Rui Chen

ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 46

Top Venues

Nature communications

Human molecular genetics

Genes

Communications biology

Baylor College of Medicine

Baylor College of Medicine (PHD)

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

Affiliation History

Baylor College of Medicine Dec 01 2003

United States

Professor :: Molecular and Human Genetics

Education History

Baylor College of Medicine Jul 01 1995 - Dec 31 1999

United States

PHD

Publications

Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, null null, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè
Integrating genetic regulation and single-cell expression with GWAS prioritizes causal genes and cell types for glaucoma. Nature communications 15 (1) (2024)
Jun Wang, Meng Wang, Ala Moshiri, Ronald Alan Harris, Muthuswamy Raveendran, Tracy Nguyen, Soohyun Kim, Laura Young, Keqing Wang, Roger Wiseman, David H O'Connor, Zach Johnson, Melween Martinez, Michael J Montague, Ken Sayers, Martha Lyke, Eric J Vallender, Tim Stout, Yumei Li, Sara M Thomasy, Jeffrey Rogers, Rui Chen
Genetic diversity of 1,845 rhesus macaques improves genetic variation interpretation and identifies disease models. Nature communications 15 (1) (2024)
Jun Wang, Meng Wang, Ala Moshiri, Ronald Alan Harris, Muthuswamy Raveendran, Tracy Nguyen, Soohyun Kim, Laura Young, Keqing Wang, Roger Wiseman, David H O'Connor, Zach Johnson, Melween Martinez, Michael J Montague, Ken Sayers, Martha Lyke, Eric J Vallender, Tim Stout, Yumei Li, Sara M Thomasy, Jeffrey Rogers, Rui Chen
Genetic diversity of 1,845 rhesus macaques improves genetic variation interpretation and identifies disease models. Nature communications 15 (1) (2024)
Jun Wang, Meng Wang, Ala Moshiri, Ronald Alan Harris, Muthuswamy Raveendran, Tracy Nguyen, Soohyun Kim, Laura Young, Keqing Wang, Roger Wiseman, David H O'Connor, Zach Johnson, Melween Martinez, Michael J Montague, Ken Sayers, Martha Lyke, Eric J Vallender, Tim Stout, Yumei Li, Sara M Thomasy, Jeffrey Rogers, Rui Chen
Genetic diversity of 1,845 rhesus macaques improves genetic variation interpretation and identifies disease models. Nature communications 15 (1) (2024)
Daniel C Brock, Meng Wang, Hafiz Muhammad Jafar Hussain, David E Rauch, Molly Marra, Mark E Pennesi, Paul Yang, Lesley Everett, Radwan S Ajlan, Jason Colbert, Fernanda Belga Ottoni Porto, Anna Matynia, Michael B Gorin, Robert K Koenekoop, Irma Lopez, Ruifang Sui, Gang Zou, Yumei Li, Rui Chen
Comparative analysis of in-silico tools in identifying pathogenic variants in dominant inherited retinal diseases. Human molecular genetics (2024)
Daniel C Brock, Meng Wang, Hafiz Muhammad Jafar Hussain, David E Rauch, Molly Marra, Mark E Pennesi, Paul Yang, Lesley Everett, Radwan S Ajlan, Jason Colbert, Fernanda Belga Ottoni Porto, Anna Matynia, Michael B Gorin, Robert K Koenekoop, Irma Lopez, Ruifang Sui, Gang Zou, Yumei Li, Rui Chen
Comparative analysis of in-silico tools in identifying pathogenic variants in dominant inherited retinal diseases. Human molecular genetics 33 (11) (2024)
Daniel C Brock, Meng Wang, Hafiz Muhammad Jafar Hussain, David E Rauch, Molly Marra, Mark E Pennesi, Paul Yang, Lesley Everett, Radwan S Ajlan, Jason Colbert, Fernanda Belga Ottoni Porto, Anna Matynia, Michael B Gorin, Robert K Koenekoop, Irma Lopez, Ruifang Sui, Gang Zou, Yumei Li, Rui Chen
Comparative analysis of in-silico tools in identifying pathogenic variants in dominant inherited retinal diseases. Human molecular genetics 33 (11) (2024)
Zhen Zuo, Xuesen Cheng, Salma Ferdous, Jianming Shao, Jin Li, Yourong Bao, Jean Li, Jiaxiong Lu, Antonio Jacobo Lopez, Juliette Wohlschlegel, Aric Prieve, Mervyn G Thomas, Thomas A Reh, Yumei Li, Ala Moshiri, Rui Chen
Single cell dual-omic atlas of the human developing retina. Nature communications 15 (1) (2024)
Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, null null, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè
Integrating genetic regulation and single-cell expression with GWAS prioritizes causal genes and cell types for glaucoma. Nature communications 15 (1) (2024)
Zhen Zuo, Xuesen Cheng, Salma Ferdous, Jianming Shao, Jin Li, Yourong Bao, Jean Li, Jiaxiong Lu, Antonio Jacobo Lopez, Juliette Wohlschlegel, Aric Prieve, Mervyn G Thomas, Thomas A Reh, Yumei Li, Ala Moshiri, Rui Chen
Single cell dual-omic atlas of the human developing retina. Nature communications 15 (1) (2024)
Daniel C Brock, Meng Wang, Hafiz Muhammad Jafar Hussain, David E Rauch, Molly Marra, Mark E Pennesi, Paul Yang, Lesley Everett, Radwan S Ajlan, Jason Colbert, Fernanda Belga Ottoni Porto, Anna Matynia, Michael B Gorin, Robert K Koenekoop, Irma Lopez, Ruifang Sui, Gang Zou, Yumei Li, Rui Chen
Comparative analysis of in-silico tools in identifying pathogenic variants in dominant inherited retinal diseases. Human molecular genetics 33 (11) (2024)
Justin Ma, Ting Kuan Chu, Maria Polo Prieto, Yong Park, Yumei Li, Rui Chen, Graeme Mardon, Benjamin J Frankfort, Nicholas M Tran
Sample multiplexing for retinal single-cell RNA-sequencing. bioRxiv : the preprint server for biology (2024)
Zhen Zuo, Xuesen Cheng, Salma Ferdous, Jianming Shao, Jin Li, Yourong Bao, Jean Li, Jiaxiong Lu, Antonio Jacobo Lopez, Juliette Wohlschlegel, Aric Prieve, Mervyn G Thomas, Thomas A Reh, Yumei Li, Ala Moshiri, Rui Chen
Single cell dual-omic atlas of the human developing retina. Nature communications 15 (1) (2024)
Daniel C Brock, Meng Wang, Hafiz Muhammad Jafar Hussain, David E Rauch, Molly Marra, Mark E Pennesi, Paul Yang, Lesley Everett, Radwan S Ajlan, Jason Colbert, Fernanda Belga Ottoni Porto, Anna Matynia, Michael B Gorin, Robert K Koenekoop, Irma Lopez, Ruifang Sui, Gang Zou, Yumei Li, Rui Chen
Comparative analysis of in-silico tools in identifying pathogenic variants in dominant inherited retinal diseases. Human molecular genetics (2024)
Justin Ma, Ting Kuan Chu, Maria Polo Prieto, Yong Park, Yumei Li, Rui Chen, Graeme Mardon, Benjamin J Frankfort, Nicholas M Tran
Sample multiplexing for retinal single-cell RNA-sequencing. bioRxiv : the preprint server for biology (2024)
Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, null null, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè
Integrating genetic regulation and single-cell expression with GWAS prioritizes causal genes and cell types for glaucoma. Nature communications 15 (1) (2024)
Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, null null, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè
Integrating genetic regulation and single-cell expression with GWAS prioritizes causal genes and cell types for glaucoma. Nature communications 15 (1) (2024)
Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, null null, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè
Integrating genetic regulation and single-cell expression with GWAS prioritizes causal genes and cell types for glaucoma. Nature communications 15 (1) (2024)
Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, null null, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè
Integrating genetic regulation and single-cell expression with GWAS prioritizes causal genes and cell types for glaucoma. Nature communications 15 (1) (2024)
Andrew R Hamel, Wenjun Yan, John M Rouhana, Aboozar Monovarfeshani, Xinyi Jiang, Puja A Mehta, Jayshree Advani, Yuyang Luo, Qingnan Liang, Skanda Rajasundaram, Arushi Shrivastava, Katherine Duchinski, Sreekar Mantena, Jiali Wang, Tavé van Zyl, Louis R Pasquale, Anand Swaroop, Puya Gharahkhani, Anthony P Khawaja, Stuart Macgregor, null null, Rui Chen, Veronique Vitart, Joshua R Sanes, Janey L Wiggs, Ayellet V Segrè
Integrating genetic regulation and single-cell expression with GWAS prioritizes causal genes and cell types for glaucoma. Nature communications 15 (1) (2024)
Qing Chen, Arun Kirshna Sasikala-Appukuttan, Zahabiya Husain, Anura Shrivastava, Marla Spain, Edward D Sendler, Bryce Daines, Stefan Fischer, Rui Chen, Tiffany A Cook, Markus Friedrich
Global Gene Expression Analysis Reveals Complex Cuticle Organization of the Tribolium Compound Eye. Genome biology and evolution 15 (1) (2023)
Hafiz Muhammad Jafar Hussain, Meng Wang, Austin Huang, Ryan Schmidt, Xinye Qian, Paul Yang, Molly Marra, Yumei Li, Mark E Pennesi, Rui Chen
Novel Pathogenic Mutations Identified from Whole-Genome Sequencing in Unsolved Cases of Patients Affected with Inherited Retinal Diseases. Genes 14 (2) (2023)
Xinye Qian, Tanmay Srinivasan, Jessica He, Jiaxiong Lu, Yan Jin, Haiwei Gu, Rui Chen
Ceramide compensation by ceramide synthases preserves retinal function and structure in a retinal dystrophy mouse model. Disease models & mechanisms 16 (7) (2023)
Shu Wen, Meng Wang, Xinye Qian, Yumei Li, Keqing Wang, Jongsu Choi, Mark E Pennesi, Paul Yang, Molly Marra, Robert K Koenekoop, Irma Lopez, Anna Matynia, Michael Gorin, Ruifang Sui, Fengxia Yao, Kerry Goetz, Fernanda Belga Ottoni Porto, Rui Chen
Systematic assessment of the contribution of structural variants to inherited retinal diseases. Human molecular genetics (2023)
Shu Wen, Meng Wang, Xinye Qian, Yumei Li, Keqing Wang, Jongsu Choi, Mark E Pennesi, Paul Yang, Molly Marra, Robert K Koenekoop, Irma Lopez, Anna Matynia, Michael Gorin, Ruifang Sui, Fengxia Yao, Kerry Goetz, Fernanda Belga Ottoni Porto, Rui Chen
Systematic assessment of the contribution of structural variants to inherited retinal diseases. Human molecular genetics (2023)
Rui Chen, Jin Li, Jun Wang, Ignacio Ibarra, Xuesen Cheng, Malte Daniel Luecken, Jiaxiong Liu, Aboozar Monavarfeshani, Wenjun Yan, Yiqiao Zheng, Zhen Zuo, Samantha Colborn, Berenice Cortez, Leah A Owen, Nicholas Tran, Karthik Shekhar, Joshua R Sanes, Tim Stout, Shiming Chen, Yumei Li, Margaret DeAngelis, Fabian Joachim Theis
Integrated multi-omics single cell atlas of the human retina. Research square (2023)
Jongsu Choi, Jin Li, Salma Ferdous, Qingnan Liang, Jeffrey R Moffitt, Rui Chen
Author Correction: Spatial organization of the mouse retina at single cell resolution by MERFISH. Nature communications 14 (1) (2023)
Hafiz Muhammad Jafar Hussain, Meng Wang, Austin Huang, Ryan Schmidt, Xinye Qian, Paul Yang, Molly Marra, Yumei Li, Mark E Pennesi, Rui Chen
Novel Pathogenic Mutations Identified from Whole-Genome Sequencing in Unsolved Cases of Patients Affected with Inherited Retinal Diseases. Genes 14 (2) (2023)
Jongsu Choi, Jin Li, Salma Ferdous, Qingnan Liang, Jeffrey R Moffitt, Rui Chen
Spatial organization of the mouse retina at single cell resolution by MERFISH. Nature communications 14 (1) (2023)
Hafiz Muhammad Jafar Hussain, Meng Wang, Austin Huang, Ryan Schmidt, Xinye Qian, Paul Yang, Molly Marra, Yumei Li, Mark E Pennesi, Rui Chen
Novel Pathogenic Mutations Identified from Whole-Genome Sequencing in Unsolved Cases of Patients Affected with Inherited Retinal Diseases. Genes 14 (2) (2023)
Komal Kumar Bollepogu Raja, Kelvin Yeung, Yoon-Kyung Shim, Yumei Li, Rui Chen, Chester W Brown
A single cell genomics atlas of the Drosophila larval eye reveals distinct photoreceptor developmental timelines. Nature communications 14 (1) (2023)
Qing Chen, Arun Kirshna Sasikala-Appukuttan, Zahabiya Husain, Anura Shrivastava, Marla Spain, Edward D Sendler, Bryce Daines, Stefan Fischer, Rui Chen, Tiffany A Cook, Markus Friedrich
Global gene expression analysis reveals complex cuticle organization of the Tribolium compound eye. Genome biology and evolution (2022)
Kelvin Yeung, Komal Kumar Bollepogu Raja, Yoon-Kyung Shim, Yumei Li, Rui Chen, Chester W Brown
Single cell RNA sequencing of the adult Drosophila eye reveals distinct clusters and novel marker genes for all major cell types. Communications biology 5 (1) (2022)
Harry MacKay, Chathura J Gunasekara, Kit-Yi Yam, Dollada Srisai, Hari Krishna Yalamanchili, Yumei Li, Rui Chen, Cristian Coarfa, Robert A Waterland
Sex-specific epigenetic development in the mouse hypothalamic arcuate nucleus pinpoints human genomic regions associated with body mass index. Science advances 8 (39) (2022)
Kelvin Yeung, Komal Kumar Bollepogu Raja, Yoon-Kyung Shim, Yumei Li, Rui Chen, Chester W Brown
Single cell RNA sequencing of the adult Drosophila eye reveals distinct clusters and novel marker genes for all major cell types. Communications biology 5 (1) (2022)
Kelvin Yeung, Komal Kumar Bollepogu Raja, Yoon-Kyung Shim, Yumei Li, Rui Chen, Chester W Brown
Single cell RNA sequencing of the adult Drosophila eye reveals distinct clusters and novel marker genes for all major cell types. Communications biology 5 (1) (2022)
Kelvin Yeung, Komal Kumar Bollepogu Raja, Yoon-Kyung Shim, Yumei Li, Rui Chen, Chester W Brown
Single cell RNA sequencing of the adult Drosophila eye reveals distinct clusters and novel marker genes for all major cell types. Communications biology 5 (1) (2022)
Raeesa Tehreem, Iris Chen, Mudassar Raza Shah, Yumei Li, Muzammil Ahmad Khan, Kiran Afshan, Rui Chen, Sabika Firasat
Exome Sequencing Identified Molecular Determinants of Retinal Dystrophies in Nine Consanguineous Pakistani Families. Genes 13 (9) (2022)
Jana Zernant, Winston Lee, Jun Wang, Kerry Goetz, Ehsan Ullah, Takayuki Nagasaki, Pei-Yin Su, Gerald A Fishman, Stephen H Tsang, Santa J Tumminia, Brian P Brooks, Robert B Hufnagel, Rui Chen, Rando Allikmets
Rare and common variants in ROM1 and PRPH2 genes trans-modify Stargardt/ABCA4 disease. PLoS genetics 18 (3) (2022)
Xiangguo Shi, Yajian Jiang, Ayumi Kitano, Tianyuan Hu, Rebecca L Murdaugh, Yuan Li, Kevin A Hoegenauer, Rui Chen, Koichi Takahashi, Daisuke Nakada
Nuclear NAD+ homeostasis governed by NMNAT1 prevents apoptosis of acute myeloid leukemia stem cells. Science advances 7 (30) (2021)
Renae Elaine Bertrand, Jun Wang, Yumei Li, Xuesen Cheng, Keqing Wang, Peter Stoilov, Rui Chen
Cwc27, associated with retinal degeneration, functions as a splicing factor in vivo. Human molecular genetics (2021)
Renae Elaine Bertrand, Jun Wang, Kaitlyn H Xiong, Chinthana Thangavel, Xinye Qian, Rola Ba-Abbad, Qingnan Liang, Renata T Simões, Shirley A M Sampaio, Keren J Carss, F Lucy Raymond, Anthony G Robson, Andrew R Webster, Gavin Arno, Fernanda Belga Ottoni Porto, Rui Chen
Ceramide synthase TLCD3B is a novel gene associated with human recessive retinal dystrophy. Genetics in medicine : official journal of the American College of Medical Genetics 23 (3) (2020)
Jun Wang, Hehe Liu, Renae Elaine Bertrand, Alejandro Sarrion-Perdigones, Yezabel Gonzalez, Koen J T Venken, Rui Chen
A novel statistical method for interpreting the pathogenicity of rare variants. Genetics in medicine : official journal of the American College of Medical Genetics 23 (1) (2020)
Thomas J Kean, Zhongqi Ge, Yumei Li, Rui Chen, James E Dennis
Transcriptome-Wide Analysis of Human Chondrocyte Expansion on Synoviocyte Matrix. Cells 8 (2) (2019)
Rachayata Dharmat, Aiden Eblimit, Michael A Robichaux, Zhixian Zhang, Thanh-Minh T Nguyen, Sung Yun Jung, Feng He, Antrix Jain, Yumei Li, Jun Qin, Paul Overbeek, Ronald Roepman, Chester W Brown, Theodore G Wensel, Rui Chen
SPATA7 maintains a novel photoreceptor-specific zone in the distal connecting cilium. The Journal of cell biology 217 (8) (2018)
Zachry T Soens, Justin Branch, Shijing Wu, Zhisheng Yuan, Yumei Li, Hui Li, Keqing Wang, Mingchu Xu, Lavan Rajan, Fabiana Louise Motta, Renata T Simões, Irma Lopez-Solache, Radwan Ajlan, David G Birch, Peiquan Zhao, Fernanda B Porto, Juliana Sallum, Robert K Koenekoop, Ruifang Sui, Rui Chen
Leveraging splice-affecting variant predictors and a minigene validation system to identify Mendelian disease-causing variants among exon-captured variants of uncertain significance. Human mutation 38 (11) (2017)

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Publication Activity (10 Years)

Top Topics

Top Venues

Rui Chen