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Featured

2024

Journal Article

Acid-sensing ion channel 1a blockade reduces myocardial injury in rodent models of myocardial infarction

Redd, Meredith A, Yoshikawa, Yusuke, Khan, Nemat, Waqar, Maleeha, Saez, Natalie J, Outhwaite, Jennifer E, Russell, Jake S, Hanna, Amy D, Chiu, Han S, Er, Sing Yan, Butcher, Neville J, Mardon, Karine, Fraser, John F, Smythe, Mark L, Rash, Lachlan D, Thomas, Walter G, King, Glenn F, Reichelt, Melissa E and Palpant, Nathan J (2024). Acid-sensing ion channel 1a blockade reduces myocardial injury in rodent models of myocardial infarction. European Heart Journal, 45 (17), 1571-1574. doi: 10.1093/eurheartj/ehad793

Acid-sensing ion channel 1a blockade reduces myocardial injury in rodent models of myocardial infarction

Featured

2024

Journal Article

Wnt dose escalation during the exit from pluripotency identifies tranilast as a regulator of cardiac mesoderm

Wu, Zhixuan, Shen, Sophie, Mizikovsky, Dalia, Cao, Yuanzhao, Naval-Sanchez, Marina, Tan, Siew Zhuan, Alvarez, Yanina D., Sun, Yuliangzi, Chen, Xiaoli, Zhao, Qiongyi, Kim, Daniel, Yang, Pengyi, Hill, Timothy A., Jones, Alun, Fairlie, David P., Pébay, Alice, Hewitt, Alex W., Tam, Patrick P.L., White, Melanie D., Nefzger, Christian M. and Palpant, Nathan J. (2024). Wnt dose escalation during the exit from pluripotency identifies tranilast as a regulator of cardiac mesoderm. Developmental Cell, 59 (6), 705-722.e8. doi: 10.1016/j.devcel.2024.01.019

Wnt dose escalation during the exit from pluripotency identifies tranilast as a regulator of cardiac mesoderm

2023

Journal Article

HOPX-associated molecular programs control cardiomyocyte cell states underpinning cardiac structure and function

Friedman, Clayton E., Cheetham, Seth W., Negi, Sumedha, Mills, Richard J., Ogawa, Masahito, Redd, Meredith A., Chiu, Han Sheng, Shen, Sophie, Sun, Yuliangzi, Mizikovsky, Dalia, Bouveret, Romaric, Chen, Xiaoli, Voges, Holly K., Paterson, Scott, De Angelis, Jessica E., Andersen, Stacey B., Cao, Yuanzhao, Wu, Yang, Jafrani, Yohaann M.A., Yoon, Sohye, Faulkner, Geoffrey J., Smith, Kelly A., Porrello, Enzo, Harvey, Richard P., Hogan, Benjamin M., Nguyen, Quan, Zeng, Jian, Kikuchi, Kazu, Hudson, James E. and Palpant, Nathan J. (2023). HOPX-associated molecular programs control cardiomyocyte cell states underpinning cardiac structure and function. Developmental Cell, 59 (1), 91-107.e1. doi: 10.1016/j.devcel.2023.11.012

HOPX-associated molecular programs control cardiomyocyte cell states underpinning cardiac structure and function

2023

Journal Article

Inferring cell diversity in single cell data using consortium-scale epigenetic data as a biological anchor for cell identity

Sun, Yuliangzi, Shim, Woo Jun, Shen, Sophie, Sinniah, Enakshi, Pham, Duy, Su, Zezhuo, Mizikovsky, Dalia, White, Melanie D., Ho, Joshua W. K., Nguyen, Quan, Bodén, Mikael and Palpant, Nathan J (2023). Inferring cell diversity in single cell data using consortium-scale epigenetic data as a biological anchor for cell identity. Nucleic Acids Research, 51 (11), e62-e62. doi: 10.1093/nar/gkad307

Inferring cell diversity in single cell data using consortium-scale epigenetic data as a biological anchor for cell identity

Featured

2022

Journal Article

Organization of gene programs revealed by unsupervised analysis of diverse gene–trait associations

Mizikovsky, Dalia, Naval Sanchez, Marina, Nefzger, Christian M, Cuellar Partida, Gabriel and Palpant, Nathan J (2022). Organization of gene programs revealed by unsupervised analysis of diverse gene–trait associations. Nucleic Acids Research, 50 (15) e87, 1-12. doi: 10.1093/nar/gkac413

Organization of gene programs revealed by unsupervised analysis of diverse gene–trait associations

2021

Journal Article

Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiation

Shen, Sophie, Sun, Yuliangzi, Matsumoto, Maika, Shim, Woo Jun, Sinniah, Enakshi, Wilson, Sean B., Werner, Tessa, Wu, Zhixuan, Bradford, Stephen T., Hudson, James, Little, Melissa H., Powell, Joseph, Nguyen, Quan and Palpant, Nathan J. (2021). Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiation. Trends in Molecular Medicine, 27 (12), 1135-1158. doi: 10.1016/j.molmed.2021.09.006

Integrating single-cell genomics pipelines to discover mechanisms of stem cell differentiation

2021

Journal Article

Therapeutic inhibition of acid sensing ion channel 1a recovers heart function after ischemia-reperfusion injury

Redd, Meredith A., Scheuer, Sarah E., Saez, Natalie J., Yoshikawa, Yusuke, Chiu, Han Sheng, Gao, Ling, Hicks, Mark, Villanueva, Jeanette E., Joshi, Yashutosh, Chow, Chun Yuen, Cuellar-Partida, Gabriel, Peart, Jason N., See Hoe, Louise E., Chen, Xiaoli, Sun, Yuliangzi, Suen, Jacky Y., Hatch, Robert J., Rollo, Ben, Xiao, Di, Alzubaidi, Mubarak A.H., Maljevic, Snezana, Quaife-Ryan, Gregory A., Hudson, James E., Porrello, Enzo R., White, Melanie Y., Cordwell, Stuart J., Fraser, John F., Petrou, Steven, Reichelt, Melissa E. ... Palpant, Nathan J. (2021). Therapeutic inhibition of acid sensing ion channel 1a recovers heart function after ischemia-reperfusion injury. Circulation, 144 (12), 947-960. doi: 10.1161/circulationaha.121.054360

Therapeutic inhibition of acid sensing ion channel 1a recovers heart function after ischemia-reperfusion injury

2020

Journal Article

Conserved epigenetic regulatory logic infers genes governing cell identity

Shim, Woo Jun, Sinniah, Enakshi, Xu, Jun, Vitrinel, Burcu, Alexanian, Michael, Andreoletti, Gaia, Shen, Sophie, Sun, Yuliangzi, Balderson, Brad, Boix, Carles, Peng, Guangdun, Jing, Naihe, Wang, Yuliang, Kellis, Manolis, Tam, Patrick P L, Smith, Aaron, Piper, Michael, Christiaen, Lionel, Nguyen, Quan, Bodén, Mikael and Palpant, Nathan J. (2020). Conserved epigenetic regulatory logic infers genes governing cell identity. Cell Systems, 11 (6), 625-639.e13. doi: 10.1016/j.cels.2020.11.001

Conserved epigenetic regulatory logic infers genes governing cell identity

Featured

2018

Journal Article

Single-cell transcriptomic analysis of cardiac differentiation from human PSCs reveals HOPX-dependent cardiomyocyte maturation

Friedman, Clayton E., Nguyen, Quan, Lukowski, Samuel W., Helfer, Abbigail, Chiu, Han Sheng, Miklas, Jason, Levy, Shiri, Suo, Shengbao, Han, Jing-Dong Jackie, Osteil, Pierre, Peng, Guangdun, Jing, Naihe, Baillie, Greg J., Senabouth, Anne, Christ, Angelika N., Bruxner, Timothy J., Murry, Charles E., Wong, Emily S., Ding, Jun, Wang, Yuliang, Hudson, James, Ruohola-Baker, Hannele, Bar-Joseph, Ziv, Tam, Patrick P.L., Powell, Joseph E. and Palpant, Nathan J. (2018). Single-cell transcriptomic analysis of cardiac differentiation from human PSCs reveals HOPX-dependent cardiomyocyte maturation. Cell Stem Cell, 23 (4), 586-598. doi: 10.1016/j.stem.2018.09.009

Single-cell transcriptomic analysis of cardiac differentiation from human PSCs reveals HOPX-dependent cardiomyocyte maturation

2025

Journal Article

Atlas of multilineage stem cell differentiation reveals TMEM88 as a developmental regulator of blood pressure

Shen, Sophie, Werner, Tessa, Lukowski, Samuel W., Andersen, Stacey, Sun, Yuliangzi, Shim, Woo Jun, Mizikovsky, Dalia, Kobayashi, Sakurako, Outhwaite, Jennifer, Chiu, Han Sheng, Chen, Xiaoli, Chapman, Gavin, Martin, Ella M. M. A., Xia, Di, Pham, Duy, Su, Zezhuo, Kim, Daniel, Yang, Pengyi, Tan, Men Chee, Sinniah, Enakshi, Zhao, Qiongyi, Negi, Sumedha, Redd, Meredith A., Powell, Joseph E., Dunwoodie, Sally L., Tam, Patrick P. L., Bodén, Mikael, Ho, Joshua W. K., Nguyen, Quan and Palpant, Nathan J. (2025). Atlas of multilineage stem cell differentiation reveals TMEM88 as a developmental regulator of blood pressure. Nature Communications, 16 (1) 1356, 1356-1. doi: 10.1038/s41467-025-56533-2

Atlas of multilineage stem cell differentiation reveals TMEM88 as a developmental regulator of blood pressure

2025

Journal Article

Glycaemic variability underlies myocyte dysfunction and myocardial injury risk in diabetes

Cao, Yuanzhao, Redd, Meredith, Outhwaite, Jennifer, Mizikovsky, Dalia, Shim, Woo Jun, Fang, Chen, Wu, Zhixuan, Daygon, Dara, Stark, Terra, Palfreyman, Robin, Chiu, Han Sheng, Tan, Clarissa, Thomas, Ulrich, Dragicevic, Elena, Sng, Julian, Barrett, Helen, Dorey, Emily, Shah, Sonia, Short, Kirsty and Palpant, Nathan J. (2025). Glycaemic variability underlies myocyte dysfunction and myocardial injury risk in diabetes. doi: 10.1101/2025.01.29.635173

Glycaemic variability underlies myocyte dysfunction and myocardial injury risk in diabetes

2025

Journal Article

TRIAGE: an R package for regulatory gene analysis

Zhao, Qiongyi, Shim, Woo Jun, Sun, Yuliangzi, Sinniah, Enakshi, Shen, Sophie, Boden, Mikael and Palpant, Nathan J. (2025). TRIAGE: an R package for regulatory gene analysis. Briefings in Bioinformatics, 26 (1) bbaf004, 1-13. doi: 10.1093/bib/bbaf004

TRIAGE: an R package for regulatory gene analysis

2024

Journal Article

Post-acute sequelae of SARS-CoV-2 cardiovascular symptoms are associated with trace-level cytokines that affect cardiomyocyte function

Sinclair, Jane E., Vedelago, Courtney, Ryan, Feargal J., Carney, Meagan, Redd, Meredith A., Lynn, Miriam A., Grubor-Bauk, Branka, Cao, Yuanzhao, Henders, Anjali K., Chew, Keng Yih, Gilroy, Deborah, Greaves, Kim, Labzin, Larisa, Ziser, Laura, Ronacher, Katharina, Wallace, Leanne M., Zhang, Yiwen, Macauslane, Kyle, Ellis, Daniel J., Rao, Sudha, Burr, Lucy, Bain, Amanda, Karawita, Anjana, Schulz, Benjamin L., Li, Junrong, Lynn, David J., Palpant, Nathan, Wuethrich, Alain, Trau, Matt and Short, Kirsty R. (2024). Post-acute sequelae of SARS-CoV-2 cardiovascular symptoms are associated with trace-level cytokines that affect cardiomyocyte function. Nature Microbiology, 9 (12), 1-13. doi: 10.1038/s41564-024-01838-z

Post-acute sequelae of SARS-CoV-2 cardiovascular symptoms are associated with trace-level cytokines that affect cardiomyocyte function

2024

Journal Article

A community-oriented, data-driven resource to improve protocol design for cardiac modelling from human pluripotent stem cells

Chow, Chris Siu Yeung, Negi, Sumedha, Bao, Shaine, Fang, Chen, Hudson, James, Shim, Woo Jun, Yuanzhao Cao and Palpant, Nathan (2024). A community-oriented, data-driven resource to improve protocol design for cardiac modelling from human pluripotent stem cells. doi: 10.1101/2024.09.04.611313

A community-oriented, data-driven resource to improve protocol design for cardiac modelling from human pluripotent stem cells

2024

Journal Article

High-content fluorescence bioassay investigates pore formation, ion channel modulation and cell membrane lysis induced by venoms

Kramer, Simon, Kotapati, Charan, Cao, Yuanzhao, Fry, Bryan G., Palpant, Nathan J., King, Glenn F. and Cardoso, Fernanda C. (2024). High-content fluorescence bioassay investigates pore formation, ion channel modulation and cell membrane lysis induced by venoms. Toxicon: X, 21 100184. doi: 10.1016/j.toxcx.2024.100184

High-content fluorescence bioassay investigates pore formation, ion channel modulation and cell membrane lysis induced by venoms

2024

Journal Article

Cellular heterogeneity of pluripotent stem cell-derived cardiomyocyte grafts is mechanistically linked to treatable arrhythmias

Selvakumar, Dinesh, Clayton, Zoe E., Prowse, Andrew, Dingwall, Steve, Kim, Sul Ki, Reyes, Leila, George, Jacob, Shah, Haisam, Chen, Siqi, Leung, Halina H. L., Hume, Robert D., Tjahjadi, Laurentius, Igoor, Sindhu, Skelton, Rhys J. P., Hing, Alfred, Paterson, Hugh, Foster, Sheryl L., Pearson, Lachlan, Wilkie, Emma, Marcus, Alan D., Jeyaprakash, Prajith, Wu, Zhixuan, Chiu, Han Shen, Ongtengco, Cherica Felize J., Mulay, Onkar, McArthur, Jeffrey R., Barry, Tony, Lu, Juntang, Tran, Vu ... Chong, James J. H. (2024). Cellular heterogeneity of pluripotent stem cell-derived cardiomyocyte grafts is mechanistically linked to treatable arrhythmias. Nature Cardiovascular Research, 3 (2), 145-165. doi: 10.1038/s44161-023-00419-3

Cellular heterogeneity of pluripotent stem cell-derived cardiomyocyte grafts is mechanistically linked to treatable arrhythmias

2023

Journal Article

A village in a dish model system for population-scale hiPSC studies

Neavin, Drew R., Steinmann, Angela M., Farbehi, Nona, Chiu, Han Sheng, Daniszewski, Maciej S., Arora, Himanshi, Bermudez, Yasmin, Moutinho, Cátia, Chan, Chia-Ling, Bax, Monique, Tyebally, Mubarika, Gnanasambandapillai, Vikkitharan, Lam, Chuan E., Nguyen, Uyen, Hernández, Damián, Lidgerwood, Grace E., Graham, Robert M., Hewitt, Alex W., Pébay, Alice, Palpant, Nathan J. and Powell, Joseph E. (2023). A village in a dish model system for population-scale hiPSC studies. Nature Communications, 14 (1) 3240, 1-12. doi: 10.1038/s41467-023-38704-1

A village in a dish model system for population-scale hiPSC studies

2023

Journal Article

Vascular cells improve functionality of human cardiac organoids

Voges, Holly K., Foster, Simon R., Reynolds, Liam, Parker, Benjamin L., Devilée, Lynn, Quaife-Ryan, Gregory A., Fortuna, Patrick R.J., Mathieson, Ellen, Fitzsimmons, Rebecca, Lor, Mary, Batho, Christopher, Reid, Janice, Pocock, Mark, Friedman, Clayton E., Mizikovsky, Dalia, Francois, Mathias, Palpant, Nathan J., Needham, Elise J., Peralta, Marina, Monte-Nieto, Gonzalo del, Jones, Lynelle K., Smyth, Ian M., Mehdiabadi, Neda R., Bolk, Francesca, Janbandhu, Vaibhao, Yao, Ernestene, Harvey, Richard P., Chong, James J.H., Elliott, David A. ... Hudson, James E. (2023). Vascular cells improve functionality of human cardiac organoids. Cell Reports, 42 (5) 112322, 112322. doi: 10.1016/j.celrep.2023.112322

Vascular cells improve functionality of human cardiac organoids

2023

Journal Article

New drug targets and preclinical modelling recommendations for treating acute myocardial infarction

Cao, Yuanzhao, Redd, Meredith A., Fang, Chen, Mizikovsky, Dalia, Li, Xichun, Macdonald, Peter S., King, Glenn F. and Palpant, Nathan J. (2023). New drug targets and preclinical modelling recommendations for treating acute myocardial infarction. Heart, Lung and Circulation, 32 (7), 852-869. doi: 10.1016/j.hlc.2022.12.015

New drug targets and preclinical modelling recommendations for treating acute myocardial infarction

2023

Journal Article

PDGF-AB Reduces Myofibroblast Differentiation Without Increasing Proliferation After Myocardial Infarction

Hume, Robert D., Deshmukh, Tejas, Doan, Tram, Shim, Woo Jun, Kanagalingam, Shaan, Tallapragada, Vikram, Rashid, Fairooj, Marcuello, Maria, Blessing, Daniel, Selvakumar, Dinesh, Raguram, Kalyan, Pathan, Faraz, Graham, Dinny, Ounzain, Samir, Kizana, Eddy, Harvey, Richard P., Palpant, Nathan J. and Chong, James J.H. (2023). PDGF-AB Reduces Myofibroblast Differentiation Without Increasing Proliferation After Myocardial Infarction. JACC: Basic to Translational Science, 8 (6), 658-674. doi: 10.1016/j.jacbts.2022.11.006

PDGF-AB Reduces Myofibroblast Differentiation Without Increasing Proliferation After Myocardial Infarction