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Howard Y. Chang

stanford university

162H-index
736Paper Count
13.6WCitation Count
Published Papers 280
Publication Date
scAmp enables focal gene amplification analysis from single-cell data
err2026-08-08
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errOAAI
errMatthew G. Jones; Natasha E. Weiser; King L. Hung; Xiaowei Yan; Sangya Agarwal; Jens Luebeck; Aditi Gnanasekar; Shu Zhang; Ivy Tsz-Lo Wong; Jun Tang; Brooke E. Howitt; Ellis J. Curtis; Kevin Yu; John C. Rose; Katerina Kraft; Valeh Valiollah Pour Amiri; Leena Satpathy; Vineet Bafna; Paul S. Mischel; Howard Y. Chang
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Somatic mutations reveal the ontogeny of microglia in human aging
errNature
IF48.5
err2026-07-30
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PREAI
errJulia A. Belk; Yaowen Zhang; Emily E. Reilly; Quanming Shi; Daniel Dan Liu; Nicole Womack-Gambrel; Maarten van der Linde; Lisa Ma; Debasmita Paul; Alejandro Medina Enciso; Raja Kalluru; Jacob Weiss; Rui Li; Anna E. Eastman; Chunfang Zhu; Arnav Chakravarthy; Syed Bukhari; Dipabarna Bhattacharya; Suyash Raj; Daniel Richard; Simone Brioschi; Matthew R. Chrostek; Daniel C. Nachun; Christopher M. Arends; Jayakrishnan Gopakumar; Isak W. Tengesdal; Ademar Bynum; Shaneice Mitchell; Katalin Sandor; Wenxi Zhang; Badri N. Vardarajan; Inma Cobos; Donald E. Born; Robert B. West; Anne Brunet; Marco Colonna; Krishna L. Bharani; Hannes Vogel; Thomas J. Montine; Caitlin S. Latimer; Irving L. Weissman; Magdalena Matusiak; Jody E. Hooper; C. Dirk Keene; Howard Y. Chang; Siddhartha Jaiswal
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Epigenetic landscape; key transcriptional regulators; and in vivo identification of human Tr1 cells
err2026-07-10
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errOAAI
errAlma-Martina Cepika; Laura Amaya; Colin Waichler; Mansi Narula; Michelle Mantilla; Benjamin C. Thomas; Pauline P. Chen; Robert A. Freeborn; Mara Pavel-Dinu; Jason Nideffer; Matthew Porteus; Rosa Bacchetta; Fabian Müller; William J. Greenleaf; Howard Y. Chang; Maria Grazia Roncarolo
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Accurate prediction of ecDNA in interphase cancer cells using deep neural networks
err2026-04-11
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errOAAI
errGino Prasad; Utkrisht Rajkumar; Ellis J. Curtis; Ivy Tsz-Lo Wong; Xiaowei Yan; Shu Zhang; Lotte Brückner; Kristen Turner; Julie Wiese; Justin Wahl; Homa Hemmati; Sihan Wu; Jessica Theissen; Matthias Fischer; Howard Y. Chang; Anton G. Henssen; Paul S. Mischel; Vineet Bafna
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Targeting extrachromosomal DNA in human cancers
err2026-02-03
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PREAI
errIvy Tsz-Lo Wong; Hyerim Yi; Bruno Melillo; Benjamin F. Cravatt; Howard Y. Chang; Paul S. Mischel
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Fibroblasts of disparate developmental origins harbor anatomically variant scarring potential
errCell
IF42.5
err2026-01-22
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PREAI
errMichelle F. Griffin; Dayan J. Li; Kellen Chen; Jennifer B.L. Parker; Jason L. Guo; Seungsoo Kim; Katerina Kraft; Mauricio Downer; Annah G. Morgan; Maxwell M. Kuhnert; Serena L. Jing; Hanqi Yao; Caleb Valencia; Asha Cotterell; Michael Januszyk; Geoffrey C. Gurtner; Howard Y. Chang; Joanna Wysocka; Derrick C. Wan; Michael T. Longaker
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Single-cell multiome and enhancer connectome of human retinal pigment epithelium and choroid nominate causal variants in macular degeneration
err2026-01-12
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errOAAI
errSean K. Wang; Jiaying Li; Surag Nair; Reshma Kosaraju; Yun Chen; Yuanyuan Zhang; Anshul Kundaje; Yuwen Liu; Ningli Wang; Howard Y. Chang
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Reconstructing the three-dimensional architecture of extrachromosomal DNA with ec3D
err2025-12-20
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errOAAI
errBiswanath Chowdhury; Kaiyuan Zhu; Chaohui Li; Jessica Alsing; Jens Luebeck; Maria E. Stefanova; Owen S. Chapman; Katerina Kraft; Shu Zhang; Jun Yi Stanley Lim; Yipeng Xie; Yoon Jung Kim; Sihan Wu; Lukas Chavez; Guy Nir; Anton G. Henssen; Paul S. Mischel; Howard Y. Chang; Vineet Bafna
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Escape from X inactivation is directly modulated by Xist noncoding RNA
err2025-12-15
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errOAAI
errAntonia Hauth; Jasper Panten; Emma Kneuss; Christel Picard; Nicolas Servant; Isabell Rall; Yuvia A. Pérez-Rico; Lena Clerquin; Nila Servaas; Laura Villacorta; Ferris Jung; Christy Luong; Howard Y. Chang; Judith B. Zaugg; Oliver Stegle; Duncan T. Odom; Edith Heard; Agnese Loda
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Genetic elements promote retention of extrachromosomal DNA in cancer cells
errNature
IF48.5
err2025-11-19
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errOAAI
errVenkat Sankar; King L. Hung; Aditi Gnanasekar; Ivy Tsz-Lo Wong; Quanming Shi; Katerina Kraft; Matthew G. Jones; Britney Jiayu He; Xiaowei Yan; Julia A. Belk; Kevin J. Liu; Sangya Agarwal; Sean K. Wang; Anton G. Henssen; Paul S. Mischel; Howard Y. Chang
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Genetic and chromatin regulation of Pvt1 monoallelic expression
err2025-11-11
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errOAAI
errChristy Luong; Mason Chen; Julia A. Belk; Katerina Kraft; Anne-Valerie Gendrel; Edith Heard; Joanna Wysocka; Howard Y. Chang
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Enhancer activation from transposable elements in extrachromosomal DNA
err2025-10-21
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errOAAI
errKaterina Kraft; Sedona E. Murphy; Matthew G. Jones; Quanming Shi; Aarohi Bhargava-Shah; Christy Luong; King L. Hung; Britney J. He; Rui Li; Seung Kuk Park; Michael T. Montgomery; Natasha E. Weiser; Yanbo Wang; Jens Luebeck; Vineet Bafna; Jef D. Boeke; Paul S. Mischel; Alistair N. Boettiger; Howard Y. Chang
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Epigenomic profile of GBA1 in Parkinson’s disease
err2025-09-27
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PREAI
errEloise Berson; Raphael Zaghroun; Matteo Santoro; Syed Bukhari; David Seong; Chi-Hung Shu; Amalia Perna; Tomin James; Kathleen S. Montine; Geidy E. Serrano; Thomas G. Beach; C.Dirk Keene; Howard Y. Chang; M.Ryan Corces; Brenna Cholerton; Nima Aghaeepour; Thomas J. Montine
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Multi-omic analysis reveals retinoic acid molecular drivers for dermal fibrosis and regenerative repair in the skin
err2025-08-14
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PREAI
errMichelle Griffin; Jason L. Guo; Jennifer B.L. Parker; Maxwell Kuhnert; Dayan J. Li; Caleb Valencia; Annah Morgan; Mauricio Downer; Asha C. Cotterell; John M. Lu; Sarah Dilorio; Khristian Eric Bauer-Rowe Ramos; Michael Januszyk; Howard Y. Chang; Derrick C. Wan; Michael T. Longaker
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Discrete Immolative Guanidinium Transporters deliver mRNA to specific organs and red blood cells
err2025-08-01
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errOAAI
errZhijian Li; Aloysius Ee; Laura Amaya; Jennifer L. Hamad; Pavan K. Yadav; Sean K. Wang; Howard Y. Chang; Paul A. Wender
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A STAG2-PAXIP1/PAGR1 axis suppresses lung tumorigenesis
err2024-12-09
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errOAAI
errAshkin, Emily L.; Tang, Yuning J.; Xu, Haiqing; Hung, King L.; Belk, Julia A.; Cai, Hongchen; Lopez, Steven S.; Dolcen, Deniz Nesli; Hebert, Jess D.; Li, Rui; Ruiz, Paloma A.; Keal, Tula; Andrejka, Laura; Chang, Howard Y.; Petrov, Dmitri A.; Dixon, Jesse R.; Xu, Zhichao; Winslow, Monte M.
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PVT1 fusion on extrachromosomal DNA (ecDNA) increases oncogene RNA stability and cancer cell growth
err2024-11-14
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PREAI
errYi, Hyerim; Zhang, Shu; Jones, Matthew G.; Belk, Julia A.; Swinderman, Jason; Shi, Quanming; Curtis, Ellis J.; Kanakaveti, Vishnu P.; Mischel, Paul S.; Chang, Howard Y.
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Cohesin prevents cross-domain gene coactivation
err2024-07-24
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errOAAI
errDong, Peng; Zhang, Shu; Gandin, Valentina; Xie, Liangqi; Wang, Lihua; Lemire, Andrew L.; Li, Wenhong; Otsuna, Hideo; Kawase, Takashi; Lander, Arthur D.; Chang, Howard Y.; Liu, Zhe J.
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CoRAL accurately resolves extrachromosomal DNA genome structures with long-read sequencing
err2024-07-09
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errOAAI
errZhu, Kaiyuan; Jones, Matthew G.; Luebeck, Jens; Bu, Xinxin; Yi, Hyerim; Hung, King L.; Wong, Ivy Tsz-Lo; Zhang, Shu; Mischel, Paul S.; Chang, Howard Y.; Bafna, Vineet
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