Jun Ding

Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 34

Top Venues

Nature immunology

Nature

Nature communications

Communications biology

Carnegie Mellon University

University of Central Florida (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Carnegie Mellon University May 09 2016

United States

Postdoc Fellow :: Computational Biology

University of Central Florida Aug 25 2010 - Apr 01 2016

United States

Research Assistant :: Computer Science

Education History

University of Central Florida Aug 23 2010 - May 07 2016

United States

PHD :: Computer Science

University of Science and Technology of China Sep 01 2007 - Jun 01 2010

China

MSC :: Electrical Engineering

Hefei University of Technology Sep 01 2003 - Jun 01 2007

China

BSC :: Electrical Engineering

Publications

Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology 25 (3) (2024)
Yingfu Wu, Zhenqi Shi, Xiangfei Zhou, Pengyu Zhang, Xiuhui Yang, Jun Ding, Hao Wu
scHiCyclePred: a deep learning framework for predicting cell cycle phases from single-cell Hi-C data using multi-scale interaction information. Communications biology 7 (1) (2024)
Yingfu Wu, Zhenqi Shi, Xiangfei Zhou, Pengyu Zhang, Xiuhui Yang, Jun Ding, Hao Wu
scHiCyclePred: a deep learning framework for predicting cell cycle phases from single-cell Hi-C data using multi-scale interaction information. Communications biology 7 (1) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology 25 (3) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
Author Correction: BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology (2024)
Jingtao Wang, Gregory Joseph Fonseca, Jun Ding
scSemiProfiler: Advancing large-scale single-cell studies through semi-profiling with deep generative models and active learning. Nature communications 15 (1) (2024)
Yingfu Wu, Zhenqi Shi, Xiangfei Zhou, Pengyu Zhang, Xiuhui Yang, Jun Ding, Hao Wu
scHiCyclePred: a deep learning framework for predicting cell cycle phases from single-cell Hi-C data using multi-scale interaction information. Communications biology 7 (1) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology 25 (3) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology (2024)
Jingtao Wang, Gregory Joseph Fonseca, Jun Ding
scSemiProfiler: Advancing large-scale single-cell studies through semi-profiling with deep generative models and active learning. Nature communications 15 (1) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology 25 (3) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology (2024)
Jingtao Wang, Gregory Joseph Fonseca, Jun Ding
scSemiProfiler: Advancing large-scale single-cell studies through semi-profiling with deep generative models and active learning. Nature communications 15 (1) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology 25 (3) (2024)
Kim A Tran, Erwan Pernet, Mina Sadeghi, Jeffrey Downey, Julia Chronopoulos, Elizabeth Lapshina, Oscar Tsai, Eva Kaufmann, Jun Ding, Maziar Divangahi
Author Correction: BCG immunization induces CX3CR1 hi effector memory T cells to provide cross-protection via IFN-γ-mediated trained immunity. Nature immunology (2024)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature 614 (7948) (2023)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature (2023)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature 614 (7948) (2023)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature 614 (7948) (2023)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature 614 (7948) (2023)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature 614 (7948) (2023)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature (2023)
Erwan Pernet, Sarah Sun, Nicole Sarden, Saideep Gona, Angela P Nguyen, Nargis Khan, Martin Mawhinney, Kim A Tran, Julia Chronopoulos, Dnyandeo Amberkar, Mina Sadeghi, Alexandre Grant, Shradha Wali, Renaud Prevel, Jun Ding, James G Martin, Ajitha Thanabalasuriar, Bryan G Yipp, Luis B Barreiro, Maziar Divangahi
Neonatal imprinting of alveolar macrophages via neutrophil-derived 12-HETE. Nature (2023)
Dongshunyi Li, Jun Ding, Ziv Bar-Joseph
Unsupervised cell functional annotation for single-cell RNA-seq. Genome research (2022)
Euxhen Hasanaj, Jingtao Wang, Arjun Sarathi, Jun Ding, Ziv Bar-Joseph
Interactive single-cell data analysis using Cellar. Nature communications 13 (1) (2022)
Dongshunyi Li, Jun Ding, Ziv Bar-Joseph
Identifying signaling genes in spatial single-cell expression data. Bioinformatics (Oxford, England) 37 (7) (2021)
Chieh Lin, Jun Ding, Ziv Bar-Joseph
Inferring TF activation order in time series scRNA-Seq studies. PLoS computational biology 16 (2) (2020)
Noof Aloufi, Hussein Traboulsi, Jun Ding, Gregory J Fonseca, Parameswaran Nair, Steven K Huang, Sabah N A Hussain, David H Eidelman, Carolyn J Baglole
Angiotensin-converting enzyme 2 expression in COPD and IPF fibroblasts: the forgotten cell in COVID-19. American journal of physiology. Lung cellular and molecular physiology 320 (1) (2020)
Jun Ding, Farida Ahangari, Celia R Espinoza, Divya Chhabra, Teodora Nicola, Xiting Yan, Charitharth V Lal, James S Hagood, Naftali Kaminski, Ziv Bar-Joseph, Namasivayam Ambalavanan
Integrating multiomics longitudinal data to reconstruct networks underlying lung development. American journal of physiology. Lung cellular and molecular physiology 317 (5) (2019)
Jun Ding, Bruce J Aronow, Naftali Kaminski, Joseph Kitzmiller, Jeffrey A Whitsett, Ziv Bar-Joseph
Reconstructing differentiation networks and their regulation from time series single-cell expression data. Genome research (2018)
Jun Ding, James S Hagood, Namasivayam Ambalavanan, Naftali Kaminski, Ziv Bar-Joseph
iDREM: Interactive visualization of dynamic regulatory networks. PLoS computational biology 14 (3) (2018)

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Publication Activity (10 Years)

Top Topics

Top Venues

Jun Ding