Fan Zhang

ORCID

Publication Activity (10 Years)

Years Active: 2019-2024
Publications (10 Years): 35

Top Venues

Nature communications

Science translational medicine

bioRxiv : the preprint server for biology

medRxiv : the preprint server for health sciences

Worcester Polytechnic Institute (PHD)

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

Education History

Worcester Polytechnic Institute

United States

PHD

Publications

Nanxi Guo, Juan Vargas, Samantha Reynoso, Douglas Fritz, Revanth Krishna, Chuangqi Wang, Fan Zhang
Uncover spatially informed variations for single-cell spatial transcriptomics with STew. Bioinformatics advances 4 (1) (2024)
Zilong Bai, Nicholas Bartelo, Maryam Aslam, Elisabeth A Murphy, Caryn R Hale, Nathalie E Blachere, Salina Parveen, Edoardo Spolaore, Edward F DiCarlo, Ellen M Gravallese, Melanie H Smith, null null, Mayu O Frank, Caroline S Jiang, Haotan Zhang, Christina Pyrgaki, Myles J Lewis, Shafaq Sikandar, Costantino Pitzalis, Joseph B Lesnak, Khadijah Mazhar, Theodore John Price, Anne-Marie Malfait, Rachel E Miller, Fan Zhang, Susan M Goodman, Robert B Darnell, Fei Wang, Dana E Orange
Synovial fibroblast gene expression is associated with sensory nerve growth and pain in rheumatoid arthritis. Science translational medicine 16 (742) (2024)
Carlos A Donado, A Helena Jonsson, Erin Theisen, Fan Zhang, Aparna Nathan, Karishma Vijay Rupani, Dominique Jones, null null, Soumya Raychaudhuri, Daniel F Dwyer, Michael B Brenner
Granzyme K drives a newly-intentified pathway of complement activation. bioRxiv : the preprint server for biology (2024)
Kathryn Weinand, Saori Sakaue, Aparna Nathan, Anna Helena Jonsson, Fan Zhang, Gerald F M Watts, Majd Al Suqri, Zhu Zhu, null null, Deepak A Rao, Jennifer H Anolik, Michael B Brenner, Laura T Donlin, Kevin Wei, Soumya Raychaudhuri
The chromatin landscape of pathogenic transcriptional cell states in rheumatoid arthritis. Nature communications 15 (1) (2024)
Garrett S Dunlap, Aaron Wagner, Nida Meednu, Ruoqiao Huiyi Wang, Fan Zhang, Jabea Cyril Ekabe, Anna Helena Jonsson, Kevin Wei, Saori Sakaue, Aparna Nathan, null null, Vivian P Bykerk, Laura T Donlin, Susan M Goodman, Gary S Firestein, David L Boyle, V Michael Holers, Larry W Moreland, Darren Tabechian, Costantino Pitzalis, Andrew Filer, Soumya Raychaudhuri, Michael B Brenner, Juilee Thakar, Andrew McDavid, Deepak A Rao, Jennifer H Anolik
Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium. Nature communications 15 (1) (2024)
Garrett S Dunlap, Aaron Wagner, Nida Meednu, Ruoqiao Huiyi Wang, Fan Zhang, Jabea Cyril Ekabe, Anna Helena Jonsson, Kevin Wei, Saori Sakaue, Aparna Nathan, null null, Vivian P Bykerk, Laura T Donlin, Susan M Goodman, Gary S Firestein, David L Boyle, V Michael Holers, Larry W Moreland, Darren Tabechian, Costantino Pitzalis, Andrew Filer, Soumya Raychaudhuri, Michael B Brenner, Juilee Thakar, Andrew McDavid, Deepak A Rao, Jennifer H Anolik
Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium. Nature communications 15 (1) (2024)
Kathryn Weinand, Saori Sakaue, Aparna Nathan, Anna Helena Jonsson, Fan Zhang, Gerald F M Watts, Majd Al Suqri, Zhu Zhu, null null, Deepak A Rao, Jennifer H Anolik, Michael B Brenner, Laura T Donlin, Kevin Wei, Soumya Raychaudhuri
The chromatin landscape of pathogenic transcriptional cell states in rheumatoid arthritis. Nature communications 15 (1) (2024)
Alice Horisberger, Alec Griffith, Joshua Keegan, Arnon Arazi, John Pulford, Ekaterina Murzin, Kaitlyn Howard, Brandon Hancock, Andrea Fava, Takanori Sasaki, Tusharkanti Ghosh, Jun Inamo, Rebecca Beuschel, Ye Cao, Katie Preisinger, Maria Gutierrez-Arcelus, Thomas M Eisenhaure, Joel M Guthridge, Paul J Hoover, Maria Dall'Era, David Wofsy, Diane L Kamen, Kenneth C Kalunian, Richard Furie, Michael Belmont, Peter Izmirly, Robert Clancy, David A Hildeman, E Steve Woodle, William Apruzzese, Maureen A McMahon, Jennifer Grossman, Jennifer L Barnas, Fernanda Payan-Schober, Mariko Ishimori, Michael Weisman, Matthias Kretzler, Celine C Berthier, Jeffrey B Hodgin, Dawit S Demeke, Chaim Putterman, null null, Michael B Brenner, Jennifer H Anolik, Soumya Raychaudhuri, Nir Hacohen, Judith A James, Anne Davidson, Michelle A Petri, Jill P Buyon, Betty Diamond, Fan Zhang, James A Lederer, Deepak A Rao
Blood immunophenotyping identifies distinct kidney histopathology and outcomes in patients with lupus nephritis. bioRxiv : the preprint server for biology (2024)
Garrett S Dunlap, Aaron Wagner, Nida Meednu, Ruoqiao Huiyi Wang, Fan Zhang, Jabea Cyril Ekabe, Anna Helena Jonsson, Kevin Wei, Saori Sakaue, Aparna Nathan, null null, Vivian P Bykerk, Laura T Donlin, Susan M Goodman, Gary S Firestein, David L Boyle, V Michael Holers, Larry W Moreland, Darren Tabechian, Costantino Pitzalis, Andrew Filer, Soumya Raychaudhuri, Michael B Brenner, Juilee Thakar, Andrew McDavid, Deepak A Rao, Jennifer H Anolik
Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium. Nature communications 15 (1) (2024)
Kathryn Weinand, Saori Sakaue, Aparna Nathan, Anna Helena Jonsson, Fan Zhang, Gerald F M Watts, Majd Al Suqri, Zhu Zhu, null null, Deepak A Rao, Jennifer H Anolik, Michael B Brenner, Laura T Donlin, Kevin Wei, Soumya Raychaudhuri
The chromatin landscape of pathogenic transcriptional cell states in rheumatoid arthritis. Nature communications 15 (1) (2024)
Zilong Bai, Nicholas Bartelo, Maryam Aslam, Elisabeth A Murphy, Caryn R Hale, Nathalie E Blachere, Salina Parveen, Edoardo Spolaore, Edward F DiCarlo, Ellen M Gravallese, Melanie H Smith, null null, Mayu O Frank, Caroline S Jiang, Haotan Zhang, Christina Pyrgaki, Myles J Lewis, Shafaq Sikandar, Costantino Pitzalis, Joseph B Lesnak, Khadijah Mazhar, Theodore John Price, Anne-Marie Malfait, Rachel E Miller, Fan Zhang, Susan M Goodman, Robert B Darnell, Fei Wang, Dana E Orange
Synovial fibroblast gene expression is associated with sensory nerve growth and pain in rheumatoid arthritis. Science translational medicine 16 (742) (2024)
Kathryn Weinand, Saori Sakaue, Aparna Nathan, Anna Helena Jonsson, Fan Zhang, Gerald F M Watts, Majd Al Suqri, Zhu Zhu, null null, Deepak A Rao, Jennifer H Anolik, Michael B Brenner, Laura T Donlin, Kevin Wei, Soumya Raychaudhuri
The chromatin landscape of pathogenic transcriptional cell states in rheumatoid arthritis. Nature communications 15 (1) (2024)
Alice Horisberger, Alec Griffith, Joshua Keegan, Arnon Arazi, John Pulford, Ekaterina Murzin, Kaitlyn Howard, Brandon Hancock, Andrea Fava, Takanori Sasaki, Tusharkanti Ghosh, Jun Inamo, Rebecca Beuschel, Ye Cao, Katie Preisinger, Maria Gutierrez-Arcelus, Thomas M Eisenhaure, Joel M Guthridge, Paul J Hoover, Maria Dall'Era, David Wofsy, Diane L Kamen, Kenneth C Kalunian, Richard Furie, Michael Belmont, Peter Izmirly, Robert Clancy, David A Hildeman, E Steve Woodle, William Apruzzese, Maureen A McMahon, Jennifer Grossman, Jennifer L Barnas, Fernanda Payan-Schober, Mariko Ishimori, Michael Weisman, Matthias Kretzler, Celine C Berthier, Jeffrey B Hodgin, Dawit S Demeke, Chaim Putterman, null null, Michael B Brenner, Jennifer H Anolik, Soumya Raychaudhuri, Nir Hacohen, Judith A James, Anne Davidson, Michelle A Petri, Jill P Buyon, Betty Diamond, Fan Zhang, James A Lederer, Deepak A Rao
Blood immunophenotyping identifies distinct kidney histopathology and outcomes in patients with lupus nephritis. bioRxiv : the preprint server for biology (2024)
Garrett S Dunlap, Aaron Wagner, Nida Meednu, Ruoqiao Huiyi Wang, Fan Zhang, Jabea Cyril Ekabe, Anna Helena Jonsson, Kevin Wei, Saori Sakaue, Aparna Nathan, null null, Vivian P Bykerk, Laura T Donlin, Susan M Goodman, Gary S Firestein, David L Boyle, V Michael Holers, Larry W Moreland, Darren Tabechian, Costantino Pitzalis, Andrew Filer, Soumya Raychaudhuri, Michael B Brenner, Juilee Thakar, Andrew McDavid, Deepak A Rao, Jennifer H Anolik
Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium. Nature communications 15 (1) (2024)
Carlos A Donado, A Helena Jonsson, Erin Theisen, Fan Zhang, Aparna Nathan, Karishma Vijay Rupani, Dominique Jones, null null, Soumya Raychaudhuri, Daniel F Dwyer, Michael B Brenner
Granzyme K drives a newly-intentified pathway of complement activation. bioRxiv : the preprint server for biology (2024)
Zilong Bai, Nicholas Bartelo, Maryam Aslam, Elisabeth A Murphy, Caryn R Hale, Nathalie E Blachere, Salina Parveen, Edoardo Spolaore, Edward F DiCarlo, Ellen M Gravallese, Melanie H Smith, null null, Mayu O Frank, Caroline S Jiang, Haotan Zhang, Christina Pyrgaki, Myles J Lewis, Shafaq Sikandar, Costantino Pitzalis, Joseph B Lesnak, Khadijah Mazhar, Theodore John Price, Anne-Marie Malfait, Rachel E Miller, Fan Zhang, Susan M Goodman, Robert B Darnell, Fei Wang, Dana E Orange
Synovial fibroblast gene expression is associated with sensory nerve growth and pain in rheumatoid arthritis. Science translational medicine 16 (742) (2024)
Zilong Bai, Nicholas Bartelo, Maryam Aslam, Elisabeth A Murphy, Caryn R Hale, Nathalie E Blachere, Salina Parveen, Edoardo Spolaore, Edward F DiCarlo, Ellen M Gravallese, Melanie H Smith, null null, Mayu O Frank, Caroline S Jiang, Haotan Zhang, Christina Pyrgaki, Myles J Lewis, Shafaq Sikandar, Costantino Pitzalis, Joseph B Lesnak, Khadijah Mazhar, Theodore John Price, Anne-Marie Malfait, Rachel E Miller, Fan Zhang, Susan M Goodman, Robert B Darnell, Fei Wang, Dana E Orange
Synovial fibroblast gene expression is associated with sensory nerve growth and pain in rheumatoid arthritis. Science translational medicine 16 (742) (2024)
Garrett S Dunlap, Aaron Wagner, Nida Meednu, Ruoqiao Huiyi Wang, Fan Zhang, Jabea Cyril Ekabe, Anna Helena Jonsson, Kevin Wei, Saori Sakaue, Aparna Nathan, null null, Vivian P Bykerk, Laura T Donlin, Susan M Goodman, Gary S Firestein, David L Boyle, V Michael Holers, Larry W Moreland, Darren Tabechian, Costantino Pitzalis, Andrew Filer, Soumya Raychaudhuri, Michael B Brenner, Juilee Thakar, Andrew McDavid, Deepak A Rao, Jennifer H Anolik
Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium. Nature communications 15 (1) (2024)
Nanxi Guo, Juan Vargas, Samantha Reynoso, Douglas Fritz, Revanth Krishna, Chuangqi Wang, Fan Zhang
Uncover spatially informed variations for single-cell spatial transcriptomics with STew. Bioinformatics advances 4 (1) (2024)
Carlos A Donado, A Helena Jonsson, Erin Theisen, Fan Zhang, Aparna Nathan, Karishma Vijay Rupani, Dominique Jones, null null, Soumya Raychaudhuri, Daniel F Dwyer, Michael B Brenner
Granzyme K drives a newly-intentified pathway of complement activation. bioRxiv : the preprint server for biology (2024)
Garrett S Dunlap, Aaron Wagner, Nida Meednu, Ruoqiao Huiyi Wang, Fan Zhang, Jabea Cyril Ekabe, Anna Helena Jonsson, Kevin Wei, Saori Sakaue, Aparna Nathan, null null, Vivian P Bykerk, Laura T Donlin, Susan M Goodman, Gary S Firestein, David L Boyle, V Michael Holers, Larry W Moreland, Darren Tabechian, Costantino Pitzalis, Andrew Filer, Soumya Raychaudhuri, Michael B Brenner, Juilee Thakar, Andrew McDavid, Deepak A Rao, Jennifer H Anolik
Clonal associations between lymphocyte subsets and functional states in rheumatoid arthritis synovium. Nature communications 15 (1) (2024)
Carlos A Donado, A Helena Jonsson, Erin Theisen, Fan Zhang, Aparna Nathan, Karishma Vijay Rupani, Dominique Jones, null null, Soumya Raychaudhuri, Daniel F Dwyer, Michael B Brenner
Granzyme K drives a newly-intentified pathway of complement activation. bioRxiv : the preprint server for biology (2024)
Zilong Bai, Nicholas Bartelo, Maryam Aslam, Elisabeth A Murphy, Caryn R Hale, Nathalie E Blachere, Salina Parveen, Edoardo Spolaore, Edward F DiCarlo, Ellen M Gravallese, Melanie H Smith, null null, Mayu O Frank, Caroline S Jiang, Haotan Zhang, Christina Pyrgaki, Myles J Lewis, Shafaq Sikandar, Costantino Pitzalis, Joseph B Lesnak, Khadijah Mazhar, Theodore John Price, Anne-Marie Malfait, Rachel E Miller, Fan Zhang, Susan M Goodman, Robert B Darnell, Fei Wang, Dana E Orange
Synovial fibroblast gene expression is associated with sensory nerve growth and pain in rheumatoid arthritis. Science translational medicine 16 (742) (2024)
Joyce B Kang, Amber Z Shen, Saisriram Gurajala, Aparna Nathan, Laurie Rumker, Vitor R C Aguiar, Cristian Valencia, Kaitlyn A Lagattuta, Fan Zhang, Anna Helena Jonsson, Seyhan Yazar, Jose Alquicira-Hernandez, Hamed Khalili, Ashwin N Ananthakrishnan, Karthik A Jagadeesh, Kushal K Dey, null null, Mark J Daly, Ramnik J Xavier, Laura T Donlin, Jennifer H Anolik, Joseph E Powell, Deepak A Rao, Michael B Brenner, Maria Gutierrez-Arcelus, Yang Luo, Saori Sakaue, Soumya Raychaudhuri
Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution. Nature genetics (2023)
Jun Inamo, Joshua Keegan, Alec Griffith, Tusharkanti Ghosh, Alice Horisberger, Kaitlyn Howard, John Pulford, Ekaterina Murzin, Brandon Hancock, Anna Helena Jonsson, Jennifer Seifert, Marie L Feser, Jill M Norris, Ye Cao, William Apruzzese, S Louis Bridges, Vivian Bykerk, Susan Goodman, Laura T Donlin, Gary S Firestein, Harris Perlman, Joan M Bathon, Laura B Hughes, Darren Tabechian, Andrew Filer, Costantino Pitzalis, Jennifer H Anolik, Larry Moreland, Joel M Guthridge, Judith A James, Michael B Brenner, Soumya Raychaudhuri, Jeffrey A Sparks, null null, V Michael Holers, Kevin D Deane, James A Lederer, Deepak A Rao, Fan Zhang
Deep immunophenotyping reveals circulating activated lymphocytes in individuals at risk for rheumatoid arthritis. bioRxiv : the preprint server for biology (2023)
Joyce B Kang, Amber Z Shen, Saori Sakaue, Yang Luo, Saisriram Gurajala, Aparna Nathan, Laurie Rumker, Vitor R C Aguiar, Cristian Valencia, Kaitlyn Lagattuta, Fan Zhang, Anna Helena Jonsson, Seyhan Yazar, Jose Alquicira Hernandez, Hamed Khalili, Ashwin N Ananthakrishnan, Karthik Jagadeesh, Kushal Dey, null null, Mark J Daly, Ramnik J Xavier, Laura T Donlin, Jennifer H Anolik, Joseph E Powell, Deepak A Rao, Michael B Brenner, Maria Gutierrez-Arcelus, Soumya Raychaudhuri
Mapping the dynamic genetic regulatory architecture of HLA genes at single-cell resolution. medRxiv : the preprint server for health sciences (2023)
Fan Zhang, Anna Helena Jonsson, Aparna Nathan, Nghia Millard, Michelle Curtis, Qian Xiao, Maria Gutierrez-Arcelus, William Apruzzese, Gerald F M Watts, Dana Weisenfeld, Saba Nayar, Javier Rangel-Moreno, Nida Meednu, Kathryne E Marks, Ian Mantel, Joyce B Kang, Laurie Rumker, Joseph Mears, Kamil Slowikowski, Kathryn Weinand, Dana E Orange, Laura Geraldino-Pardilla, Kevin D Deane, Darren Tabechian, Arnoldas Ceponis, Gary S Firestein, Mark Maybury, Ilfita Sahbudin, Ami Ben-Artzi, Arthur M Mandelin, Alessandra Nerviani, Myles J Lewis, Felice Rivellese, Costantino Pitzalis, Laura B Hughes, Diane Horowitz, Edward DiCarlo, Ellen M Gravallese, Brendan F Boyce, null null, Larry W Moreland, Susan M Goodman, Harris Perlman, V Michael Holers, Katherine P Liao, Andrew Filer, Vivian P Bykerk, Kevin Wei, Deepak A Rao, Laura T Donlin, Jennifer H Anolik, Michael B Brenner, Soumya Raychaudhuri
Deconstruction of rheumatoid arthritis synovium defines inflammatory subtypes. Nature (2023)
Zilong Bai, Nicholas Bartelo, Maryam Aslam, Caryn Hale, Nathalie E Blachere, Salina Parveen, Edoardo Spolaore, Edward DiCarlo, Ellen Gravallese, Melanie H Smith, null null, Mayu O Frank, Caroline S Jiang, Haotan Zhang, Myles J Lewis, Shafaq Sikandar, Costantino Pitzalis, Anne-Marie Malfait, Rachel E Miller, Fan Zhang, Susan Goodman, Robert B Darnell, Fei Wang, Dana E Orange
Machine Learning Reveals Synovial Fibroblast Genes Associated with Pain Affect Sensory Nerve Growth in Rheumatoid Arthritis. medRxiv : the preprint server for health sciences (2023)
Anna Helena Jonsson, Fan Zhang, Garrett S Dunlap, Emma Gomez-Rivas, Gerald F M Watts, Heather J Faust, Karishma Vijay Rupani, Joseph R Mears, Nida Meednu, Runci Wang, Gregory Keras, Jonathan S Coblyn, Elena M Massarotti, Derrick J Todd, Jennifer H Anolik, Andrew N McDavid, null null, Kevin Wei, Deepak A Rao, Soumya Raychaudhuri, Michael B Brenner
Granzyme K + CD8 T cells form a core population in inflamed human tissue. Science translational medicine 14 (649) (2022)
Vijayashree Mysore, Xavier Cullere, Joseph Mears, Florencia Rosetti, Koshu Okubo, Pei Xiong Liew, Fan Zhang, Iris Karina Madera-Salcedo, Frank Rosenbauer, Richard M Stone, Jon C Aster, Ulrich H von Andrian, Andrew H Lichtman, Soumya Raychaudhuri, Tanya N Mayadas
FcγR engagement reprograms neutrophils into antigen cross-presenting cells that elicit acquired anti-tumor immunity. Nature communications 12 (1) (2021)
Joyce B Kang, Aparna Nathan, Kathryn Weinand, Fan Zhang, Nghia Millard, Laurie Rumker, D Branch Moody, Ilya Korsunsky, Soumya Raychaudhuri
Efficient and precise single-cell reference atlas mapping with Symphony. Nature communications 12 (1) (2021)
Jean Fan, Kamil Slowikowski, Fan Zhang
Single-cell transcriptomics in cancer: computational challenges and opportunities. Experimental & molecular medicine 52 (9) (2020)
David Kuo, Jennifer Ding, Ian S Cohn, Fan Zhang, Kevin Wei, Deepak A Rao, Cristina Rozo, Upneet K Sokhi, Sara Shanaj, David J Oliver, Adriana P Echeverria, Edward F DiCarlo, Michael B Brenner, Vivian P Bykerk, Susan M Goodman, Soumya Raychaudhuri, Gunnar Rätsch, Lionel B Ivashkiv, Laura T Donlin
HBEGF+ macrophages in rheumatoid arthritis induce fibroblast invasiveness. Science translational medicine 11 (491) (2020)
Ilya Korsunsky, Nghia Millard, Jean Fan, Kamil Slowikowski, Fan Zhang, Kevin Wei, Yuriy Baglaenko, Michael Brenner, Po-Ru Loh, Soumya Raychaudhuri
Fast, sensitive and accurate integration of single-cell data with Harmony. Nature methods 16 (12) (2019)
Fan Zhang, Kevin Wei, Kamil Slowikowski, Chamith Y Fonseka, Deepak A Rao, Stephen Kelly, Susan M Goodman, Darren Tabechian, Laura B Hughes, Karen Salomon-Escoto, Gerald F M Watts, Anna Helena Jonsson, Javier Rangel-Moreno, Nida Meednu, Cristina Rozo, William Apruzzese, Thomas M Eisenhaure, David J Lieb, David L Boyle, Arthur M Mandelin, null null, Brendan F Boyce, Edward DiCarlo, Ellen M Gravallese, Peter K Gregersen, Larry Moreland, Gary S Firestein, Nir Hacohen, Chad Nusbaum, James A Lederer, Harris Perlman, Costantino Pitzalis, Andrew Filer, V Michael Holers, Vivian P Bykerk, Laura T Donlin, Jennifer H Anolik, Michael B Brenner, Soumya Raychaudhuri
Defining inflammatory cell states in rheumatoid arthritis joint synovial tissues by integrating single-cell transcriptomics and mass cytometry. Nature immunology 20 (7) (2019)

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Publication Activity (10 Years)

Top Topics

Top Venues

Fan Zhang