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Author Details

Howard Y Chang
Center for Personal Dynamic Regulomes, Stanford University
1992
340
127
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
35978134Author Correction: Engineering circular RNA for enhanced protein production.Nat Biotechnol2023
37587197Whole genome deconvolution unveils Alzheimer's resilient epigenetic signature.Nat Commun2023
37503111Coordinated inheritance of extrachromosomal DNA species in human cancer cells.bioRxiv2023
35851375Engineering circular RNA for enhanced protein production.Nat Biotechnol2023
36993359Mitigation of chromosome loss in clinical CRISPR-Cas9-engineered T cells.bioRxiv2023
37155869Circular RNA vaccine induces potent T cell responses.Proc Natl Acad Sci U S A2023
37117181The AAV capsid can influence the epigenetic marking of rAAV delivered episomal genomes in a species dependent manner.Nat Commun2023
37046089Extrachromosomal DNA in the cancerous transformation of Barrett's oesophagus.Nature2023
37142849Parallel sequencing of extrachromosomal circular DNAs and transcriptomes in single cancer cells.Nat Genet2023
37162993Transcriptional immune suppression and upregulation of double stranded DNA damage and repair repertoires in ecDNA-containing tumors.bioRxiv2023
36736311Reversing the Central Dogma: RNA-guided control of DNA in epigenetics and genome editing.Mol Cell2023
36865202LINE-associated cryptic splicing induces dsRNA-mediated interferon response and tumor immunity.bioRxiv2023
36596869Long non-coding RNAs: definitions, functions, challenges and recommendations.Nat Rev Mol Cell Biol2023
36658223A guide to naming eukaryotic circular RNAs.Nat Cell Biol2023
34752712Extrachromosomal DNA: An Emerging Hallmark in Human Cancer.Annu Rev Pathol2022
35410381BRD2 compartmentalizes the accessible genome.Nat Genet2022
35398879Oncogene Convergence in Extrachromosomal DNA Hubs.Cancer Discov2022
35695839RNA-binding proteins direct myogenic cell fate decisions.Elife2022
35358469Circular RNA migration in agarose gel electrophoresis.Mol Cell2022
35483375Enhanced safety and efficacy of protease-regulated CAR-T cell receptors.Cell2022
35482398A Genetic Bottleneck of Mitochondrial DNA During Human Lymphocyte Development.Mol Biol Evol2022
36516854Engineered cell entry links receptor biology with single-cell genomics.Cell2022
36579891Inducible lncRNA transgenic mice reveal continual role of <i>HOTAIR</i> in promoting breast cancer metastasis.Elife2022
36575212The autism risk factor CHD8 is a chromatin activator in human neurons and functionally dependent on the ERK-MAPK pathway effector ELK1.Sci Rep2022
36277849Single-cell multiome of the human retina and deep learning nominate causal variants in complex eye diseases.Cell Genom2022
35999210KLF4 recruits SWI/SNF to increase chromatin accessibility and reprogram the endothelial enhancer landscape under laminar shear stress.Nat Commun2022
36270275Multiomic analysis reveals conservation of cancer-associated fibroblast phenotypes across species and tissue of origin.Cancer Cell2022
36356142Enhanced T cell effector activity by targeting the Mediator kinase module.Science2022
36123406The evolutionary dynamics of extrachromosomal DNA in human cancers.Nat Genet2022
35948767Gene regulation on extrachromosomal DNA.Nat Struct Mol Biol2022
35093191Epigenomic priming of immune genes implicates oligodendroglia in multiple sclerosis susceptibility.Neuron2022
34971569GPC2-CAR T cells tuned for low antigen density mediate potent activity against neuroblastoma without toxicity.Cancer Cell2022
33442682B cell-specific XIST complex enforces X-inactivation and restrains atypical B cells.bioRxiv2021
33827925BABEL enables cross-modality translation between multiomic profiles at single-cell resolution.Proc Natl Acad Sci U S A2021
33795428Transient rest restores functionality in exhausted CAR-T cells through epigenetic remodeling.Science2021
33790476Author Correction: ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis.Nat Genet2021
33735607B cell-specific XIST complex enforces X-inactivation and restrains atypical B cells.Cell2021
33838111Genome-wide programmable transcriptional memory by CRISPR-based epigenome editing.Cell2021
33633365ArchR is a scalable software package for integrative single-cell chromatin accessibility analysis.Nat Genet2021
33833111Recruiting T cells in cancer immunotherapy.Science2021
34859208PEPATAC: an optimized pipeline for ATAC-seq data analysis with serial alignments.NAR Genom Bioinform2021
34906313Toward a better understanding of T cells in cancer.Cancer Cell2021
34791665Noncoding RNAs: biology and applications-a Keystone Symposia report.Ann N Y Acad Sci2021
34437836Structured elements drive extensive circular RNA translation.Mol Cell2021
34516825JUN promotes hypertrophic skin scarring via CD36 in preclinical in vitro and in vivo models.Sci Transl Med2021
34485935fSHAPE, fSHAPE-eCLIP, and SHAPE-eCLIP probe transcript regions that interact with specific proteins.STAR Protoc2021
34778803NOT-Gated CD93 CAR T Cells Effectively Target AML with Minimized Endothelial Cross-Reactivity.Blood Cancer Discov2021
34390642Chromatin and gene-regulatory dynamics of the developing human cerebral cortex at single-cell resolution.Cell2021
34620713Integrated spatial multiomics reveals fibroblast fate during tissue repair.Proc Natl Acad Sci U S A2021
34593797Chromatin accessibility associates with protein-RNA correlation in human cancer.Nat Commun2021
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Collaborators

Ansuman T Satpathy
Stanford University
Co-authored papers 44
Ryan A Flynn
Boston Children's Hospital
Co-authored papers 40
Kun Qu
University of Science and Technology of China
Co-authored papers 37
William J Greenleaf
Stanford University
Co-authored papers 36
Maxwell R Mumbach
Broad Institute of MIT and Harvard
Co-authored papers 23
M Ryan Corces
Gladstone Institute of Neurological Disease
Co-authored papers 20
John L Rinn
Co-authored papers 19
Jeffrey M Granja
Stanford University School of Medicine
Co-authored papers 19
Eran Segal
Weizmann Institute of Science
Co-authored papers 17
Michael Snyder
Stanford University
Co-authored papers 14
Ulrike M Litzenburger
Center for Personal Dynamic Regulomes, Stanford University School of Medicine
Co-authored papers 11
Jason D Buenrostro
Harvard University, Broad Institute of MIT and Harvard
Co-authored papers 11
Eric T Kool
Co-authored papers 10
Anshul Kundaje
Stanford University.
Co-authored papers 9
Seung Woo Cho
Center for Genomic Integrity, Institute for Basic Science
Co-authored papers 8
Paul G Giresi
Center for Personal Dynamic Regulomes
Co-authored papers 8
Ravindra Majeti
Stanford University School of Medicine
Co-authored papers 7
Paul S Mischel
Stanford University
Co-authored papers 7
Beijing Wu
Stanford University School of Medicine
Co-authored papers 7
Brian T Do
Center for Personal Dynamic Regulomes, Stanford University
Co-authored papers 7
Edith Heard
Institut Curie, PSL Research University, CNRS UMR 5, INSERM U934
Co-authored papers 7
Ying Shen
Center for Personal Dynamic Regulomes, Stanford University School of Medicine
Co-authored papers 6
Stephen R Quake
Stanford University
Co-authored papers 6
Vineet Bafna
University of California San Diego
Co-authored papers 6
Anthony E Oro
Stanford University
Co-authored papers 6
Thomas J Montine
Stanford University
Co-authored papers 5
Seung K Kim
Stanford University School of Medicine
Co-authored papers 5
Chun Jimmie Ye
University of California san francisco
Co-authored papers 4
Anton G Henssen
Co-authored papers 4
Jens Luebeck
University of California San Diego
Co-authored papers 4
Release 1.2