Jason D Buenrostro

Jason D Buenrostro

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Jason D Buenrostro

Jason D Buenrostro

Publications by authors named "Jason D Buenrostro"

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36Publications

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Assessment of computational methods for the analysis of single-cell ATAC-seq data.

Genome Biol 2019 11 18;20(1):241. Epub 2019 Nov 18.

Molecular Pathology Unit, Massachusetts General Hospital Research Institute, Charlestown, MA, 02129, USA.

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http://dx.doi.org/10.1186/s13059-019-1854-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6859644PMC
November 2019

Transcriptional States and Chromatin Accessibility Underlying Human Erythropoiesis.

Cell Rep 2019 Jun;27(11):3228-3240.e7

Division of Hematology/Oncology, Boston Children's Hospital, and Department of Pediatric Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02115, USA; Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2019.05.046DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6579117PMC
June 2019

Single-cell trajectories reconstruction, exploration and mapping of omics data with STREAM.

Nat Commun 2019 04 23;10(1):1903. Epub 2019 Apr 23.

Molecular Pathology Unit & Cancer Center, Massachusetts General Hospital Research Institute and Harvard Medical School, Boston, MA, 02114, USA.

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http://dx.doi.org/10.1038/s41467-019-09670-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6478907PMC
April 2019

Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics.

Cell 2019 03 28;176(6):1325-1339.e22. Epub 2019 Feb 28.

Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Division of Hematology/Oncology, Boston Children's Hospital and Department of Pediatric Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02115, USA; Harvard Stem Cell Institute, Cambridge, MA 02138, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S00928674193005
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http://dx.doi.org/10.1016/j.cell.2019.01.022DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6408267PMC
March 2019

Single-cell and single-molecule epigenomics to uncover genome regulation at unprecedented resolution.

Nat Genet 2019 01 17;51(1):19-25. Epub 2018 Dec 17.

Broad Institute of MIT and Harvard, Cambridge, MA, USA.

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http://dx.doi.org/10.1038/s41588-018-0290-xDOI Listing
January 2019

Integrated Single-Cell Analysis Maps the Continuous Regulatory Landscape of Human Hematopoietic Differentiation.

Cell 2018 05 26;173(6):1535-1548.e16. Epub 2018 Apr 26.

Center for Personal Dynamic Regulomes, Stanford University, Stanford, CA 94305, USA; Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA; Department of Applied Physics, Stanford University, Stanford, CA 94025, USA; Chan Zuckerberg Biohub, San Francisco, CA 94158, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.03.074DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5989727PMC
May 2018

Rapid chromatin repression by Aire provides precise control of immune tolerance.

Nat Immunol 2018 02 15;19(2):162-172. Epub 2018 Jan 15.

Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA.

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http://dx.doi.org/10.1038/s41590-017-0032-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6049828PMC
February 2018

Chromatin accessibility dynamics reveal novel functional enhancers in .

Genome Res 2017 12 15;27(12):2096-2107. Epub 2017 Nov 15.

Department of Genetics, Stanford University, Stanford, California 94305, USA.

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http://dx.doi.org/10.1101/gr.226233.117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5741055PMC
December 2017

chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data.

Nat Methods 2017 Oct 21;14(10):975-978. Epub 2017 Aug 21.

Department of Genetics, Stanford University School of Medicine, Stanford, California, USA.

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http://dx.doi.org/10.1038/nmeth.4401DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5623146PMC
October 2017

Epigenomics of human CD8 T cell differentiation and aging.

Sci Immunol 2017 Feb 17;2(8). Epub 2017 Feb 17.

Division of Immunology and Rheumatology, Department of Medicine, Stanford University, Stanford, CA 94305; and Department of Medicine, Veterans Affairs Palo Alto Health Care, System, Palo Alto, CA 94306.

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http://dx.doi.org/10.1126/sciimmunol.aag0192DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5399889PMC
February 2017

Single-cell epigenomic variability reveals functional cancer heterogeneity.

Genome Biol 2017 01 24;18(1):15. Epub 2017 Jan 24.

Center for Personal Dynamic Regulomes, Stanford University School of Medicine, Stanford, CA, 94305, USA.

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http://dx.doi.org/10.1186/s13059-016-1133-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5259890PMC
January 2017

Leukemia-Associated Cohesin Mutants Dominantly Enforce Stem Cell Programs and Impair Human Hematopoietic Progenitor Differentiation.

Cell Stem Cell 2015 Dec 22;17(6):675-688. Epub 2015 Oct 22.

Department of Medicine, Division of Hematology, Cancer Institute, and Institute for Stem Cell Biology and Regenerative Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA. Electronic address:

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http://dx.doi.org/10.1016/j.stem.2015.09.017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4671831PMC
December 2015

Structured nucleosome fingerprints enable high-resolution mapping of chromatin architecture within regulatory regions.

Genome Res 2015 Nov 27;25(11):1757-70. Epub 2015 Aug 27.

Department of Genetics, Stanford University School of Medicine, Stanford, California 94305, USA; Department of Applied Physics, Stanford University, Stanford, California 94305, USA.

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http://dx.doi.org/10.1101/gr.192294.115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4617971PMC
November 2015

Single-cell chromatin accessibility reveals principles of regulatory variation.

Nature 2015 Jul 17;523(7561):486-90. Epub 2015 Jun 17.

1] Department of Genetics, Stanford University School of Medicine, Stanford, California 94305, USA [2] Department of Applied Physics, Stanford University, Stanford, California 94025, USA.

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http://dx.doi.org/10.1038/nature14590DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4685948PMC
July 2015

ATAC-seq: A Method for Assaying Chromatin Accessibility Genome-Wide.

Curr Protoc Mol Biol 2015 Jan 5;109:21.29.1-21.29.9. Epub 2015 Jan 5.

Department of Genetics, Stanford University School of Medicine, Stanford, California.

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http://dx.doi.org/10.1002/0471142727.mb2129s109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4374986PMC
January 2015

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position.

Nat Methods 2013 Dec 6;10(12):1213-8. Epub 2013 Oct 6.

1] Department of Genetics, Stanford University School of Medicine, Stanford, California, USA. [2] Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California, USA. [3] Program in Epithelial Biology, Stanford University School of Medicine, Stanford, California, USA.

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http://greenleaf.stanford.edu/assets/pdf/buenrostro_2013_nat
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http://dx.doi.org/10.1038/nmeth.2688DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3959825PMC
December 2013

A flexible approach for highly multiplexed candidate gene targeted resequencing.

PLoS One 2011 30;6(6):e21088. Epub 2011 Jun 30.

Division of Oncology, Department of Medicine, Stanford University School of Medicine, Stanford, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0021088PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3127857PMC
December 2011

Efficient targeted resequencing of human germline and cancer genomes by oligonucleotide-selective sequencing.

Nat Biotechnol 2011 Oct 23;29(11):1024-7. Epub 2011 Oct 23.

Division of Oncology, Department of Medicine, Stanford University School of Medicine, Stanford, California, USA.

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http://www.nature.com/articles/nbt.1996
Publisher Site
http://dx.doi.org/10.1038/nbt.1996DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4336783PMC
October 2011