Qin Ma

ResearcherID Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 94

Top Venues

Nature communications

Cancer research communications

Research square

Circulation research

The Ohio State University

Shandong University (PHD)

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

Affiliation History

The Ohio State University Jan 02 2019

United States

Associate Professor :: Biomedical Informatics

South Dakota State University - Dec 31 2018

United States

Assistant Professor :: Maths&Stats and AHPS

University of Georgia

United States

Research Scientist :: Biochemistry and molecular biology

University of Georgia Jan 01 2011

United States

Postdoc :: Biochemistry and Molecular Biology

Education History

Shandong University Sep 01 2005 - Oct 01 2010

China

PHD :: Operational Research

Publications

Caroline E Dravillas, Samuel S Coleman, Rebecca Hoyd, Griffin Caryotakis, Louis Denko, Carlos H F Chan, Michelle L Churchman, Nicholas C Denko, Rebecca D Dodd, Islam El Jilany, Sheetal Hardikar, Marium Husain, Alexandra P Ikeguchi, Ning Jin, Qin Ma, Martin D McCarter, Afaf E G Osman, Lary A Robinson, Eric A Singer, Gabriel Tinoco, Cornelia M Ulrich, Yousef Zakharia, Daniel J Spakowicz, Ahmad A Tarhini, Aik Choon Tan
The tumor microbiome as a predictor of outcomes in patients with metastatic melanoma treated with immune checkpoint inhibitors. Cancer research communications (2024)
Martin Benej, Rebecca Hoyd, McKenzie Kreamer, Caroline E Dravillas, Dennis J Grencewicz, Fouad Choueiry, Carlos H F Chan, Yousef Zakharia, Qin Ma, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Lary A Robinson, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Gabriel Tinoco, Marium Husain, Ning Jin, Aik Choon Tan, Afaf E G Osman, Islam El Jilany, Gregory M Riedlinger, Bryan Paul Schneider, Katarina Benejova, Martin Kery, Ioanna Papandreou, Jiangjiang Zhu, Nicholas C Denko, Daniel J Spakowicz
The tumor microbiome reacts to hypoxia and can influence response to radiation treatment in colorectal cancer. Cancer research communications (2024)
Rania Dagher, Aigul Moldobaeva, Elise Gubbins, Sydney Clark, Mia Madel Alfajaro, Craig B Wilen, Finn Hawkins, Xiaotao Qu, Chia Chien Chiang, Yang Li, Lori Clarke, Yasuhiro Ikeda, Charles Brown, Roland Kolbeck, Qin Ma, Mauricio Rojas, Jonathan L Koff, Mahboobe Ghaedi
Human iPSC-based model of COPD to investigate disease mechanisms, predict SARS-COV-2 outcome and test preventive immunotherapy. Stem cells (Dayton, Ohio) (2024)
Cankun Wang, Diana Acosta, Megan McNutt, Jiang Bian, Anjun Ma, Hongjun Fu, Qin Ma
A single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD). Nature communications 15 (1) (2024)
Qin Ma, Yi Jiang, Hao Cheng, Dong Xu
Harnessing the deep learning power of foundation models in single-cell omics. Nature reviews. Molecular cell biology 25 (8) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma, null null
A Bioinformatics Tool for Identifying Intratumoral Microbes from the ORIEN Dataset. Cancer research communications 4 (2) (2024)
Cankun Wang, Diana Acosta, Megan McNutt, Jiang Bian, Anjun Ma, Hongjun Fu, Qin Ma
A single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD). Nature communications 15 (1) (2024)
Xiaoying Wang, Maoteng Duan, Jingxian Li, Anjun Ma, Gang Xin, Dong Xu, Zihai Li, Bingqiang Liu, Qin Ma
MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer. Nature communications 15 (1) (2024)
Rania Dagher, Aigul Moldobaeva, Elise Gubbins, Sydney Clark, Mia Madel Alfajaro, Craig B Wilen, Finn Hawkins, Xiaotao Qu, Chia Chien Chiang, Yang Li, Lori Clarke, Yasuhiro Ikeda, Charles Brown, Roland Kolbeck, Qin Ma, Mauricio Rojas, Jonathan L Koff, Mahboobe Ghaedi
Human iPSC-Based Model of COPD to Investigate Disease Mechanisms, Predict SARS-COV-2 Outcome, and Test Preventive Immunotherapy. Stem cells (Dayton, Ohio) 42 (3) (2024)
Martin Benej, Rebecca Hoyd, McKenzie Kreamer, Caroline E Dravillas, Dennis J Grencewicz, Fouad Choueiry, Carlos H F Chan, Yousef Zakharia, Qin Ma, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Lary A Robinson, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Gabriel Tinoco, Marium Husain, Ning Jin, Aik C Tan, Afaf E G Osman, Islam Eljilany, Gregory Riedlinger, Bryan Paul Schneider, Katarina Benejova, Martin Kery, Ioanna Papandreou, Jiangjiang Zhu, Nicholas Denko, Daniel J Spakowicz, null null
The Tumor Microbiome Reacts to Hypoxia and Can Influence Response to Radiation Treatment in Colorectal Cancer. Cancer research communications 4 (7) (2024)
Yang Yu, Cankun Wang, Shiqiao Ye, Zhaohui Xu, Hui Lin, Karen Texter, Vasudha Shukla, Samir N Ghadiali, Qin Ma, Vidu Garg, Ming-Tao Zhao
Abnormal Progenitor Cell Differentiation and Cardiomyocyte Proliferation in Hypoplastic Right Heart Syndrome. Circulation 149 (11) (2024)
Cankun Wang, Diana Acosta, Megan McNutt, Jiang Bian, Anjun Ma, Hongjun Fu, Qin Ma
A single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD). Nature communications 15 (1) (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Edward Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Nature communications 15 (1) (2024)
Caroline E Dravillas, Samuel S Coleman, Rebecca Hoyd, Griffin Caryotakis, Louis Denko, Carlos H F Chan, Michelle L Churchman, Nicholas C Denko, Rebecca D Dodd, Islam El Jilany, Sheetal Hardikar, Marium Husain, Alexandra P Ikeguchi, Ning Jin, Qin Ma, Martin D McCarter, Afaf E G Osman, Lary A Robinson, Eric A Singer, Gabriel Tinoco, Cornelia M Ulrich, Yousef Zakharia, Daniel J Spakowicz, Ahmad A Tarhini, Aik Choon Tan, null null
The Tumor Microbiome as a Predictor of Outcomes in Patients with Metastatic Melanoma Treated with Immune Checkpoint Inhibitors. Cancer research communications 4 (8) (2024)
Yang Yu, Cankun Wang, Shiqiao Ye, Zhaohui Xu, Hui Lin, Karen Texter, Vasudha Shukla, Samir N Ghadiali, Qin Ma, Vidu Garg, Ming-Tao Zhao
Abnormal Progenitor Cell Differentiation and Cardiomyocyte Proliferation in Hypoplastic Right Heart Syndrome. Circulation 149 (11) (2024)
Yang Yu, Cankun Wang, Shiqiao Ye, Zhaohui Xu, Hui Lin, Karen Texter, Vasudha Shukla, Samir N Ghadiali, Qin Ma, Vidu Garg, Ming-Tao Zhao
Abnormal Progenitor Cell Differentiation and Cardiomyocyte Proliferation in Hypoplastic Right Heart Syndrome. Circulation 149 (11) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma, null null
A Bioinformatics Tool for Identifying Intratumoral Microbes from the ORIEN Dataset. Cancer research communications 4 (2) (2024)
Cankun Wang, Diana Acosta, Megan McNutt, Jiang Bian, Anjun Ma, Hongjun Fu, Qin Ma
A single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD). Nature communications 15 (1) (2024)
Qin Ma, Yi Jiang, Hao Cheng, Dong Xu
Harnessing the deep learning power of foundation models in single-cell omics. Nature reviews. Molecular cell biology (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Research square (2024)
Caroline E Dravillas, Samuel S Coleman, Rebecca Hoyd, Griffin Caryotakis, Louis Denko, Carlos H F Chan, Michelle L Churchman, Nicholas C Denko, Rebecca D Dodd, Islam El Jilany, Sheetal Hardikar, Marium Husain, Alexandra P Ikeguchi, Ning Jin, Qin Ma, Martin D McCarter, Afaf E G Osman, Lary A Robinson, Eric A Singer, Gabriel Tinoco, Cornelia M Ulrich, Yousef Zakharia, Daniel J Spakowicz, Ahmad A Tarhini, Aik Choon Tan, null null
The Tumor Microbiome as a Predictor of Outcomes in Patients with Metastatic Melanoma Treated with Immune Checkpoint Inhibitors. Cancer research communications 4 (8) (2024)
Xiaoying Wang, Maoteng Duan, Jingxian Li, Anjun Ma, Gang Xin, Dong Xu, Zihai Li, Bingqiang Liu, Qin Ma
MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer. Nature communications 15 (1) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma
A bioinformatics tool for identifying intratumoral microbes from the ORIEN dataset. Cancer research communications (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Research square (2024)
Xiaoying Wang, Maoteng Duan, Jingxian Li, Anjun Ma, Gang Xin, Dong Xu, Zihai Li, Bingqiang Liu, Qin Ma
MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer. Nature communications 15 (1) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma
A bioinformatics tool for identifying intratumoral microbes from the ORIEN dataset. Cancer research communications (2024)
Yang Yu, Cankun Wang, Shiqiao Ye, Zhaohui Xu, Hui Lin, Karen Texter, Vasudha Shukla, Samir N Ghadiali, Qin Ma, Vidu Garg, Ming-Tao Zhao
Abnormal Progenitor Cell Differentiation and Cardiomyocyte Proliferation in Hypoplastic Right Heart Syndrome. Circulation 149 (11) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma, null null
A Bioinformatics Tool for Identifying Intratumoral Microbes from the ORIEN Dataset. Cancer research communications 4 (2) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma
A bioinformatics tool for identifying intratumoral microbes from the ORIEN dataset. Cancer research communications (2024)
Zhaoqian Liu, Yuhan Sun, Yingjie Li, Anjun Ma, Nyelia F Willaims, Shiva Jahanbahkshi, Rebecca Hoyd, Xiaoying Wang, Shiqi Zhang, Jiangjiang Zhu, Dong Xu, Daniel Spakowicz, Qin Ma, Bingqiang Liu
An Explainable Graph Neural Framework to Identify Cancer-Associated Intratumoral Microbial Communities. Advanced science (Weinheim, Baden-Wurttemberg, Germany) (2024)
Xiaoying Wang, Maoteng Duan, Jingxian Li, Anjun Ma, Gang Xin, Dong Xu, Zihai Li, Bingqiang Liu, Qin Ma
MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer. Nature communications 15 (1) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma
A bioinformatics tool for identifying intratumoral microbes from the ORIEN dataset. Cancer research communications (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Research square (2024)
Xiaoying Wang, Maoteng Duan, Jingxian Li, Anjun Ma, Gang Xin, Dong Xu, Zihai Li, Bingqiang Liu, Qin Ma
MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer. Nature communications 15 (1) (2024)
Qin Ma, Yi Jiang, Hao Cheng, Dong Xu
Harnessing the deep learning power of foundation models in single-cell omics. Nature reviews. Molecular cell biology 25 (8) (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Research square (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma, null null
A Bioinformatics Tool for Identifying Intratumoral Microbes from the ORIEN Dataset. Cancer research communications 4 (2) (2024)
Martin Benej, Rebecca Hoyd, McKenzie Kreamer, Caroline E Dravillas, Dennis J Grencewicz, Fouad Choueiry, Carlos H F Chan, Yousef Zakharia, Qin Ma, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Lary A Robinson, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Gabriel Tinoco, Marium Husain, Ning Jin, Aik C Tan, Afaf E G Osman, Islam Eljilany, Gregory Riedlinger, Bryan Paul Schneider, Katarina Benejova, Martin Kery, Ioanna Papandreou, Jiangjiang Zhu, Nicholas Denko, Daniel J Spakowicz, null null
The Tumor Microbiome Reacts to Hypoxia and Can Influence Response to Radiation Treatment in Colorectal Cancer. Cancer research communications 4 (7) (2024)
Cankun Wang, Anjun Ma, Yingjie Li, Megan E McNutt, Shiqi Zhang, Jiangjiang Zhu, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma, null null
A Bioinformatics Tool for Identifying Intratumoral Microbes from the ORIEN Dataset. Cancer research communications 4 (2) (2024)
Qin Ma, Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jodran Krull, Scott Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu
Graph Fourier transform for spatial omics representation and analyses of complex organs. Research square (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Edward Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Nature communications 15 (1) (2024)
Caroline E Dravillas, Samuel S Coleman, Rebecca Hoyd, Griffin Caryotakis, Louis Denko, Carlos H F Chan, Michelle L Churchman, Nicholas C Denko, Rebecca D Dodd, Islam El Jilany, Sheetal Hardikar, Marium Husain, Alexandra P Ikeguchi, Ning Jin, Qin Ma, Martin D McCarter, Afaf E G Osman, Lary A Robinson, Eric A Singer, Gabriel Tinoco, Cornelia M Ulrich, Yousef Zakharia, Daniel J Spakowicz, Ahmad A Tarhini, Aik Choon Tan
The tumor microbiome as a predictor of outcomes in patients with metastatic melanoma treated with immune checkpoint inhibitors. Cancer research communications (2024)
Xiaoying Wang, Maoteng Duan, Jingxian Li, Anjun Ma, Gang Xin, Dong Xu, Zihai Li, Bingqiang Liu, Qin Ma
MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer. Nature communications 15 (1) (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Research square (2024)
Caroline E Dravillas, Samuel S Coleman, Rebecca Hoyd, Griffin Caryotakis, Louis Denko, Carlos H F Chan, Michelle L Churchman, Nicholas C Denko, Rebecca D Dodd, Islam El Jilany, Sheetal Hardikar, Marium Husain, Alexandra P Ikeguchi, Ning Jin, Qin Ma, Martin D McCarter, Afaf E G Osman, Lary A Robinson, Eric A Singer, Gabriel Tinoco, Cornelia M Ulrich, Yousef Zakharia, Daniel J Spakowicz, Ahmad A Tarhini, Aik Choon Tan, null null
The Tumor Microbiome as a Predictor of Outcomes in Patients with Metastatic Melanoma Treated with Immune Checkpoint Inhibitors. Cancer research communications 4 (8) (2024)
Yuzhou Chang, Jixin Liu, Yi Jiang, Anjun Ma, Yao-Yu Yeo, Qi Guo, Megan McNutt, Jordan Krull, Scott J Rodig, Dan H Barouch, Garry P Nolan, Dong Xu, Sizun J Jiang, Zihai Li, Bingqiang Liu, Qin Ma
Graph Fourier transform for spatial omics representation and analyses of complex organs. Research square (2024)
Martin Benej, Rebecca Hoyd, McKenzie Kreamer, Caroline E Dravillas, Dennis J Grencewicz, Fouad Choueiry, Carlos H F Chan, Yousef Zakharia, Qin Ma, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Lary A Robinson, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Gabriel Tinoco, Marium Husain, Ning Jin, Aik C Tan, Afaf E G Osman, Islam Eljilany, Gregory Riedlinger, Bryan Paul Schneider, Katarina Benejova, Martin Kery, Ioanna Papandreou, Jiangjiang Zhu, Nicholas Denko, Daniel J Spakowicz, null null
The Tumor Microbiome Reacts to Hypoxia and Can Influence Response to Radiation Treatment in Colorectal Cancer. Cancer research communications 4 (7) (2024)
Cankun Wang, Diana Acosta, Megan McNutt, Jiang Bian, Anjun Ma, Hongjun Fu, Qin Ma
A single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD). Nature communications 15 (1) (2024)
Wenjie Luo, Hao Chen, Li Fan, Qi Guo, Man Ying Wong, Fangmin Yu, Nessa Foxe, Winston Wang, Aviram Nessim, Gillian K Carling, Bangyan Liu, Chloe Lopez-Lee, Yige Huang, Sadaf Amin, Sue-Ann Mok, Won-Min Song, Bin Zhang, Qin Ma, Hongjun Fu, Li Gan
DAP12 deficiency alters microglia-oligodendrocyte communication and enhances resilience against tau toxicity. Research square (2023)
Anjun Ma, Xiaoying Wang, Jingxian Li, Cankun Wang, Tong Xiao, Yuntao Liu, Hao Cheng, Juexin Wang, Yang Li, Yuzhou Chang, Jinpu Li, Duolin Wang, Yuexu Jiang, Li Su, Gang Xin, Shaopeng Gu, Zihai Li, Bingqiang Liu, Dong Xu, Qin Ma
Single-cell biological network inference using a heterogeneous graph transformer. Nature communications 14 (1) (2023)
Caroline E Dravillas, Samuel S Coleman, Rebecca Hoyd, Louis Denko, Carlos H F Chan, Michelle L Churchman, Nicholas C Denko, Rebecca D Dodd, Islam El Jilany, Sheetal Hardikar, Marium Husain, Alexandra P Ikeguchi, Ning Jin, Qin Ma, Martin D McCarter, Afaf E G Osman, Lary A Robinson, Eric A Singer, Gabriel Tinoco, Cornelia M Ulrich, Yousef Zakharia, Daniel J Spakowicz, Ahmad A Tarhini, Aik Choon Tan
The tumor microbiome as a predictor of outcomes in patients with metastatic melanoma treated with immune checkpoint inhibitors. bioRxiv : the preprint server for biology (2023)
Cankun Wang, Anjun Ma, Megan E McNutt, Rebecca Hoyd, Caroline E Dravillas, Lary A Robinson, Carlos H F Chan, Yousef Zakharia, Rebecca D Dodd, Cornelia M Ulrich, Sheetal Hardikar, Michelle L Churchman, Ahmad A Tarhini, Eric A Singer, Alexandra P Ikeguchi, Martin D McCarter, Nicholas C Denko, Gabriel Tinoco, Marium Husain, Ning Jin, Afaf E G Osman, Islam El Jilany, Aik Choon Tan, Samuel S Coleman, Louis Denko, Gregory M Riedlinger, Bryan Paul Schneider, Daniel J Spakowicz, Qin Ma
A bioinformatics tool for identifying intratumoral microbes from the ORIEN dataset. bioRxiv : the preprint server for biology (2023)
Haitao Wen, Jianwen Chen, Bao Zhao, Shen Wang, Anjun Ma, Hong Dong, Xiang Cheng, Shengyin Lin, Xinghui Li, Laura E Herring, Gang Xin, Qin Ma, Kai He, Ruili Xie, Yu Lei, Irina Ingold, Xiaolin Cheng, Zihai Li
Repression of ferroptotic cell death by mitochondrial calcium signaling. Research square (2023)
Anjun Ma, Xiaoying Wang, Jingxian Li, Cankun Wang, Tong Xiao, Yuntao Liu, Hao Cheng, Juexin Wang, Yang Li, Yuzhou Chang, Jinpu Li, Duolin Wang, Yuexu Jiang, Li Su, Gang Xin, Shaopeng Gu, Zihai Li, Bingqiang Liu, Dong Xu, Qin Ma
Single-cell biological network inference using a heterogeneous graph transformer. Nature communications 14 (1) (2023)
Juexin Wang, Jinpu Li, Skyler T Kramer, Li Su, Yuzhou Chang, Chunhui Xu, Michael T Eadon, Krzysztof Kiryluk, Qin Ma, Dong Xu
Dimension-agnostic and granularity-based spatially variable gene identification using BSP. Nature communications 14 (1) (2023)
Anjun Ma, Xiaoying Wang, Jingxian Li, Cankun Wang, Tong Xiao, Yuntao Liu, Hao Cheng, Juexin Wang, Yang Li, Yuzhou Chang, Jinpu Li, Duolin Wang, Yuexu Jiang, Li Su, Gang Xin, Shaopeng Gu, Zihai Li, Bingqiang Liu, Dong Xu, Qin Ma
Single-cell biological network inference using a heterogeneous graph transformer. Nature communications 14 (1) (2023)
Anne L R Schuster, Norah L Crossnohere, Melinda Bachini, Charles L Wiggins, John D Carpten, Elizabeth B Claus, Debbie L Bennett, Li Ding, Bettina F Drake, Ryan C Fields, Katherine A Janeway, Bethany M Kwan, Heinz-Josef Lenz, Qin Ma, Shiraz I Mishra, Electra D Paskett, Timothy R Rebbeck, Charité N Ricker, Mariana C Stern, Andrew L Sussman, Jessica C Tiner, Jeffery M Trent, Roel G W Verhaak, Nikhil Wagle, Cheryl L Willman, John F P Bridges
Priorities to promote participant engagement in the Participant Engagement and Cancer Genome Sequencing (PE-CGS) Network. Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology (2023)
Xiaoying Wang, Maoteng Duan, Jingxian Li, Anjun Ma, Dong Xu, Zihai Li, Bingqiang Liu, Qin Ma
MarsGT: Multi-omics analysis for rare population inference using single-cell graph transformer. bioRxiv : the preprint server for biology (2023)
Anne L R Schuster, Norah L Crossnohere, Melinda Bachini, Charles L Wiggins, John D Carpten, Elizabeth B Claus, Debbie L Bennett, Li Ding, Bettina F Drake, Ryan C Fields, Katherine A Janeway, Bethany M Kwan, Heinz-Josef Lenz, Qin Ma, Shiraz I Mishra, Electra D Paskett, Timothy R Rebbeck, Charité N Ricker, Mariana C Stern, Andrew L Sussman, Jessica C Tiner, Jeffery M Trent, Roel G W Verhaak, Nikhil Wagle, Cheryl L Willman, John F P Bridges
Priorities to promote participant engagement in the Participant Engagement and Cancer Genome Sequencing (PE-CGS) Network. Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology (2023)
Mor Kenigsbuch, Pierre Bost, Shahar Halevi, Yuzhou Chang, Shuo Chen, Qin Ma, Renana Hajbi, Benno Schwikowski, Bernd Bodenmiller, Hongjun Fu, Michal Schwartz, Bjørt K Kragesteen
Author Correction: A shared disease-associated oligodendrocyte signature among multiple CNS pathologies. Nature neuroscience (2023)
Juexin Wang, Jinpu Li, Skyler Kramer, Li Su, Yuzhou Chang, Chunhui Xu, Qin Ma, Dong Xu
Dimension-agnostic and granularity-based spatially variable gene identification. Research square (2023)
Cankun Wang, Megan E McNutt, Anjun Ma, Hongjun Fu, Qin Ma
ssREAD: A Single-cell and Spatial RNA-seq Database for Alzheimer's Disease. bioRxiv : the preprint server for biology (2023)
Juan Xie, Hyeongseon Jeon, Gang Xin, Qin Ma, Dongjun Chung
LRT: Integrative analysis of scRNA-seq and scTCR-seq data to investigate clonal differentiation heterogeneity. PLoS computational biology 19 (7) (2023)
Shiqiao Ye, Cankun Wang, Zhaohui Xu, Hui Lin, Xiaoping Wan, Yang Yu, Subhodip Adhicary, Joe Z Zhang, Yang Zhou, Chun Liu, Matthew Alonzo, Jianli Bi, Angelina Ramirez-Navarro, Isabelle Deschenes, Qin Ma, Vidu Garg, Joseph C Wu, Ming-Tao Zhao
Impaired Human Cardiac Cell Development due to NOTCH1 Deficiency. Circulation research 132 (2) (2022)
Juexin Wang, Anjun Ma, Yuzhou Chang, Jianting Gong, Yuexu Jiang, Ren Qi, Cankun Wang, Hongjun Fu, Qin Ma, Dong Xu
Author Correction: scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses. Nature communications 13 (1) (2022)
Haocheng Gu, Hao Cheng, Anjun Ma, Yang Li, Juexin Wang, Dong Xu, Qin Ma
scGNN 2.0: a graph neural network tool for imputation and clustering of single-cell RNA-Seq data. Bioinformatics (Oxford, England) 38 (23) (2022)
Shiqiao Ye, Cankun Wang, Zhaohui Xu, Hui Lin, Xiaoping Wan, Yang Yu, Subhodip Adhicary, Joe Z Zhang, Yang Zhou, Chun Liu, Matthew Alonzo, Jianli Bi, Angelina Ramirez-Navarro, Isabelle Deschenes, Qin Ma, Vidu Garg, Joseph C Wu, Ming-Tao Zhao
Impaired Human Cardiac Cell Development due to NOTCH1 Deficiency. Circulation research (2022)
Rosario Distefano, Luisa Tomasello, Gian Luca Rampioni Vinciguerra, Pierluigi Gasparini, Yujia Xiang, Marina Bagnoli, Gioacchino P Marceca, Paola Fadda, Alessandro Lagana, Mario Acunzo, Qin Ma, Giovanni Nigita, Carlo M Croce
Pan-Cancer Analysis of Canonical and Modified miRNAs Enhances the Resolution of the Functional miRNAome in Cancer. Cancer research 82 (20) (2022)
Hyunwoo Kwon, Johanna M Schafer, No-Joon Song, Satoshi Kaneko, Anqi Li, Tong Xiao, Anjun Ma, Carter Allen, Komal Das, Lei Zhou, Brian Riesenberg, Yuzhou Chang, Payton Weltge, Maria Velegraki, David Y Oh, Lawrence Fong, Qin Ma, Debasish Sundi, Dongjun Chung, Xue Li, Zihai Li
Androgen conspires with the CD8 + T cell exhaustion program and contributes to sex bias in cancer. Science immunology 7 (73) (2022)
Shiqiao Ye, Cankun Wang, Zhaohui Xu, Hui Lin, Xiaoping Wan, Yang Yu, Subhodip Adhicary, Joe Z Zhang, Yang Zhou, Chun Liu, Matthew Alonzo, Jianli Bi, Angelina Ramirez-Navarro, Isabelle Deschenes, Qin Ma, Vidu Garg, Joseph C Wu, Ming-Tao Zhao
Impaired Human Cardiac Cell Development due to NOTCH1 Deficiency. Circulation research 132 (2) (2022)
Carter Allen, Yuzhou Chang, Brian Neelon, Won Chang, Hang J Kim, Zihai Li, Qin Ma, Dongjun Chung
A Bayesian multivariate mixture model for high throughput spatial transcriptomics. Biometrics (2022)
Anjun Ma, Gang Xin, Qin Ma
The use of single-cell multi-omics in immuno-oncology. Nature communications 13 (1) (2022)
Faith H Brennan, Yang Li, Cankun Wang, Anjun Ma, Qi Guo, Yi Li, Nicole Pukos, Warren A Campbell, Kristina G Witcher, Zhen Guan, Kristina A Kigerl, Jodie C E Hall, Jonathan P Godbout, Andy J Fischer, Dana M McTigue, Zhigang He, Qin Ma, Phillip G Popovich
Microglia coordinate cellular interactions during spinal cord repair in mice. Nature communications 13 (1) (2022)
Shiqiao Ye, Cankun Wang, Zhaohui Xu, Hui Lin, Xiaoping Wan, Yang Yu, Subhodip Adhicary, Joe Z Zhang, Yang Zhou, Chun Liu, Matthew Alonzo, Jianli Bi, Angelina Ramirez-Navarro, Isabelle Deschenes, Qin Ma, Vidu Garg, Joseph C Wu, Ming-Tao Zhao
Impaired Human Cardiac Cell Development due to NOTCH1 Deficiency. Circulation research 132 (2) (2022)
Panke Qu, Julia N Faraone, John P Evans, Yi-Min Zheng, Lianbo Yu, Qin Ma, Claire Carlin, Gerard Lozanski, Linda J Saif, Eugene M Oltz, Richard J Gumina, Shan-Lu Liu
Durability of Booster mRNA Vaccine against SARS-CoV-2 BA.2.12.1, BA.4, and BA.5 Subvariants. The New England journal of medicine 387 (14) (2022)
Shiqiao Ye, Cankun Wang, Zhaohui Xu, Hui Lin, Xiaoping Wan, Yang Yu, Subhodip Adhicary, Joe Z Zhang, Yang Zhou, Chun Liu, Matthew Alonzo, Jianli Bi, Angelina Ramirez-Navarro, Isabelle Deschenes, Qin Ma, Vidu Garg, Joseph C Wu, Ming-Tao Zhao
Impaired Human Cardiac Cell Development due to NOTCH1 Deficiency. Circulation research 132 (2) (2022)
Mor Kenigsbuch, Pierre Bost, Shahar Halevi, Yuzhou Chang, Shuo Chen, Qin Ma, Renana Hajbi, Benno Schwikowski, Bernd Bodenmiller, Hongjun Fu, Michal Schwartz, Bjørt K Kragesteen
A shared disease-associated oligodendrocyte signature among multiple CNS pathologies. Nature neuroscience 25 (7) (2022)
Shiqiao Ye, Cankun Wang, Zhaohui Xu, Hui Lin, Xiaoping Wan, Yang Yu, Subhodip Adhicary, Joe Z Zhang, Yang Zhou, Chun Liu, Matthew Alonzo, Jianli Bi, Angelina Ramirez-Navarro, Isabelle Deschenes, Qin Ma, Vidu Garg, Joseph C Wu, Ming-Tao Zhao
Impaired Human Cardiac Cell Development due to NOTCH1 Deficiency. Circulation research 132 (2) (2022)
Zachary N Harris, Mani Awale, Niyati Bhakta, Daniel H Chitwood, Anne Y Fennell, Emma Frawley, Laura L Klein, Laszlo G Kovacs, Misha T Kwasniewski, Jason P Londo, Qin Ma, Zoë Migicovsky, Joel F Swift, Allison J Miller
Multi-dimensional leaf phenotypes reflect root system genotype in grafted grapevine over the growing season. GigaScience 10 (12) (2022)
Bao Zhao, Weipeng Gong, Anjun Ma, Jianwen Chen, Maria Velegraki, Hong Dong, Zihao Liu, Lingling Wang, Tamio Okimoto, Devin M Jones, Yu Leo Lei, Meixiao Long, Kenneth J Oestreich, Qin Ma, Gang Xin, David P Carbone, Kai He, Zihai Li, Haitao Wen
SUSD2 suppresses CD8 + T cell antitumor immunity by targeting IL-2 receptor signaling. Nature immunology 23 (11) (2022)
Anjun Ma, Juexin Wang, Dong Xu, Qin Ma
Deep learning analysis of single-cell data in empowering clinical implementation. Clinical and translational medicine 12 (7) (2022)
Junyi Chen, Xiaoying Wang, Anjun Ma, Qi-En Wang, Bingqiang Liu, Lang Li, Dong Xu, Qin Ma
Deep transfer learning of cancer drug responses by integrating bulk and single-cell RNA-seq data. Nature communications 13 (1) (2022)
Qin Ma, Dong Xu
Deep learning shapes single-cell data analysis. Nature reviews. Molecular cell biology 23 (5) (2022)
Dan Shao, Lan Huang, Yan Wang, Xueteng Cui, Yufei Li, Yao Wang, Qin Ma, Wei Du, Juan Cui
HBFP: a new repository for human body fluid proteome. Database : the journal of biological databases and curation 2021 (2022)
Gioacchino P Marceca, Rosario Distefano, Luisa Tomasello, Alessandro Lagana, Francesco Russo, Federica Calore, Giulia Romano, Marina Bagnoli, Pierluigi Gasparini, Alfredo Ferro, Mario Acunzo, Qin Ma, Carlo M Croce, Giovanni Nigita
MiREDiBase, a manually curated database of validated and putative editing events in microRNAs. Scientific data 8 (1) (2021)
Juexin Wang, Anjun Ma, Yuzhou Chang, Jianting Gong, Yuexu Jiang, Ren Qi, Cankun Wang, Hongjun Fu, Qin Ma, Dong Xu
scGNN is a novel graph neural network framework for single-cell RNA-Seq analyses. Nature communications 12 (1) (2021)
Shuangquan Zhang, Anjun Ma, Jing Zhao, Dong Xu, Qin Ma, Yan Wang
Assessing deep learning methods in cis-regulatory motif finding based on genomic sequencing data. Briefings in bioinformatics (2021)
Brandon Monier, Adam McDermaid, Cankun Wang, Jing Zhao, Allison Miller, Anne Fennell, Qin Ma
IRIS-EDA: An integrated RNA-Seq interpretation system for gene expression data analysis. PLoS computational biology 15 (2) (2019)
Suresh Damodaran, Amélie Dubois, Juan Xie, Qin Ma, Valérie Hindié, Senthil Subramanian
GmZPR3d Interacts with GmHD-ZIP III Proteins and Regulates Soybean Root and Nodule Vascular Development. International journal of molecular sciences 20 (4) (2019)
Zoë Migicovsky, Zachary N Harris, Laura L Klein, Mao Li, Adam McDermaid, Daniel H Chitwood, Anne Y Fennell, Laszlo G Kovacs, Misha Kwasniewski, Jason P Londo, Qin Ma, Allison J Miller
Rootstock effects on scion phenotypes in a 'Chambourcin' experimental vineyard. Horticulture research 6 (2019)
Xin Chen, Anjun Ma, Adam McDermaid, Hanyuan Zhang, Chao Liu, Huansheng Cao, Qin Ma
RECTA: Regulon Identification Based on Comparative Genomics and Transcriptomics Analysis. Genes 9 (6) (2018)
Fang Zhang, Anjun Ma, Zhao Wang, Qin Ma, Bingqiang Liu, Lan Huang, Yan Wang
A Central Edge Selection Based Overlapping Community Detection Algorithm for the Detection of Overlapping Structures in Protein⁻Protein Interaction Networks. Molecules (Basel, Switzerland) 23 (10) (2018)
Bingqiang Liu, Hanyuan Zhang, Chuan Zhou, Guojun Li, Anne Fennell, Guanghui Wang, Yu Kang, Qi Liu, Qin Ma
An integrative and applicable phylogenetic footprinting framework for cis-regulatory motifs identification in prokaryotic genomes. BMC genomics 17 (2016)
Jiading Yang, Eric Worley, Qin Ma, Jun Li, Ivone Torres-Jerez, Gaoyang Li, Patrick X Zhao, Ying Xu, Yuhong Tang, Michael Udvardi
Nitrogen remobilization and conservation, and underlying senescence-associated gene expression in the perennial switchgrass Panicum virgatum. The New phytologist 211 (1) (2016)

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Qin Ma