Search Results for author: Farzad Khalvati

Found 45 papers, 2 papers with code

Edge-Enhanced Dilated Residual Attention Network for Multimodal Medical Image Fusion

1 code implementation18 Nov 2024 Meng Zhou, Yuxuan Zhang, Xiaolan Xu, Jiayi Wang, Farzad Khalvati

Multimodal medical image fusion is a crucial task that combines complementary information from different imaging modalities into a unified representation, thereby enhancing diagnostic accuracy and treatment planning.

Brain Tumor Classification

Tumor Location-weighted MRI-Report Contrastive Learning: A Framework for Improving the Explainability of Pediatric Brain Tumor Diagnosis

no code implementations1 Nov 2024 Sara Ketabi, Matthias W. Wagner, Cynthia Hawkins, Uri Tabori, Birgit Betina Ertl-Wagner, Farzad Khalvati

Despite the promising performance of convolutional neural networks (CNNs) in brain tumor diagnosis from magnetic resonance imaging (MRI), their integration into the clinical workflow has been limited.

Contrastive Learning Tumor Segmentation

Opportunities for Persian Digital Humanities Research with Artificial Intelligence Language Models; Case Study: Forough Farrokhzad

no code implementations10 May 2024 Arash Rasti Meymandi, Zahra Hosseini, Sina Davari, Abolfazl Moshiri, Shabnam Rahimi-Golkhandan, Khashayar Namdar, Nikta Feizi, Mohamad Tavakoli-Targhi, Farzad Khalvati

This study explores the integration of advanced Natural Language Processing (NLP) and Artificial Intelligence (AI) techniques to analyze and interpret Persian literature, focusing on the poetry of Forough Farrokhzad.

Improving Pediatric Low-Grade Neuroepithelial Tumors Molecular Subtype Identification Using a Novel AUROC Loss Function for Convolutional Neural Networks

no code implementations5 Feb 2024 Khashayar Namdar, Matthias W. Wagner, Cynthia Hawkins, Uri Tabori, Birgit B. Ertl-Wagner, Farzad Khalvati

The baseline model was trained using binary cross entropy (BCE), and achieved an AUROC of 86. 11% for differentiating BRAF fusion and BRAF V600E mutations, which was improved to 87. 71% using our proposed AUROC loss function (p-value 0. 045).

Generating 3D Brain Tumor Regions in MRI using Vector-Quantization Generative Adversarial Networks

no code implementations2 Oct 2023 Meng Zhou, Matthias W Wagner, Uri Tabori, Cynthia Hawkins, Birgit B Ertl-Wagner, Farzad Khalvati

Research on deep learning-based brain tumor classification using MRI has shown that it is easier to classify the tumor ROIs compared to the entire image volumes.

Brain Tumor Classification Brain Tumor Segmentation +3

Using Large Text-to-Image Models with Structured Prompts for Skin Disease Identification: A Case Study

no code implementations17 Jan 2023 Sajith Rajapaksa, Jean Marie Uwabeza Vianney, Renell Castro, Farzad Khalvati, Shubhra Aich

This paper investigates the potential usage of large text-to-image (LTI) models for the automated diagnosis of a few skin conditions with rarity or a serious lack of annotated datasets.

Non-invasive Liver Fibrosis Screening on CT Images using Radiomics

no code implementations25 Nov 2022 Jay J. Yoo, Khashayar Namdar, Sean Carey, Sandra E. Fischer, Chris McIntosh, Farzad Khalvati, Patrik Rogalla

The combination of hyperparameters and features that yielded the highest AUC was a logistic regression model with inputs features of maximum, energy, kurtosis, skewness, and small area high gray level emphasis extracted from non-contrast enhanced NC CT normalized using Gamma correction with $\gamma$ = 1. 5 (AUC, 0. 7833; 95% CI: 0. 7821, 0. 7845), (sensitivity, 0. 9091; 95% CI: 0. 9091, 0. 9091).

feature selection regression

Introducing Vision Transformer for Alzheimer's Disease classification task with 3D input

no code implementations3 Oct 2022 Zilun Zhang, Farzad Khalvati

Many high-performance classification models utilize complex CNN-based architectures for Alzheimer's Disease classification.

Classification

Deep Superpixel Generation and Clustering for Weakly Supervised Segmentation of Brain Tumors in MR Images

no code implementations20 Sep 2022 Jay J. Yoo, Khashayar Namdar, Farzad Khalvati

Training machine learning models to segment tumors and other anomalies in medical images is an important step for developing diagnostic tools but generally requires manually annotated ground truth segmentations, which necessitates significant time and resources.

Binary Classification Brain Tumor Segmentation +5

Using Multi-modal Data for Improving Generalizability and Explainability of Disease Classification in Radiology

no code implementations29 Jul 2022 Pranav Agnihotri, Sara Ketabi, Khashayar, Namdar, Farzad Khalvati

Traditional datasets for the radiological diagnosis tend to only provide the radiology image alongside the radiology report.

Explainable Models

Open-radiomics: A Collection of Standardized Datasets and a Technical Protocol for Reproducible Radiomics Machine Learning Pipelines

no code implementations29 Jul 2022 Khashayar Namdar, Matthias W. Wagner, Birgit B. Ertl-Wagner, Farzad Khalvati

Using PyRadiomics library for LGG vs. HGG classification, 288 radiomics datasets are formed; the combinations of 4 MRI sequences, 3 binWidths, 6 image normalization methods, and 4 tumor subregions.

BIG-bench Machine Learning

Improving Disease Classification Performance and Explainability of Deep Learning Models in Radiology with Heatmap Generators

no code implementations28 Jun 2022 Akino Watanabe, Sara Ketabi, Khashayar, Namdar, Farzad Khalvati

The paper (A. Karargyris and Moradi, 2021) that introduced this dataset developed a U-Net model, which was treated as the baseline model for this research, to show how the eye-gaze data can be used in multi-modal training for explainability improvement.

Exploring COVID-19 Related Stressors Using Topic Modeling

no code implementations12 Jan 2022 Yue Tong Leung, Farzad Khalvati

This study aims to apply natural language processing (NLP) on social media data to identify the psychosocial stressors during COVID-19 pandemic, and to analyze the trend on prevalence of stressors at different stages of the pandemic.

Localized Perturbations For Weakly-Supervised Segmentation of Glioma Brain Tumours

no code implementations29 Nov 2021 Sajith Rajapaksa, Farzad Khalvati

Deep convolutional neural networks (CNNs) have become an essential tool in the medical imaging-based computer-aided diagnostic pipeline.

3D Classification Superpixels +1

Vanishing Twin GAN: How training a weak Generative Adversarial Network can improve semi-supervised image classification

no code implementations3 Mar 2021 Saman Motamed, Farzad Khalvati

By training a weak GAN and using its generated output image parallel to the regular GAN, the Vanishing Twin training improves semi-supervised image classification where image similarity can hurt classification tasks.

Classification General Classification +2

Multi-class Generative Adversarial Nets for Semi-supervised Image Classification

no code implementations13 Feb 2021 Saman Motamed, Farzad Khalvati

We propose a modification to the traditional training of GANs that allows for improved multi-class classification in similar classes of images in a semi-supervised learning framework.

Classification Domain Adaptation +3

A Transfer Learning Based Active Learning Framework for Brain Tumor Classification

no code implementations16 Nov 2020 Ruqian Hao, Khashayar Namdar, Lin Liu, Farzad Khalvati

The model achieved AUC of 82% compared with AUC of 78. 48% for the baseline, which reassures the robustness and stability of our proposed transfer learning augmented with active learning framework while significantly reducing the size of training data.

Active Learning Brain Tumor Classification +2

RANDGAN: Randomized Generative Adversarial Network for Detection of COVID-19 in Chest X-ray

1 code implementation6 Oct 2020 Saman Motamed, Patrik Rogalla, Farzad Khalvati

Gathering labeled data is a cumbersome task and requires time and resources which could further strain health care systems and radiologists at the early stages of a pandemic such as COVID-19.

Anomaly Detection COVID-19 Diagnosis +3

Evaluating Knowledge Transfer in Neural Network for Medical Images

no code implementations31 Aug 2020 Sina Akbarian, Laleh Seyyed-Kalantari, Farzad Khalvati, Elham Dolatabadi

To address this issue, we propose a teacher-student learning framework to transfer knowledge from a carefully pre-trained convolutional neural network (CNN) teacher to a student CNN.

Transfer Learning

A Brief Review of Deep Multi-task Learning and Auxiliary Task Learning

no code implementations2 Jul 2020 Partoo Vafaeikia, Khashayar Namdar, Farzad Khalvati

Multi-task learning (MTL) optimizes several learning tasks simultaneously and leverages their shared information to improve generalization and the prediction of the model for each task.

Multi-Task Learning

A Modified AUC for Training Convolutional Neural Networks: Taking Confidence into Account

no code implementations8 Jun 2020 Khashayar Namdar, Masoom A. Haider, Farzad Khalvati

Receiver operating characteristic (ROC) curve is an informative tool in binary classification and Area Under ROC Curve (AUC) is a popular metric for reporting performance of binary classifiers.

Binary Classification General Classification +1

A Comprehensive Study of Data Augmentation Strategies for Prostate Cancer Detection in Diffusion-weighted MRI using Convolutional Neural Networks

no code implementations1 Jun 2020 Ruqian Hao, Khashayar Namdar, Lin Liu, Masoom A. Haider, Farzad Khalvati

Data augmentation refers to a group of techniques whose goal is to battle limited amount of available data to improve model generalization and push sample distribution toward the true distribution.

Data Augmentation

Evolution-based Fine-tuning of CNNs for Prostate Cancer Detection

no code implementations4 Nov 2019 Khashayar Namdar, Isha Gujrathi, Masoom A. Haider, Farzad Khalvati

Convolutional Neural Networks (CNNs) have been used for automated detection of prostate cancer where Area Under Receiver Operating Characteristic (ROC) curve (AUC) is usually used as the performance metric.

A Transfer Learning Approach for Automated Segmentation of Prostate Whole Gland and Transition Zone in Diffusion Weighted MRI

no code implementations20 Sep 2019 Saman Motamed, Isha Gujrathi, Dominik Deniffel, Anton Oentoro, Masoom A. Haider, Farzad Khalvati

Using a fine-tuning data of 115 patients from the target domain, dice score coefficient of 0. 85 and 0. 84 are achieved for segmentation of whole gland and transition zone, respectively, in the target domain.

Medical Image Analysis Segmentation +1

Improving Prognostic Performance in Resectable Pancreatic Ductal Adenocarcinoma using Radiomics and Deep Learning Features Fusion in CT Images

no code implementations10 Jul 2019 Yucheng Zhang, Edrise M. Lobo-Mueller, Paul Karanicolas, Steven Gallinger, Masoom A. Haider, Farzad Khalvati

It was shown that the proposed feature fusion method significantly improves the prognosis performance for overall survival in resectable PDAC cohorts, elevating the area under ROC curve by 51% compared to predefined radiomics features alone, by 16% compared to deep learning features alone, and by 32% compared to existing feature fusion and reduction methods for a combination of deep learning and predefined radiomics features.

Deep Learning

CNN-based Survival Model for Pancreatic Ductal Adenocarcinoma in Medical Imaging

no code implementations25 Jun 2019 Yucheng Zhang, Edrise M. Lobo-Mueller, Paul Karanicolas, Steven Gallinger, Masoom A. Haider, Farzad Khalvati

The proposed CNN-based survival model outperformed the traditional CPH-based radiomics approach in terms of concordance index by 22%, providing a better fit for patients' survival patterns.

Survival Analysis Transfer Learning

Prostate Cancer Detection using Deep Convolutional Neural Networks

no code implementations30 May 2019 Sunghwan Yoo, Isha Gujrathi, Masoom A. Haider, Farzad Khalvati

As an integrated part of computer-aided detection (CAD) tools, diffusion-weighted magnetic resonance imaging (DWI) has been intensively studied for accurate detection of prostate cancer.

object-detection Object Detection

Prognostic Value of Transfer Learning Based Features in Resectable Pancreatic Ductal Adenocarcinoma

no code implementations23 May 2019 Yucheng Zhang, Edrise M. Lobo-Mueller, Paul Karanicolas, Steven Gallinger, Masoom A. Haider, Farzad Khalvati

The proposed deep transfer learning model for prognostication of PDAC achieved the area under the receiver operating characteristic curve of 0. 74, which was significantly higher than that of the traditional radiomics model (0. 56) as well as a CNN model trained from scratch (0. 50).

Object Detection Transfer Learning

ProstateGAN: Mitigating Data Bias via Prostate Diffusion Imaging Synthesis with Generative Adversarial Networks

no code implementations14 Nov 2018 Xiaodan Hu, Audrey G. Chung, Paul Fieguth, Farzad Khalvati, Masoom A. Haider, Alexander Wong

Generative Adversarial Networks (GANs) have shown considerable promise for mitigating the challenge of data scarcity when building machine learning-driven analysis algorithms.

Data Augmentation Image Generation +1

Discovery Radiomics via Evolutionary Deep Radiomic Sequencer Discovery for Pathologically-Proven Lung Cancer Detection

no code implementations10 May 2017 Mohammad Javad Shafiee, Audrey G. Chung, Farzad Khalvati, Masoom A. Haider, Alexander Wong

We evaluated the evolved deep radiomic sequencer (EDRS) discovered via the proposed evolutionary deep radiomic sequencer discovery framework against state-of-the-art radiomics-driven and discovery radiomics methods using clinical lung CT data with pathologically-proven diagnostic data from the LIDC-IDRI dataset.

Descriptive Specificity

Noise-Compensated, Bias-Corrected Diffusion Weighted Endorectal Magnetic Resonance Imaging via a Stochastically Fully-Connected Joint Conditional Random Field Model

no code implementations15 Dec 2015 Ameneh Boroomand, Mohammad Javad Shafiee, Farzad Khalvati, Masoom A. Haider, Alexander Wong

Retrospective bias correction approaches are introduced as a more efficient way of bias correction compared to the prospective methods such that they correct for both of the scanner and anatomy-related bias fields in MR imaging.

Anatomy

Discovery Radiomics via StochasticNet Sequencers for Cancer Detection

no code implementations11 Nov 2015 Mohammad Javad Shafiee, Audrey G. Chung, Devinder Kumar, Farzad Khalvati, Masoom Haider, Alexander Wong

In this study, we introduce a novel discovery radiomics framework where we directly discover custom radiomic features from the wealth of available medical imaging data.

Binary Classification

Medical Image Classification via SVM using LBP Features from Saliency-Based Folded Data

no code implementations15 Sep 2015 Zehra Camlica, H. R. Tizhoosh, Farzad Khalvati

Good results on image classification and retrieval using support vector machines (SVM) with local binary patterns (LBPs) as features have been extensively reported in the literature where an entire image is retrieved or classified.

General Classification Image Classification +4

Discovery Radiomics for Multi-Parametric MRI Prostate Cancer Detection

no code implementations1 Sep 2015 Audrey G. Chung, Mohammad Javad Shafiee, Devinder Kumar, Farzad Khalvati, Masoom A. Haider, Alexander Wong

In this study, we propose a novel \textit{discovery radiomics} framework for generating custom radiomic sequences tailored for prostate cancer detection.

Discovery Radiomics for Pathologically-Proven Computed Tomography Lung Cancer Prediction

no code implementations1 Sep 2015 Devinder Kumar, Mohammad Javad Shafiee, Audrey G. Chung, Farzad Khalvati, Masoom A. Haider, Alexander Wong

In this study, we take the idea of radiomics one step further by introducing the concept of discovery radiomics for lung cancer prediction using CT imaging data.

Specificity

Autoencoding the Retrieval Relevance of Medical Images

no code implementations5 Jul 2015 Zehra Camlica, H. R. Tizhoosh, Farzad Khalvati

Content-based image retrieval (CBIR) of medical images is a crucial task that can contribute to a more reliable diagnosis if applied to big data.

Content-Based Image Retrieval Retrieval

Evolving Fuzzy Image Segmentation with Self-Configuration

no code implementations23 Apr 2015 Ahmed Othman, Hamid. R. Tizhoosh, Farzad Khalvati

However, EFIS suffers from a few limitations when used in practice mainly due to some fixed parameters.

feature selection Image Segmentation +2

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