua Zheng , Xiao Han

Quantum computing, leveraging principles of quantum mechanics, represents a transformative approach in computational methodologies, offering significant enhancements over traditional classical systems. This study tackles the complex and…

Quantum Physics · Physics 2024-05-21 Mohammadreza Soltaninia , Junpeng Zhan

Alterations in nuclear morphology are useful adjuncts and even diagnostic tools used by pathologists in the diagnosis and grading of many tumors, particularly malignant tumors. Large datasets such as TCGA and the Human Protein Atlas, in…

Quantitative Methods · Quantitative Biology 2023-02-06 Mohammad Shifat E Rabbi , Natasha Ironside , John A Ozolek , Rajendra Singh , Liron Pantanowitz , Gustavo K Rohde

Dementia is a devastating condition with profound implications for individuals, families, and healthcare systems. Early and accurate detection of dementia is critical for timely intervention and improved patient outcomes. While classical…

Quantum Physics · Physics 2025-07-18 Sounak Bhowmik , Talita Perciano , Himanshu Thapliyal

In recent years, deep learning has shown great promise in the automated detection and classification of brain tumors from MRI images. However, achieving high accuracy and computational efficiency remains a challenge. In this research, we…

Image and Video Processing · Electrical Eng. & Systems 2025-07-10 Daniel Onah , Ravish Desai

The Cancer Genome Atlas (TCGA) has enabled novel discoveries and served as a large-scale reference dataset in cancer through its harmonized genomics, clinical, and imaging data. Numerous prior studies have developed bespoke deep learning…

Machine Learning · Computer Science 2026-05-11 Steven Song , Morgan Borjigin-Wang , Irene Madejski , Robert L. Grossman

Artificial intelligence methods including deep neural networks (DNN) can provide rapid molecular classification of tumors from routine histology with accuracy that matches or exceeds human pathologists. Discerning how neural networks make…

Current clinical decision-making in oncology relies on averages of large patient populations to both assess tumor status and treatment outcomes. However, cancers exhibit an inherent evolving heterogeneity that requires an individual…

Large machine learning models based on Convolutional Neural Networks (CNNs) with rapidly increasing number of parameters, trained with massive amounts of data, are being deployed in a wide array of computer vision tasks from self-driving…

Computer Vision and Pattern Recognition · Computer Science 2021-10-14 Rishab Parthasarathy , Rohan Bhowmik

GBM is a highly aggressive primary malignancy in adults, necessitating personalized therapeutic strategies due to its inherent molecular heterogeneity. MGMT promoter methylation is a pivotal prognostic biomarker for anticipating response to…

Quantum Physics · Physics 2026-04-28 Emine Akpinar , Murat Oduncuoglu

In this work, we propose a multi-modal Convolutional Neural Network (CNN) approach for brain tumor segmentation. We investigate how to combine different modalities efficiently in the CNN framework.We adapt various fusion methods, which are…

Computer Vision and Pattern Recognition · Computer Science 2018-09-21 Mehmet Aygün , Yusuf Hüseyin Şahin , Gözde Ünal

Computing dynamical distributions in quantum many-body systems represents one of the paradigmatic open problems in theoretical condensed matter physics. Despite the existence of different techniques both in real-time and frequency space,…

Disordered Systems and Neural Networks · Physics 2021-08-04 Rouven Koch , Jose L. Lado

Quantum machine learning has emerged as a promising approach to improve feature extraction and classification tasks in high-dimensional data domains such as medical imaging. In this work, we present a hybrid Quantum-Classical Convolutional…

Quantum Physics · Physics 2026-05-12 Ece Yurtseven