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William J Greenleaf (William Greenleaf)

ORCID

Publication Activity (10 Years)

Years Active: 2017-2023
Publications (10 Years): 82

Top Venues

Proceedings of the National Academy of Sciences of the United States of America

Nature genetics

Nature communications

Science translational medicine

Stanford University

Stanford University (PHD)

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

Affiliation History

Stanford University

United States

Assistant Professor :: Genetics Department

Education History

Stanford University

United States

PHD :: Applied Physics

Publications

Stephano S Mello, Brittany M Flowers, Pawel K Mazur, James J Lee, Fabian Müller, Sarah K Denny, Sofia Ferreira, Kathryn J Hanson, Seung K Kim, William J Greenleaf, Laura D Wood, Laura D Attardi
Multifaceted role for p53 in pancreatic cancer suppression. Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Andreas R Gschwind, Kristy S Mualim, Alireza Karbalayghareh, Maya U Sheth, Kushal K Dey, Evelyn Jagoda, Ramil N Nurtdinov, Wang Xi, Anthony S Tan, Hank Jones, X Rosa Ma, David Yao, Joseph Nasser, Žiga Avsec, Benjamin T James, Muhammad Saad Shamim, Neva C Durand, Suhas S P Rao, Ragini Mahajan, Benjamin R Doughty, Kalina Andreeva, Jacob C Ulirsch, Kaili Fan, Elizabeth M Perez, Tri C Nguyen, David R Kelley, Hilary K Finucane, Jill E Moore, Nishigandha Phalke, Manolis Kellis, Michael C Bassik, Alkes L Price, Michael A Beer, Roderic Guigo, John A Stamatoyannopoulos, Erez Lieberman Aiden, William J Greenleaf, Christina S Leslie, Lars M Steinmetz, Anshul Kundaje, Jesse M Engreitz
An encyclopedia of enhancer-gene regulatory interactions in the human genome. bioRxiv : the preprint server for biology (2023)
John H Shin, Steve L Bonilla, Sarah K Denny, William J Greenleaf, Daniel Herschlag
Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Stephano S Mello, Brittany M Flowers, Pawel K Mazur, James J Lee, Fabian Müller, Sarah K Denny, Sofia Ferreira, Kathryn J Hanson, Seung K Kim, William J Greenleaf, Laura D Wood, Laura D Attardi
Multifaceted role for p53 in pancreatic cancer suppression. Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Jimena Andersen, Nicholas Thom, Jennifer L Shadrach, Xiaoyu Chen, Massimo Mario Onesto, Neal D Amin, Se-Jin Yoon, Li Li, William J Greenleaf, Fabian Müller, Anca M Pașca, Julia A Kaltschmidt, Sergiu P Pașca
Single-cell transcriptomic landscape of the developing human spinal cord. Nature neuroscience 26 (5) (2023)
Jimena Andersen, Nicholas Thom, Jennifer L Shadrach, Xiaoyu Chen, Massimo Mario Onesto, Neal D Amin, Se-Jin Yoon, Li Li, William J Greenleaf, Fabian Müller, Anca M Pașca, Julia A Kaltschmidt, Sergiu P Pașca
Single-cell transcriptomic landscape of the developing human spinal cord. Nature neuroscience (2023)
John H Shin, Steve L Bonilla, Sarah K Denny, William J Greenleaf, Daniel Herschlag
Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
John H Shin, Steve L Bonilla, Sarah K Denny, William J Greenleaf, Daniel Herschlag
Dissecting the energetic architecture within an RNA tertiary structural motif via high-throughput thermodynamic measurements. Proceedings of the National Academy of Sciences of the United States of America 120 (11) (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Shuxiao Chen, Bokai Zhu, Sijia Huang, John W Hickey, Kevin Z Lin, Michael Paul Snyder, William J Greenleaf, Garry P Nolan, Nancy R Zhang, Zongming Ma
Integration of spatial and single-cell data across modalities with weakly linked features. Nature biotechnology (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Benjamin Ober-Reynolds, Chen Wang, Justin M Ko, Eon J Rios, Sumaira Z Aasi, Mark M Davis, Anthony E Oro, William J Greenleaf
Integrated single-cell chromatin and transcriptomic analyses of human scalp identify gene-regulatory programs and critical cell types for hair and skin diseases. Nature genetics (2023)
Stephano S Mello, Brittany M Flowers, Pawel K Mazur, James J Lee, Fabian Müller, Sarah K Denny, Sofia Ferreira, Kathryn J Hanson, Seung K Kim, William J Greenleaf, Laura D Wood, Laura D Attardi
Multifaceted role for p53 in pancreatic cancer suppression. Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Taihei Fujimori, Carolina Rios-Martinez, Abby R Thurm, Michaela M Hinks, Benjamin R Doughty, Joydeb Sinha, Derek Le, Antonina Hafner, William J Greenleaf, Alistair N Boettiger, Lacramioara Bintu
Single-cell chromatin state transitions during epigenetic memory formation. bioRxiv : the preprint server for biology (2023)
Florian V De Rop, Gert Hulselmans, Christopher Flerin, Paula Soler-Vila, Albert Rafels, Valerie Christiaens, Carmen Bravo González-Blas, Domenica Marchese, Ginevra Caratù, Suresh Poovathingal, Orit Rozenblatt-Rosen, Michael Slyper, Wendy Luo, Christoph Muus, Fabiana M Duarte, Rojesh Shrestha, S Tansu Bagdatli, M Ryan Corces, Lira Mamanova, Andrew Knights, Kerstin B Meyer, Ryan M Mulqueen, Akram Taherinasab, Patrick Maschmeyer, Joern Pezoldt, Camille Lucie Germaine Lambert, Marta Iglesias, Sebastián R Najle, Zain Y Dossani, Luciano G Martelotto, Zachary Daniel Burkett, Ronald Lebofsky, José Ignacio Martin-Subero, Satish Pillai, Arnau Sebé-Pedrós, Bart Deplancke, Sarah A Teichmann, Leif S Ludwig, Theodore P Braun, Andrew C Adey, William J Greenleaf, Jason D Buenrostro, Aviv Regev, Stein Aerts, Holger Heyn
Systematic benchmarking of single-cell ATAC-sequencing protocols. Nature biotechnology (2023)
John W Hickey, Winston R Becker, Stephanie A Nevins, Aaron Horning, Almudena Espin Perez, Chenchen Zhu, Bokai Zhu, Bei Wei, Roxanne Chiu, Derek C Chen, Daniel L Cotter, Edward D Esplin, Annika K Weimer, Chiara Caraccio, Vishal Venkataraaman, Christian M Schürch, Sarah Black, Maria Brbic, Kaidi Cao, Shuxiao Chen, Weiruo Zhang, Emma Monte, Nancy R Zhang, Zongming Ma, Jure Leskovec, Zhengyan Zhang, Shin Lin, Teri Longacre, Sylvia K Plevritis, Yiing Lin, Garry P Nolan, William J Greenleaf, Michael Paul Snyder
Organization of the human intestine at single-cell resolution. Nature 619 (7970) (2023)
Jimena Andersen, Nicholas Thom, Jennifer L Shadrach, Xiaoyu Chen, Massimo Mario Onesto, Neal D Amin, Se-Jin Yoon, Li Li, William J Greenleaf, Fabian Müller, Anca M Pașca, Julia A Kaltschmidt, Sergiu P Pașca
Single-cell transcriptomic landscape of the developing human spinal cord. Nature neuroscience 26 (5) (2023)
Connor A Horton, Amr M Alexandari, Michael G B Hayes, Emil Marklund, Julia M Schaepe, Arjun K Aditham, Nilay Shah, Peter H Suzuki, Avanti Shrikumar, Ariel Afek, William J Greenleaf, Raluca Gordân, Julia Zeitlinger, Anshul Kundaje, Polly Morrell Fordyce
Short tandem repeats bind transcription factors to tune eukaryotic gene expression. Science (New York, N.Y.) 381 (6664) (2023)
Jimena Andersen, Nicholas Thom, Jennifer L Shadrach, Xiaoyu Chen, Massimo Mario Onesto, Neal D Amin, Se-Jin Yoon, Li Li, William J Greenleaf, Fabian Müller, Anca M Pașca, Julia A Kaltschmidt, Sergiu P Pașca
Single-cell transcriptomic landscape of the developing human spinal cord. Nature neuroscience (2023)
Jimena Andersen, Nicholas Thom, Jennifer L Shadrach, Xiaoyu Chen, Massimo Mario Onesto, Neal D Amin, Se-Jin Yoon, Li Li, William J Greenleaf, Fabian Müller, Anca M Pașca, Julia A Kaltschmidt, Sergiu P Pașca
Single-cell transcriptomic landscape of the developing human spinal cord. Nature neuroscience (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Stephano S Mello, Brittany M Flowers, Pawel K Mazur, James J Lee, Fabian Müller, Sarah K Denny, Sofia Ferreira, Kathryn J Hanson, Seung K Kim, William J Greenleaf, Laura D Wood, Laura D Attardi
Multifaceted role for p53 in pancreatic cancer suppression. Proceedings of the National Academy of Sciences of the United States of America 120 (10) (2023)
Maureen Ty, Shenghuan Sun, Perri C Callaway, John Rek, Kathleen W Dantzler, Kattria van der Ploeg, Jason Nideffer, Zicheng Hu, Sandy Klemm, William J Greenleaf, Michele Donato, Stephen Tukwasibwe, Emmanuel Arinaitwe, Felistas Nankya, Kenneth Musinguzi, Dean Andrew, Lauren de la Parte, Diego Martinez Mori, Savannah Nicole Lewis, Saki Takahashi, Isabel Rodriguez-Barraquer, Bryan Greenhouse, Catherine A Blish, Paul J Utz, Purvesh Khatri, Grant Dorsey, Moses Kamya, Michelle J Boyle, Margaret E Feeney, Isaac Ssewanyana, Prasanna Jagannathan
Malaria-driven expansion of adaptive-like functional CD56-negative NK cells correlates with clinical immunity to malaria. Science translational medicine 15 (680) (2023)
Jimena Andersen, Nicholas Thom, Jennifer L Shadrach, Xiaoyu Chen, Massimo Mario Onesto, Neal D Amin, Se-Jin Yoon, Li Li, William J Greenleaf, Fabian Müller, Anca M Pașca, Julia A Kaltschmidt, Sergiu P Pașca
Single-cell transcriptomic landscape of the developing human spinal cord. Nature neuroscience 26 (5) (2023)
Charles Limouse, Owen K Smith, David Jukam, Kelsey A Fryer, William J Greenleaf, Aaron F Straight
Global mapping of RNA-chromatin contacts reveals a proximity-dominated connectivity model for ncRNA-gene interactions. Nature communications 14 (1) (2023)
Jimena Andersen, Nicholas Thom, Jennifer L Shadrach, Xiaoyu Chen, Massimo Mario Onesto, Neal D Amin, Se-Jin Yoon, Li Li, William J Greenleaf, Fabian Müller, Anca M Pașca, Julia A Kaltschmidt, Sergiu P Pașca
Single-cell transcriptomic landscape of the developing human spinal cord. Nature neuroscience 26 (5) (2023)
Emil Marklund, Yuxi Ke, William J Greenleaf
High-throughput biochemistry in RNA sequence space: predicting structure and function. Nature reviews. Genetics (2023)
Christoph Sadee, Lauren D Hagler, Winston R Becker, Inga Jarmoskaite, Pavanapuresan P Vaidyanathan, Sarah K Denny, William J Greenleaf, Daniel Herschlag
A comprehensive thermodynamic model for RNA binding by the Saccharomyces cerevisiae Pumilio protein PUF4. Nature communications 13 (1) (2022)
Huimin Zhang, Rohit R Jadhav, Wenqiang Cao, Isabel N Goronzy, Tuantuan V Zhao, Jun Jin, Shozo Ohtsuki, Zhao-Lan Hu, Jose Morales, William J Greenleaf, Cornelia M Weyand, Jorg J Goronzy
Aging-associated HELIOS deficiency in naive CD4 + T cells alters chromatin remodeling and promotes effector cell responses. Nature immunology 24 (1) (2022)
Winston R Becker, Stephanie A Nevins, Derek C Chen, Roxanne Chiu, Aaron M Horning, Tuhin K Guha, Rozelle Laquindanum, Meredith Mills, Hassan Chaib, Uri Ladabaum, Teri Longacre, Jeanne Shen, Edward D Esplin, Anshul Kundaje, James M Ford, Christina Curtis, Michael Paul Snyder, William J Greenleaf
Single-cell analyses define a continuum of cell state and composition changes in the malignant transformation of polyps to colorectal cancer. Nature genetics 54 (7) (2022)
Huimin Zhang, Rohit R Jadhav, Wenqiang Cao, Isabel N Goronzy, Tuantuan V Zhao, Jun Jin, Shozo Ohtsuki, Zhao-Lan Hu, Jose Morales, William J Greenleaf, Cornelia M Weyand, Jorg J Goronzy
Aging-associated HELIOS deficiency in naive CD4 + T cells alters chromatin remodeling and promotes effector cell responses. Nature immunology (2022)
Huimin Zhang, Rohit R Jadhav, Wenqiang Cao, Isabel N Goronzy, Tuantuan V Zhao, Jun Jin, Shozo Ohtsuki, Zhao-Lan Hu, Jose Morales, William J Greenleaf, Cornelia M Weyand, Jorg J Goronzy
Aging-associated HELIOS deficiency in naive CD4 + T cells alters chromatin remodeling and promotes effector cell responses. Nature immunology 24 (1) (2022)
Masao Hashimoto, Koichi Araki, Maria A Cardenas, Peng Li, Rohit R Jadhav, Haydn T Kissick, William H Hudson, Donald J McGuire, Rebecca C Obeng, Andreas Wieland, Judong Lee, Daniel T McManus, James L Ross, Se Jin Im, Junghwa Lee, Jian-Xin Lin, Bin Hu, Erin E West, Christopher D Scharer, Gordon J Freeman, Arlene H Sharpe, Suresh R Ramalingam, Alex Pellerin, Volker Teichgräber, William J Greenleaf, Christiane Neumann, Jorg J Goronzy, Pablo Umaña, Warren J Leonard, Kendall A Smith, Rajesh M Valanparambil
PD-1 combination therapy with IL-2 modifies CD8 + T cell exhaustion program. Nature 610 (7930) (2022)
Jacob W Freimer, Oren Shaked, Sahin Naqvi, Nicholas A Sinnott-Armstrong, Arwa Kathiria, Christian M Garrido, Amy F Chen, Jessica T Cortez, William J Greenleaf, Jonathan K Pritchard, Alexander Marson
Systematic discovery and perturbation of regulatory genes in human T cells reveals the architecture of immune networks. Nature genetics 54 (8) (2022)
Huimin Zhang, Rohit R Jadhav, Wenqiang Cao, Isabel N Goronzy, Tuantuan V Zhao, Jun Jin, Shozo Ohtsuki, Zhao-Lan Hu, Jose Morales, William J Greenleaf, Cornelia M Weyand, Jorg J Goronzy
Aging-associated HELIOS deficiency in naive CD4 + T cells alters chromatin remodeling and promotes effector cell responses. Nature immunology 24 (1) (2022)
Huimin Zhang, Rohit R Jadhav, Wenqiang Cao, Isabel N Goronzy, Tuantuan V Zhao, Jun Jin, Shozo Ohtsuki, Zhao-Lan Hu, Jose Morales, William J Greenleaf, Cornelia M Weyand, Jorg J Goronzy
Aging-associated HELIOS deficiency in naive CD4 + T cells alters chromatin remodeling and promotes effector cell responses. Nature immunology 24 (1) (2022)
King L Hung, Jens Luebeck, Siavash R Dehkordi, Caterina I Colón, Rui Li, Ivy Tsz-Lo Wong, Ceyda Coruh, Prashanthi Dharanipragada, Shirley H Lomeli, Natasha E Weiser, Gatien Moriceau, Xiao Zhang, Chris Bailey, Kathleen E Houlahan, Wenting Yang, Rocio Chamorro González, Charles Swanton, Christina Curtis, Mariam Jamal-Hanjani, Anton G Henssen, Julie A Law, William J Greenleaf, Roger S Lo, Paul S Mischel, Vineet Bafna, Howard Y Chang
Targeted profiling of human extrachromosomal DNA by CRISPR-CATCH. Nature genetics 54 (11) (2022)
Huimin Zhang, Rohit R Jadhav, Wenqiang Cao, Isabel N Goronzy, Tuantuan V Zhao, Jun Jin, Shozo Ohtsuki, Zhao-Lan Hu, Jose Morales, William J Greenleaf, Cornelia M Weyand, Jorg J Goronzy
Aging-associated HELIOS deficiency in naive CD4 + T cells alters chromatin remodeling and promotes effector cell responses. Nature immunology 24 (1) (2022)
Johan O L Andreasson, Michael R Gotrik, Michelle J Wu, Hannah K Wayment-Steele, Wipapat Kladwang, Fernando Portela, Roger Wellington-Oguri, null null, Rachel J Hagey, William J Greenleaf
Crowdsourced RNA design discovers diverse, reversible, efficient, self-contained molecular switches. Proceedings of the National Academy of Sciences of the United States of America 119 (18) (2022)
Huimin Zhang, Rohit R Jadhav, Wenqiang Cao, Isabel N Goronzy, Tuantuan V Zhao, Jun Jin, Shozo Ohtsuki, Zhao-Lan Hu, Jose Morales, William J Greenleaf, Cornelia M Weyand, Jorg J Goronzy
Aging-associated HELIOS deficiency in naive CD4 + T cells alters chromatin remodeling and promotes effector cell responses. Nature immunology (2022)
Jeffrey M Granja, M Ryan Corces, Sarah E Pierce, S Tansu Bagdatli, Hani Choudhry, Howard Y Chang, William J Greenleaf
ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis. Nature genetics 53 (3) (2021)
Hamish W King, Kristen L Wells, Zohar Shipony, Arwa S Kathiria, Lisa E Wagar, Caleb A Lareau, Nara Orban, Robson Capasso, Mark M Davis, Lars M Steinmetz, Louisa Katherine James, William J Greenleaf
Integrated single-cell transcriptomics and epigenomics reveals strong germinal center-associated etiology of autoimmune risk loci. Science immunology 6 (64) (2021)
Evan August Boyle, Winston R Becker, Hua B Bai, Janice S Chen, Jennifer A Doudna, William J Greenleaf
Quantification of Cas9 binding and cleavage across diverse guide sequences maps landscapes of target engagement. Science advances 7 (8) (2021)
Sarah E Pierce, Jeffrey M Granja, William J Greenleaf
High-throughput single-cell chromatin accessibility CRISPR screens enable unbiased identification of regulatory networks in cancer. Nature communications 12 (1) (2021)
Steve L Bonilla, Sarah K Denny, John H Shin, Aurora Alvarez-Buylla, William J Greenleaf, Daniel Herschlag
High-throughput dissection of the thermodynamic and conformational properties of a ubiquitous class of RNA tertiary contact motifs. Proceedings of the National Academy of Sciences of the United States of America 118 (33) (2021)
Aaron J Wilk, Madeline J Lee, Bei Wei, Benjamin Parks, Ruoxi Pi, Giovanny J Martínez-Colón, Thanmayi Ranganath, Nancy Q Zhao, Shalina Taylor, Winston R Becker, null null, David Jimenez-Morales, Andra L Blomkalns, Ruth O'Hara, Euan A Ashley, Kari Christine Nadeau, Samuel Yang, Susan P Holmes, Marlene Rabinovitch, Angela J Rogers, William J Greenleaf, Catherine A Blish
Multi-omic profiling reveals widespread dysregulation of innate immunity and hematopoiesis in COVID-19. The Journal of experimental medicine 218 (8) (2021)
Sarah E Pierce, Jeffrey M Granja, M Ryan Corces, Jennifer J Brady, Min K Tsai, Aubrey B Pierce, Rui Tang, Pauline Chu, David M Feldser, Howard Y Chang, Michael C Bassik, William J Greenleaf, Monte M Winslow
LKB1 inactivation modulates chromatin accessibility to drive metastatic progression. Nature cell biology 23 (8) (2021)
David G Gennert, Rachel C Lynn, Jeff M Granja, Evan W Weber, Maxwell R Mumbach, Yang Zhao, Zhana Duren, Elena Sotillo, William J Greenleaf, Wing Hung Wong, Ansuman T Satpathy, Crystal L Mackall, Howard Y Chang
Dynamic chromatin regulatory landscape of human CAR T cell exhaustion. Proceedings of the National Academy of Sciences of the United States of America 118 (30) (2021)
Daniel S Kim, Viviana I Risca, David L Reynolds, James Chappell, Adam J Rubin, Namyoung Jung, Laura K H Donohue, Vanessa Lopez-Pajares, Arwa Kathiria, Minyi Shi, Zhixin Zhao, Harsh Deep, Mahfuza Sharmin, Deepti Rao, Shin Lin, Howard Y Chang, Michael Paul Snyder, William J Greenleaf, Anshul Kundaje, Paul A Khavari
The dynamic, combinatorial cis-regulatory lexicon of epidermal differentiation. Nature genetics 53 (11) (2021)
Georgi K Marinov, Alexandro E Trevino, Tingting Xiang, Anshul Kundaje, Arthur R Grossman, William J Greenleaf
Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum. Nature genetics 53 (5) (2021)
Jacob A Blum, Sandy Klemm, Jennifer L Shadrach, Kevin A Guttenplan, Lisa Nakayama, Arwa Kathiria, Phuong T Hoang, Olivia Gautier, Julia A Kaltschmidt, William J Greenleaf, Aaron D Gitler
Single-cell transcriptomic analysis of the adult mouse spinal cord reveals molecular diversity of autonomic and skeletal motor neurons. Nature neuroscience 24 (4) (2021)
Alexandro E Trevino, Nicholas A Sinnott-Armstrong, Jimena Andersen, Se-Jin Yoon, Nina Huber, Jonathan K Pritchard, Howard Y Chang, William J Greenleaf, Sergiu P Pașca
Chromatin accessibility dynamics in a model of human forebrain development. Science (New York, N.Y.) 367 (6476) (2020)
M Ryan Corces, Anna Shcherbina, Soumya Kundu, Michael J Gloudemans, Laure Frésard, Jeffrey M Granja, Bryan H Louie, Tiffany Eulalio, Shadi Shams, S Tansu Bagdatli, Maxwell R Mumbach, Boxiang Liu, Kathleen S Montine, William J Greenleaf, Anshul Kundaje, Stephen B Montgomery, Howard Y Chang, Thomas J Montine
Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer's and Parkinson's diseases. Nature genetics 52 (11) (2020)
Zohar Shipony, Georgi K Marinov, Matthew P Swaffer, Nicholas A Sinnott-Armstrong, Jan M Skotheim, Anshul Kundaje, William J Greenleaf
Long-range single-molecule mapping of chromatin accessibility in eukaryotes. Nature methods 17 (3) (2020)
Johan O L Andreasson, Andrew Savinov, Steven M Block, William J Greenleaf
Comprehensive sequence-to-function mapping of cofactor-dependent RNA catalysis in the glmS ribozyme. Nature communications 11 (1) (2020)
Kalli Kappel, Inga Jarmoskaite, Pavanapuresan P Vaidyanathan, William J Greenleaf, Daniel Herschlag, Rachel J Hagey
Blind tests of RNA-protein binding affinity prediction. Proceedings of the National Academy of Sciences of the United States of America 116 (17) (2019)
Maxwell R Mumbach, Jeffrey M Granja, Ryan A Flynn, Caitlin M Roake, Ansuman T Satpathy, Adam J Rubin, Yanyan Qi, Zhaozhao Jiang, Shadi Shams, Bryan H Louie, Jimmy K Guo, David G Gennert, M Ryan Corces, Paul A Khavari, Maninjay K Atianand, Steven E Artandi, Katherine A Fitzgerald, William J Greenleaf, Howard Y Chang
HiChIRP reveals RNA-associated chromosome conformation. Nature methods 16 (6) (2019)
Ansuman T Satpathy, Jeffrey M Granja, Kathryn E Yost, Yanyan Qi, Francesca Meschi, Geoffrey P McDermott, Brett N Olsen, Maxwell R Mumbach, Sarah E Pierce, M Ryan Corces, Preyas Shah, Jason C Bell, Darisha Jhutty, Corey M Nemec, Jean Wang, Li Wang, Yifeng Yin, Paul G Giresi, Anne Lynn S Chang, Grace X Y Zheng, William J Greenleaf, Howard Y Chang
Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion. Nature biotechnology 37 (8) (2019)
Joseph D Yesselman, Sarah K Denny, Namita Bisaria, Daniel Herschlag, William J Greenleaf, Rachel J Hagey
Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation. Proceedings of the National Academy of Sciences of the United States of America 116 (34) (2019)
Rohit R Jadhav, Se Jin Im, Bin Hu, Masao Hashimoto, Peng Li, Jian-Xin Lin, Warren J Leonard, William J Greenleaf, Rafi Ahmed, Jorg J Goronzy
Epigenetic signature of PD-1+ TCF1+ CD8 T cells that act as resource cells during chronic viral infection and respond to PD-1 blockade. Proceedings of the National Academy of Sciences of the United States of America 116 (28) (2019)
Diego Calderon, Michelle L T Nguyen, Anja Mezger, Arwa Kathiria, Fabian Müller, Vinh Nguyen, Ninnia Lescano, Beijing Wu, John Trombetta, Jessica V Ribado, David A Knowles, Ziyue Gao, Franziska Blaeschke, Audrey V Parent, Trevor D Burt, Mark S Anderson, Lindsey A Criswell, William J Greenleaf, Alexander Marson, Jonathan K Pritchard
Landscape of stimulation-responsive chromatin across diverse human immune cells. Nature genetics 51 (10) (2019)
Rajarshi P Ghosh, Quanming Shi, Linfeng Yang, Michael P Reddick, Tatiana Nikitina, Victor B Zhurkin, Polly Morrell Fordyce, Timothy J Stasevich, Howard Y Chang, William J Greenleaf, Jan T Liphardt
Satb1 integrates DNA binding site geometry and torsional stress to differentially target nucleosome-dense regions. Nature communications 10 (1) (2019)
Josh Tycko, Michael Wainberg, Georgi K Marinov, Oana Ursu, Gaelen T Hess, Braeden K Ego, null Aradhana, Amy Li, Alisa Truong, Alexandro E Trevino, Kaitlyn Spees, David Yao, Irene M Kaplow, Peyton G Greenside, David W Morgens, Douglas H Phanstiel, Michael Paul Snyder, Lacramioara Bintu, William J Greenleaf, Anshul Kundaje, Michael C Bassik
Mitigation of off-target toxicity in CRISPR-Cas9 screens for essential non-coding elements. Nature communications 10 (1) (2019)
Ava C Carter, Howard Y Chang, George Church, Ashley Dombkowski, Joseph R Ecker, Elad Gil, Paul G Giresi, Henry Greely, William J Greenleaf, Nir Hacohen, Chuan He, David Hill, Justin Ko, Isaac Kohane, Anshul Kundaje, Megan Palmer, Michael P Snyder, Joyce Tung, Alexander Urban, Marc Vidal, Wing Wong
Challenges and recommendations for epigenomics in precision health. Nature biotechnology 35 (12) (2019)
Jeffrey M Granja, Sandy Klemm, Lisa M McGinnis, Arwa S Kathiria, Anja Mezger, M Ryan Corces, Benjamin Parks, Eric Gars, Michaela Liedtke, Grace X Y Zheng, Howard Y Chang, Ravindra Majeti, William J Greenleaf
Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia. Nature biotechnology 37 (12) (2019)
Xingqi Chen, Ulrike M Litzenburger, Yuning Wei, Alicia N Schep, Edward L LaGory, Hani Choudhry, Amato J Giaccia, William J Greenleaf, Howard Y Chang
Joint single-cell DNA accessibility and protein epitope profiling reveals environmental regulation of epigenomic heterogeneity. Nature communications 9 (1) (2018)
M Ryan Corces, Jeffrey M Granja, Shadi Shams, Bryan H Louie, José A Seoane, Wanding Zhou, Tiago C Silva, Clarice Groeneveld, Christopher K Wong, Seung Woo Cho, Ansuman T Satpathy, Maxwell R Mumbach, Katherine A Hoadley, A Gordon Robertson, Nathan C Sheffield, Ina Felau, Mauro A A Castro, Benjamin P Berman, Louis M Staudt, Jean C Zenklusen, Peter W Laird, Christina Curtis, null null, William J Greenleaf, Howard Y Chang
The chromatin accessibility landscape of primary human cancers. Science (New York, N.Y.) 362 (6413) (2018)
Anja Mezger, Sandy Klemm, Ishminder Mann, Kara Brower, Alain Mir, Magnolia Bostick, Andrew Farmer, Polly Fordyce, Sten Linnarsson, William J Greenleaf
High-throughput chromatin accessibility profiling at single-cell resolution. Nature communications 9 (1) (2018)
Andrew S Koh, Erik L Miller, Jason D Buenrostro, David M Moskowitz, Jing Wang, William J Greenleaf, Howard Y Chang, Gerald R Crabtree
Rapid chromatin repression by Aire provides precise control of immune tolerance. Nature immunology 19 (2) (2018)
Evan August Boyle, Jonathan K Pritchard, William J Greenleaf
High-resolution mapping of cancer cell networks using co-functional interactions. Molecular systems biology 14 (12) (2018)
Ansuman T Satpathy, Naresha Saligrama, Jason D Buenrostro, Yuning Wei, Beijing Wu, Adam J Rubin, Jeffrey M Granja, Caleb A Lareau, Rui Li, Yanyan Qi, Kevin R Parker, Maxwell R Mumbach, William S Serratelli, David G Gennert, Alicia N Schep, M Ryan Corces, Michael S Khodadoust, Youn H Kim, Paul A Khavari, William J Greenleaf, Mark M Davis, Howard Y Chang
Transcript-indexed ATAC-seq for precision immune profiling. Nature medicine 24 (5) (2018)
Michael S Haney, Christopher J Bohlen, David W Morgens, James A Ousey, Amira A Barkal, C Kimberly Tsui, Braeden K Ego, Roni Levin, Roarke A Kamber, Hannah Collins, Andrew Tucker, Amy Li, Daan Vorselen, Lorenzo Labitigan, Emily Crane, Evan August Boyle, Lihua Jiang, Joanne Chan, Esther Rincón, William J Greenleaf, Jin Billy Li, Michael P Snyder, Irving L Weissman, Julie A Theriot, Sean R Collins, Ben A Barres, Michael C Bassik
Identification of phagocytosis regulators using magnetic genome-wide CRISPR screens. Nature genetics 50 (12) (2018)
Mahdi Zamanighomi, Zhixiang Lin, Timothy Daley, Xi Chen, Zhana Duren, Alicia Schep, William J Greenleaf, Wing Hung Wong
Unsupervised clustering and epigenetic classification of single cells. Nature communications 9 (1) (2018)
Maxwell R Mumbach, Ansuman T Satpathy, Evan August Boyle, Chao Dai, Benjamin G Gowen, Seung Woo Cho, Michelle L Nguyen, Adam J Rubin, Jeffrey M Granja, Katelynn R Kazane, Yuning Wei, Trieu Nguyen, Peyton G Greenside, M Ryan Corces, Josh Tycko, Dimitre R Simeonov, Nabeela Suliman, Rui Li, Jin Xu, Ryan A Flynn, Anshul Kundaje, Paul A Khavari, Alexander Marson, Jacob E Corn, Thomas Quertermous, William J Greenleaf, Howard Y Chang
Enhancer connectome in primary human cells identifies target genes of disease-associated DNA elements. Nature genetics 49 (11) (2017)
M Ryan Corces, Alexandro E Trevino, Emily G Hamilton, Peyton G Greenside, Nicholas A Sinnott-Armstrong, Sam Vesuna, Ansuman T Satpathy, Adam J Rubin, Kathleen S Montine, Beijing Wu, Arwa Kathiria, Seung Woo Cho, Maxwell R Mumbach, Ava C Carter, Maya Kasowski, Lisa A Orloff, Viviana I Risca, Anshul Kundaje, Paul A Khavari, Thomas J Montine, William J Greenleaf, Howard Y Chang
An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues. Nature methods 14 (10) (2017)
Adam J Rubin, Brook C Barajas, Mayra Furlan-Magaril, Vanessa Lopez-Pajares, Maxwell R Mumbach, Imani Howard, Daniel S Kim, Lisa D Boxer, Jonathan Cairns, Mikhail Spivakov, Steven W Wingett, Minyi Shi, Zhixin Zhao, William J Greenleaf, Anshul Kundaje, Michael Snyder, Howard Y Chang, Peter Fraser, Paul A Khavari
Lineage-specific dynamic and pre-established enhancer-promoter contacts cooperate in terminal differentiation. Nature genetics 49 (10) (2017)
Alicia N Schep, Beijing Wu, Jason D Buenrostro, William J Greenleaf
chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data. Nature methods 14 (10) (2017)
Evan August Boyle, Johan O L Andreasson, Lauren M Chircus, Samuel H Sternberg, Michelle J Wu, Chantal K Guegler, Jennifer A Doudna, William J Greenleaf
High-throughput biochemical profiling reveals sequence determinants of dCas9 off-target binding and unbinding. Proceedings of the National Academy of Sciences of the United States of America 114 (21) (2017)

William J Greenleaf.css-eqlu8i{font-size:small;padding-left:4px;} (William Greenleaf)

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William J Greenleaf (William Greenleaf)