Yixi Xu

Rapid and accurate prediction of protein homo-oligomer symmetry using Seq2Symm

Meghana Kshirsagar, Artur Meller, Ian R. Humphreys, Samuel Sledzieski, Yixi Xu, Rahul Dodhia, Eric Horvitz, Bonnie Berger, Gregory R. Bowman, Juan M. Lavista Ferres, David Baker, Minkyung Baek

Nature Communications | February 2025

Publication PDF Project

Towards an automated Segment Anything Model (SAM) for lesion segmentation in oncological PET/CT images

S. Ahamed, Yixi Xu, Rahul Dodhia, Bill Weeks, Juan M. Lavista Ferres, A. Rahmim

2023 IEEE Nuclear Science Symposium | December 2023

Publication DOI Project

Comprehensive Evaluation and Insights into the Use of Deep Neural Networks to Detect and Quantify Lymphoma Lesions in PET/CT Images

Shadab Ahamed, Yixi Xu, C. Gowdy, O. JooH., I. Bloise, Don Wilson, Patrick Martineau, François Bénard, F. Yousefirizi, Rahul Dodhia, Juan M. Lavista Ferres, Bill Weeks, Carlos F. Uribe, Arman Rahmim

November 2023

DOI Publication Github

Evaluating the Generalizability of Deep Learning Image Classification Algorithms to Detect Middle Ear Disease Using Otoscopy

Al-Rahim Habib, Yixi Xu, Kris Bock, Shrestha Mohanty, Tina Sederholm, Bill Weeks, Rahul Dodhia, Juan M. Lavista Ferres, Chris Perry, Raymond Sacks, Narinder Singh

Scientific Reports | April 2023

Publication Project

Automatic segmentation of prostate cancer metastases in PSMA PET/CT images using deep neural networks with weighted batch-wise dice loss

Yixi Xu, Ivan Klyuzhin, Sara Harsini, Anthony Ortiz, Shun Zhang, François Bénard, Rahul Dodhia, Carlos F. Uribe, Arman Rahmim , Juan M. Lavista Ferres

Computers in Biology and Medicine | April 2023

Publication DOI Project Project

A slice classification neural network for automated classification of axial PET/CT slices from a multi-centric lymphoma dataset

Shadab Ahamed, Yixi Xu, Ingrid Bloise, Joo H. O., Carlos F. Uribe, Rahul Dodhia, Juan M. Lavista Ferres, Arman Rahmim

Medical Imaging 2023 | April 2023

Publication Project

Identifying long-term effects of SARS-CoV-2 and their association with social determinants of health in a cohort of over one million COVID-19 survivors

Sumit Mukherjee, Meghana Kshirsagar, Nicholas Becker, Yixi Xu, Bill Weeks, Shwetak Patel, Juan M. Lavista Ferres, Michael L. Jackson

BMC Public Health | December 2022

Publication PDF Project Project

MACE: A Flexible Framework for Membership Privacy Estimation in Generative Models

Yixi Xu, Sumit Mukherjee, Xiyang Liu, Shruti Tople, Rahul Dodhia, Juan M. Lavista Ferres

Transactions on Machine Learning Research (TMLR) | October 2022

Publication Project Project

Machine Learning-based Derivation and External Validation of a Tool to Predict Death and Development of Organ Failure in Hospitalized Patients with COVID-19

Yixi Xu, Anusua Trivedi, Nicholas Becker, Marian Blazes, Juan M. Lavista Ferres, Dr. Aaron Lee, W Liles, Dr. Pavan Bhatraju

Scientific Reports | October 2022

Publication PDF Project Project

Testing the Ability of Convolutional Neural Networks to Learn Radiomic Features

Ivan S. Klyuzhin, Juan M. Lavista Ferres, Yixi Xu, Anthony Ortiz, Ghassan Hamarneh, Arman Rahmim

ScienceDirect | June 2022

Publication Project

Reimagining Leprosy Elimination with AI Analysis of a Combination of Skin Lesion Images with Demographic and Clinical Data

Raquel R Barbieri, Yixi Xu, Lucy Setian, Paulo Thiago Souza-Santos, Anusua Trivedi, Jim Cristofono, Ricardo Bhering, Kevin White, Anna M Sales, Geralyn Miller, José Augusto C Nery, Michael Sharman, Richard Bumann, Shun Zhang, Mohamad Goldust, Euzenir N Sarno, Fareed Mirza, Arielle Cavaliero, Sander Timmer, Elena Bonfiglioli, Cairns Smith, David Scollard, Alexander A Navarini, Ann Aerts, Juan M. Lavista Ferres, Milton O Moraes

Science Direct | January 2022

Publication PDF Project Project

Unsupervised Background Removal by Dual-Modality PET/CT Guidance: Application to PSMA Imaging of Metastases

Ivan Klyuzhin, Yixi Xu, Sara Harsini, Anthony Ortiz, Carlos Uribe, Juan M. Lavista Ferres, Arman Rahmim

Journal of Nuclear Medicine | May 2021

Publication Project

Becoming Good at AI for Good

Meghana Kshirsagar, Siyu Yang, Caleb Robinson, Shahrzad Gholami, Ivan Klyuzhin, Sumit Mukherjee, Md Nasir, Anthony Ortiz, Felipe Oviedo, Darren Tanner, Anusua Trivedi, Yixi Xu, Ming Zhong, Bistra Dilkina, Rahul Dodhia, Juan M. Lavista Ferres

AAAI/ACM Conference on AI, Ethics, and Society (AIES'21) | April 2021

Publication

privGAN: Protecting GANs from membership inference attacks at low cost

Sumit Mukherjee, Yixi Xu, Anusua Trivedi, Juan M. Lavista Ferres

May 2020

Under major revision at PETS

Publication

Rapid and accurate prediction of protein homo-oligomer symmetry using Seq2Symm

Meghana Kshirsagar, Artur Meller, Ian R. Humphreys, Samuel Sledzieski, Yixi Xu, Rahul Dodhia, Eric Horvitz, Bonnie Berger, Gregory R. Bowman, Juan M. Lavista Ferres, David Baker, Minkyung Baek

Nature Communications | February 2025

Publication PDF Project

Towards an automated Segment Anything Model (SAM) for lesion segmentation in oncological PET/CT images

S. Ahamed, Yixi Xu, Rahul Dodhia, Bill Weeks, Juan M. Lavista Ferres, A. Rahmim

2023 IEEE Nuclear Science Symposium | December 2023

Publication DOI Project

Comprehensive Evaluation and Insights into the Use of Deep Neural Networks to Detect and Quantify Lymphoma Lesions in PET/CT Images

Shadab Ahamed, Yixi Xu, C. Gowdy, O. JooH., I. Bloise, Don Wilson, Patrick Martineau, François Bénard, F. Yousefirizi, Rahul Dodhia, Juan M. Lavista Ferres, Bill Weeks, Carlos F. Uribe, Arman Rahmim

November 2023

DOI Publication Github

Evaluating the Generalizability of Deep Learning Image Classification Algorithms to Detect Middle Ear Disease Using Otoscopy

Al-Rahim Habib, Yixi Xu, Kris Bock, Shrestha Mohanty, Tina Sederholm, Bill Weeks, Rahul Dodhia, Juan M. Lavista Ferres, Chris Perry, Raymond Sacks, Narinder Singh

Scientific Reports | April 2023

Publication Project

Automatic segmentation of prostate cancer metastases in PSMA PET/CT images using deep neural networks with weighted batch-wise dice loss

Yixi Xu, Ivan Klyuzhin, Sara Harsini, Anthony Ortiz, Shun Zhang, François Bénard, Rahul Dodhia, Carlos F. Uribe, Arman Rahmim , Juan M. Lavista Ferres

Computers in Biology and Medicine | April 2023

Publication DOI Project Project

A slice classification neural network for automated classification of axial PET/CT slices from a multi-centric lymphoma dataset

Shadab Ahamed, Yixi Xu, Ingrid Bloise, Joo H. O., Carlos F. Uribe, Rahul Dodhia, Juan M. Lavista Ferres, Arman Rahmim

Medical Imaging 2023 | April 2023

Publication Project

MACE: A Flexible Framework for Membership Privacy Estimation in Generative Models

Yixi Xu, Sumit Mukherjee, Xiyang Liu, Shruti Tople, Rahul Dodhia, Juan M. Lavista Ferres

Transactions on Machine Learning Research (TMLR) | October 2022

Publication Project Project

Testing the Ability of Convolutional Neural Networks to Learn Radiomic Features

Ivan S. Klyuzhin, Juan M. Lavista Ferres, Yixi Xu, Anthony Ortiz, Ghassan Hamarneh, Arman Rahmim

ScienceDirect | June 2022

Publication Project

Unsupervised Background Removal by Dual-Modality PET/CT Guidance: Application to PSMA Imaging of Metastases

Ivan Klyuzhin, Yixi Xu, Sara Harsini, Anthony Ortiz, Carlos Uribe, Juan M. Lavista Ferres, Arman Rahmim

Journal of Nuclear Medicine | May 2021

Publication Project

Becoming Good at AI for Good

Meghana Kshirsagar, Siyu Yang, Caleb Robinson, Shahrzad Gholami, Ivan Klyuzhin, Sumit Mukherjee, Md Nasir, Anthony Ortiz, Felipe Oviedo, Darren Tanner, Anusua Trivedi, Yixi Xu, Ming Zhong, Bistra Dilkina, Rahul Dodhia, Juan M. Lavista Ferres

AAAI/ACM Conference on AI, Ethics, and Society (AIES'21) | April 2021

Publication

privGAN: Protecting GANs from membership inference attacks at low cost

Sumit Mukherjee, Yixi Xu, Anusua Trivedi, Juan M. Lavista Ferres

May 2020

Under major revision at PETS

Publication

Rapid and accurate prediction of protein homo-oligomer symmetry using Seq2Symm

Meghana Kshirsagar, Artur Meller, Ian R. Humphreys, Samuel Sledzieski, Yixi Xu, Rahul Dodhia, Eric Horvitz, Bonnie Berger, Gregory R. Bowman, Juan M. Lavista Ferres, David Baker, Minkyung Baek

Nature Communications | February 2025

Publication PDF Project

Towards an automated Segment Anything Model (SAM) for lesion segmentation in oncological PET/CT images

S. Ahamed, Yixi Xu, Rahul Dodhia, Bill Weeks, Juan M. Lavista Ferres, A. Rahmim

2023 IEEE Nuclear Science Symposium | December 2023

Publication DOI Project

Comprehensive Evaluation and Insights into the Use of Deep Neural Networks to Detect and Quantify Lymphoma Lesions in PET/CT Images

Shadab Ahamed, Yixi Xu, C. Gowdy, O. JooH., I. Bloise, Don Wilson, Patrick Martineau, François Bénard, F. Yousefirizi, Rahul Dodhia, Juan M. Lavista Ferres, Bill Weeks, Carlos F. Uribe, Arman Rahmim

November 2023

DOI Publication Github

Evaluating the Generalizability of Deep Learning Image Classification Algorithms to Detect Middle Ear Disease Using Otoscopy

Al-Rahim Habib, Yixi Xu, Kris Bock, Shrestha Mohanty, Tina Sederholm, Bill Weeks, Rahul Dodhia, Juan M. Lavista Ferres, Chris Perry, Raymond Sacks, Narinder Singh

Scientific Reports | April 2023

Publication Project

Automatic segmentation of prostate cancer metastases in PSMA PET/CT images using deep neural networks with weighted batch-wise dice loss

Yixi Xu, Ivan Klyuzhin, Sara Harsini, Anthony Ortiz, Shun Zhang, François Bénard, Rahul Dodhia, Carlos F. Uribe, Arman Rahmim , Juan M. Lavista Ferres

Computers in Biology and Medicine | April 2023

Publication DOI Project Project

A slice classification neural network for automated classification of axial PET/CT slices from a multi-centric lymphoma dataset

Shadab Ahamed, Yixi Xu, Ingrid Bloise, Joo H. O., Carlos F. Uribe, Rahul Dodhia, Juan M. Lavista Ferres, Arman Rahmim

Medical Imaging 2023 | April 2023

Publication Project

Identifying long-term effects of SARS-CoV-2 and their association with social determinants of health in a cohort of over one million COVID-19 survivors

Sumit Mukherjee, Meghana Kshirsagar, Nicholas Becker, Yixi Xu, Bill Weeks, Shwetak Patel, Juan M. Lavista Ferres, Michael L. Jackson

BMC Public Health | December 2022

Publication PDF Project Project

Machine Learning-based Derivation and External Validation of a Tool to Predict Death and Development of Organ Failure in Hospitalized Patients with COVID-19

Yixi Xu, Anusua Trivedi, Nicholas Becker, Marian Blazes, Juan M. Lavista Ferres, Dr. Aaron Lee, W Liles, Dr. Pavan Bhatraju

Scientific Reports | October 2022

Publication PDF Project Project

Testing the Ability of Convolutional Neural Networks to Learn Radiomic Features

Ivan S. Klyuzhin, Juan M. Lavista Ferres, Yixi Xu, Anthony Ortiz, Ghassan Hamarneh, Arman Rahmim

ScienceDirect | June 2022

Publication Project

Reimagining Leprosy Elimination with AI Analysis of a Combination of Skin Lesion Images with Demographic and Clinical Data

Raquel R Barbieri, Yixi Xu, Lucy Setian, Paulo Thiago Souza-Santos, Anusua Trivedi, Jim Cristofono, Ricardo Bhering, Kevin White, Anna M Sales, Geralyn Miller, José Augusto C Nery, Michael Sharman, Richard Bumann, Shun Zhang, Mohamad Goldust, Euzenir N Sarno, Fareed Mirza, Arielle Cavaliero, Sander Timmer, Elena Bonfiglioli, Cairns Smith, David Scollard, Alexander A Navarini, Ann Aerts, Juan M. Lavista Ferres, Milton O Moraes

Science Direct | January 2022

Publication PDF Project Project

Unsupervised Background Removal by Dual-Modality PET/CT Guidance: Application to PSMA Imaging of Metastases

Ivan Klyuzhin, Yixi Xu, Sara Harsini, Anthony Ortiz, Carlos Uribe, Juan M. Lavista Ferres, Arman Rahmim

Journal of Nuclear Medicine | May 2021

Publication Project

Comprehensive Evaluation and Insights into the Use of Deep Neural Networks to Detect and Quantify Lymphoma Lesions in PET/CT Images

Shadab Ahamed, Yixi Xu, C. Gowdy, O. JooH., I. Bloise, Don Wilson, Patrick Martineau, François Bénard, F. Yousefirizi, Rahul Dodhia, Juan M. Lavista Ferres, Bill Weeks, Carlos F. Uribe, Arman Rahmim

November 2023

DOI Publication Github

privGAN: Protecting GANs from membership inference attacks at low cost

Sumit Mukherjee, Yixi Xu, Anusua Trivedi, Juan M. Lavista Ferres

May 2020

Under major revision at PETS

Publication

MACE: A Flexible Framework for Membership Privacy Estimation in Generative Models

Yixi Xu, Sumit Mukherjee, Xiyang Liu, Shruti Tople, Rahul Dodhia, Juan M. Lavista Ferres

Transactions on Machine Learning Research (TMLR) | October 2022

Publication Project Project

privGAN: Protecting GANs from membership inference attacks at low cost

Sumit Mukherjee, Yixi Xu, Anusua Trivedi, Juan M. Lavista Ferres

May 2020

Under major revision at PETS

Publication

Rapid and accurate prediction of protein homo-oligomer symmetry using Seq2Symm

Meghana Kshirsagar, Artur Meller, Ian R. Humphreys, Samuel Sledzieski, Yixi Xu, Rahul Dodhia, Eric Horvitz, Bonnie Berger, Gregory R. Bowman, Juan M. Lavista Ferres, David Baker, Minkyung Baek

Nature Communications | February 2025

Publication PDF Project

Evaluating the Generalizability of Deep Learning Image Classification Algorithms to Detect Middle Ear Disease Using Otoscopy

Al-Rahim Habib, Yixi Xu, Kris Bock, Shrestha Mohanty, Tina Sederholm, Bill Weeks, Rahul Dodhia, Juan M. Lavista Ferres, Chris Perry, Raymond Sacks, Narinder Singh

Scientific Reports | April 2023

Publication Project

Automatic segmentation of prostate cancer metastases in PSMA PET/CT images using deep neural networks with weighted batch-wise dice loss

Yixi Xu, Ivan Klyuzhin, Sara Harsini, Anthony Ortiz, Shun Zhang, François Bénard, Rahul Dodhia, Carlos F. Uribe, Arman Rahmim , Juan M. Lavista Ferres

Computers in Biology and Medicine | April 2023

Publication DOI Project Project

A slice classification neural network for automated classification of axial PET/CT slices from a multi-centric lymphoma dataset

Shadab Ahamed, Yixi Xu, Ingrid Bloise, Joo H. O., Carlos F. Uribe, Rahul Dodhia, Juan M. Lavista Ferres, Arman Rahmim

Medical Imaging 2023 | April 2023

Publication Project

Identifying long-term effects of SARS-CoV-2 and their association with social determinants of health in a cohort of over one million COVID-19 survivors

Sumit Mukherjee, Meghana Kshirsagar, Nicholas Becker, Yixi Xu, Bill Weeks, Shwetak Patel, Juan M. Lavista Ferres, Michael L. Jackson

BMC Public Health | December 2022

Publication PDF Project Project

MACE: A Flexible Framework for Membership Privacy Estimation in Generative Models

Yixi Xu, Sumit Mukherjee, Xiyang Liu, Shruti Tople, Rahul Dodhia, Juan M. Lavista Ferres

Transactions on Machine Learning Research (TMLR) | October 2022

Publication Project Project

Machine Learning-based Derivation and External Validation of a Tool to Predict Death and Development of Organ Failure in Hospitalized Patients with COVID-19

Yixi Xu, Anusua Trivedi, Nicholas Becker, Marian Blazes, Juan M. Lavista Ferres, Dr. Aaron Lee, W Liles, Dr. Pavan Bhatraju

Scientific Reports | October 2022

Publication PDF Project Project

Testing the Ability of Convolutional Neural Networks to Learn Radiomic Features

Ivan S. Klyuzhin, Juan M. Lavista Ferres, Yixi Xu, Anthony Ortiz, Ghassan Hamarneh, Arman Rahmim

ScienceDirect | June 2022

Publication Project

Reimagining Leprosy Elimination with AI Analysis of a Combination of Skin Lesion Images with Demographic and Clinical Data

Raquel R Barbieri, Yixi Xu, Lucy Setian, Paulo Thiago Souza-Santos, Anusua Trivedi, Jim Cristofono, Ricardo Bhering, Kevin White, Anna M Sales, Geralyn Miller, José Augusto C Nery, Michael Sharman, Richard Bumann, Shun Zhang, Mohamad Goldust, Euzenir N Sarno, Fareed Mirza, Arielle Cavaliero, Sander Timmer, Elena Bonfiglioli, Cairns Smith, David Scollard, Alexander A Navarini, Ann Aerts, Juan M. Lavista Ferres, Milton O Moraes

Science Direct | January 2022

Publication PDF Project Project

Unsupervised Background Removal by Dual-Modality PET/CT Guidance: Application to PSMA Imaging of Metastases

Ivan Klyuzhin, Yixi Xu, Sara Harsini, Anthony Ortiz, Carlos Uribe, Juan M. Lavista Ferres, Arman Rahmim

Journal of Nuclear Medicine | May 2021

Publication Project

Comprehensive Evaluation and Insights into the Use of Deep Neural Networks to Detect and Quantify Lymphoma Lesions in PET/CT Images

Shadab Ahamed, Yixi Xu, C. Gowdy, O. JooH., I. Bloise, Don Wilson, Patrick Martineau, François Bénard, F. Yousefirizi, Rahul Dodhia, Juan M. Lavista Ferres, Bill Weeks, Carlos F. Uribe, Arman Rahmim

November 2023

DOI Publication Github

Towards an automated Segment Anything Model (SAM) for lesion segmentation in oncological PET/CT images

S. Ahamed, Yixi Xu, Rahul Dodhia, Bill Weeks, Juan M. Lavista Ferres, A. Rahmim

2023 IEEE Nuclear Science Symposium | December 2023

Publication DOI Project

Becoming Good at AI for Good

Meghana Kshirsagar, Siyu Yang, Caleb Robinson, Shahrzad Gholami, Ivan Klyuzhin, Sumit Mukherjee, Md Nasir, Anthony Ortiz, Felipe Oviedo, Darren Tanner, Anusua Trivedi, Yixi Xu, Ming Zhong, Bistra Dilkina, Rahul Dodhia, Juan M. Lavista Ferres

AAAI/ACM Conference on AI, Ethics, and Society (AIES'21) | April 2021

Publication

privGAN: Protecting GANs from membership inference attacks at low cost

Sumit Mukherjee, Yixi Xu, Anusua Trivedi, Juan M. Lavista Ferres

May 2020

Under major revision at PETS

Publication