Publications

A genome-wide CRISPR screen identifies BRD4 as a regulator of cardiomyocyte differentiation

Arun Padmanabhan, T Yvanka de Soysa, Angelo Pelonero, Valerie Sapp, Parisha P Shah, Qiaohong Wang, Li Li, Clara Youngna Lee, Nandhini Sadagopan, Tomohiro Nishino, Lin Ye, Rachel Yang, Ashley Karnay, Andrey Poleshko, Nikhita Bolar, Ricardo Linares-Saldana, Sanjeev S Ranade, Michael Alexanian, Sarah U Morton, Mohit Jain, Saptarsi M Haldar, Deepak Srivastava, Rajan Jain

Nature Cardiovascular Research, 2024 (Link to manuscript)

Chromatin Remodeling Drives Immune-Fibroblast Crosstalk in Heart Failure Pathogenesis

Michael Alexanian#, Arun Padmanabhan, Tomohiro Nishino, Joshua G. Travers, Lin Ye, Clara Youngna Lee, Nandhini Sadagopan, Yu Huang, Angelo Pelonero, Kirsten Auclair, Ada Zhu, Barbara Gonzalez Teran, Will Flanigan, Charis Kee-Seon Kim, Koya Lumbao-Conradson, Mauro Costa, Rajan Jain, Israel Charo, Saptarsi M. Haldar, Katherine S. Pollard, Ronald J. Vagnozzi, Timothy A. McKinsey, Pawel F. Przytycki, Deepak Srivastava

#Denotes corresponding author

bioRxiv, 2023 (Link to preprint)

Transcriptional plasticity of fibroblasts in heart disease

Rudi Micheletti and Michael Alexanian#

#Denotes corresponding author

Biochemical Society Transactions, 2022 (Link to manuscript)

Single Cell Multimodal Analyses Reveal Epigenomic and Transcriptomic Basis for Birth Defects in Maternal Diabetes

Tomohiro Nishino, Sanjeev S. Ranade, Angelo Pelonero, Benjamin J. van Soldt, Lin Ye, Michael Alexanian, Frances Koback, Yu Huang, Nandhini Sadagopan, Arun Padmanabhan, Reuben Thomas, Joke G. van Bemmel, Casey A. Gifford, Mauro W. Costa, Deepak Srivastava

bioRxiv, 2022 (Link to preprint)

Single Cell Epigenetics Reveal Cell-Cell Communication Networks in Normal and Abnormal Cardiac Morphogenesis

Sanjeev S. Ranade, Sean Whalen, Ivana Zlatanova, Tomohiro Nishino, Benjamin van Soldt, Lin Ye, Angelo Pelonero, Langley Grace Wallace, Yu Huang, Michael Alexanian, Arun Padmanabhan, Barbara Gonzalez-Teran, Pawel Przytycki, Mauro W. Costa, Casey A. Gifford, Brian L. Black, Katherine S. Pollard, Deepak Srivastava

bioRxiv, 2022 (Link to preprint)

Targeting transcription in heart failure via CDK7/12/13 inhibition

Austin Hsu, Qiming Duan, Daniel S. Day, Xin Luo, Sarah McMahon, Yu Huang, Zachary B. Feldman, Zhen Jiang, Tinghu Zhang, Yanke Liang, Michael Alexanian, Arun Padmanabhan, Jonathan D. Brown, Charles Y. Lin, Nathanael S. Gray, Richard A. Young, Benoit G. Bruneau & Saptarsi M. Haldar 

Nature Communications, 2022 (Link to manuscript)

Integration of Protein Interactome Networks with Congenital Heart Disease Variants Reveals Candidate Disease Genes

Gonzalez-Teran B, M Pittman, F Felix, D Richmond-Buccola, R Thomas, K Choudhary, E Moroni, G Colombo, M Alexanian, B Cole, K Samse-Knapp, M McGregor, CA Gifford, R Huttenhain, BD Gelb, BR Conklin, BL Black, BG Bruneau, NJ Krogan, KS Pollard, D Srivastava

Cell, 2022 (Link to manuscript)

KLF15 Cistromes Reveal a Hepatocyte Pathway Governing Plasma Corticosteroid Transport and Systemic Inflammation 

Zhen Jiang, Selma Z. Elsarrag, Qiming Duan, Edward LaGory, Zhe Wang, Michael Alexanian, Sarah McMahon, Ingrid C. Rulifson, Sarah Winchester, Yi Wang, Christian Vaisse , Jonathan D. Brown, Mattia Quattrocelli, Charles Y. Lin, Saptarsi M. Haldar

Science Advances, 2022 (Link to manuscript)

Co-emergence of cardiac and gut tissues promotes cardiomyocyte maturation within human iPSC-derived organoids

Ana C Silva, Oriane B Matthys, David A Joy, Mara A Kauss, Vaishaali Natarajan, Michael H Lai, Diwakar Turaga, Andrew P. Blair, Michael Alexanian, Benoit G Bruneau, Todd C McDevitt

Cell Stem Cell, 2021 (Link to manuscript)

A Transcriptional Switch Governs Fibroblast Activation in Heart Disease

Michael Alexanian, Pawel F Przytycki, Rudi Micheletti, Arun Padmanabhan, Lin Ye, Joshua G Travers, Barbara Gonzalez Teran, Qiming Duan, Sanjeev S Ranade, Franco Felix, Ricardo Linares-Saldana, Yu Huang, Gaia Andreoletti, Jin Yang, Kathryn N Ivey, Rajan Jain, Timothy A McKinsey, Michael G Rosenfeld, Casey Gifford, Katherine S Pollard, Saptarsi M Haldar, Deepak Srivastava

Nature, 2021 (Link to manuscript)

Conserved epigenetic regulatory logic infers genes governing cell identity

Woo Jun Shim, Enakshi Sinniah, Jun Xu, Burcu Vitrinel, Michael Alexanian, Gaia Andreoletti, Sophie Shen, Yuliangzi Sun, Brad Balderson, Carles Boix, Guangdun Peng, Naihe Jing, Yuliang Wang, Manolis Kellis, Patrick PL Tam, Aaron Smith, Michael Piper, Lionel Christiaen, Quan Nguyen, Mikael Bodén, Nathan J Palpant

Cell Systems, 2020 (Link to manuscript)

BRD4 (Bromodomain-Containing Protein 4) Interacts with GATA4 (GATA Binding Protein 4) to Govern Mitochondrial Homeostasis in Adult Cardiomyocytes

Arun Padmanabhan#, Michael Alexanian#, Ricardo Linares-Saldana#, Bárbara González-Terán, Gaia Andreoletti, Yu Huang, Andrew J Connolly, Wonho Kim, Austin Hsu, Qiming Duan, Sarah AB Winchester, Franco Felix, Juan A Perez-Bermejo, Qiaohong Wang, Li Li, Parisha P Shah, Saptarsi M Haldar, Rajan Jain, Deepak Srivastava

#Denotes shared co-first authorship

Circulation, 2020 (Link to manuscript)

Long Noncoding RNAs in Cardiac Development

Michael Alexanian#, Samir Ounzain

#Denotes corresponding author

Cold Spring Harbor perspectives in biology, 2020 (Link to manuscript)

BETs that cover the spread from acquired to heritable heart failure

Michael Alexanian, Saptarsi M Haldar

The Journal of Clinical Investigation, 2020 (Link to manuscript)

Dynamic Chromatin Targeting of BRD4 Stimulates Cardiac Fibroblast Activation

Matthew S. Stratton, Rushita A. Bagchi, Marina B. Felisbino, Rachel A. Hirsch, Harrison E. Smith, Andrew S. Riching, Blake Y. Enyart, Keith A. Koch, Maria A. Cavasin, Michael Alexanian, Kunhua Song, Jun Qi, Madeleine E. Lemieux, Deepak Srivastava, Maggie P.Y. Lam, Saptarsi M. Haldar, Charles Y. Lin, Timothy A. McKinsey

Circulation Research, 2019 (Link to manuscript)

Epigenetic therapies in heart failure

M Alexanian, A Padmanabhan, TA McKinsey, SM Haldar

Journal of Molecular and Cellular Cardiology, 2019 (Link to manuscript)

The cardiac myofibroblast: from supporting cast to leading role?

M Alexanian, SM Haldar

Circulation Research, 2019 (Link to manuscript)

A transcribed enhancer dictates mesendoderm specification in pluripotency

Michael Alexanian, Daniel Maric, Stephen P Jenkinson, Marco Mina, Clayton E Friedman, Ching-Chia Ting, Rudi Micheletti, Isabelle Plaisance, Mohamed Nemir, Damien Maison, Jasmin Kernen, Iole Pezzuto, Dominic Villeneuve, Frédéric Burdet, Mark Ibberson, Stephen L Leib, Nathan J Palpant, Nouria Hernandez, Samir Ounzain, Thierry Pedrazzini

Nature Communications, 2017 (Link to manuscript)

The long noncoding RNA Wisper controls cardiac fibrosis and remodeling

Rudi Micheletti, Isabelle Plaisance, Brian J Abraham, Alexandre Sarre, Ching-Chia Ting, Michael Alexanian, Daniel Maric, Damien Maison, Mohamed Nemir, Richard A Young, Blanche Schroen, Arantxa González, Samir Ounzain, Thierry Pedrazzini

Science Translational Medicine, 2017 (Link to manuscript)

New Lncs to mesendoderm specification

M Alexanian, T Pedrazzini, S Ounzain

Journal of Thoracic Disease, 2017 (Link to manuscript)

CARMEN, a human super enhancer-associated long noncoding RNA controlling cardiac specification, differentiation and homeostasis

Samir Ounzain, Rudi Micheletti, Carme Arnan, Isabelle Plaisance, Dario Cecchi, Blanche Schroen, Ferran Reverter, Michael Alexanian, Christine Gonzales, Shi Yan Ng, Giovanni Bussotti, Iole Pezzuto, Cedric Notredame, Stephane Heymans, Roderic Guigó, Rory Johnson, Thierry Pedrazzini

Journal of Molecular and Cellular Cardiology, 2015 (Link to manuscript)

Genome-wide profiling of the cardiac transcriptome after myocardial infarction identifies novel heart-specific long non-coding RNAs

Samir Ounzain, Rudi Micheletti, Tal Beckmann, Blanche Schroen, Michael Alexanian, Iole Pezzuto, Stefania Crippa, Mohamed Nemir, Alexandre Sarre, Rory Johnson, Jérôme Dauvillier, Frédéric Burdet, Mark Ibberson, Roderic Guigo, Ioannis Xenarios, Stephane Heymans, Thierry Pedrazzini

European Heart Journal, 2015 (Link to manuscript)

Functional importance of cardiac enhancer-associated noncoding RNAs in heart development and disease

Samir Ounzain, Iole Pezzuto, Rudi Micheletti, Frédéric Burdet, Razan Sheta, Mohamed Nemir, Christine Gonzales, Alexandre Sarre, Michael Alexanian, Matthew J Blow, Dalit May, Rory Johnson, Jérôme Dauvillier, Len A Pennacchio, Thierry Pedrazzini

Journal of Molecular and Cellular Cardiology, 2014 (Link to manuscript)