Greenleaf WJ - Search Results

1

Single-molecule chromatin configurations link transcription factor binding to expression in human cells.

Doughty BR, Hinks MM, Schaepe JM, Marinov GK, Thurm AR, Rios-Martinez C, Parks BE, Tan Y, Marklund E, Dubocanin D, Bintu L, Greenleaf WJ. Doughty BR, et al. Among authors: greenleaf wj. bioRxiv [Preprint]. 2024 Feb 4:2024.02.02.578660. doi: 10.1101/2024.02.02.578660. bioRxiv. 2024. Update in: Nature. 2024 Dec;636(8043):745-754. doi: 10.1038/s41586-024-08219-w PMID: 38352517 Free PMC article. Updated. Preprint.

2

Long-range single-molecule mapping of chromatin accessibility in eukaryotes.

Shipony Z, Marinov GK, Swaffer MP, Sinnott-Armstrong NA, Skotheim JM, Kundaje A, Greenleaf WJ. Shipony Z, et al. Among authors: greenleaf wj. Nat Methods. 2020 Mar;17(3):319-327. doi: 10.1038/s41592-019-0730-2. Epub 2020 Feb 10. Nat Methods. 2020. PMID: 32042188 Free PMC article.

3

Transcription-dependent domain-scale three-dimensional genome organization in the dinoflagellate Breviolum minutum.

Marinov GK, Trevino AE, Xiang T, Kundaje A, Grossman AR, Greenleaf WJ. Marinov GK, et al. Among authors: greenleaf wj. Nat Genet. 2021 May;53(5):613-617. doi: 10.1038/s41588-021-00848-5. Epub 2021 Apr 29. Nat Genet. 2021. PMID: 33927397 Free PMC article.

4

Single-Molecule Multikilobase-Scale Profiling of Chromatin Accessibility Using m6A-SMAC-Seq and m6A-CpG-GpC-SMAC-Seq.

Marinov GK, Shipony Z, Kundaje A, Greenleaf WJ. Marinov GK, et al. Among authors: greenleaf wj. Methods Mol Biol. 2022;2458:269-298. doi: 10.1007/978-1-0716-2140-0_15. Methods Mol Biol. 2022. PMID: 35103973 Free PMC article.

5

The chromatin organization of a chlorarachniophyte nucleomorph genome.

Marinov GK, Chen X, Wu T, He C, Grossman AR, Kundaje A, Greenleaf WJ. Marinov GK, et al. Among authors: greenleaf wj. Genome Biol. 2022 Mar 1;23(1):65. doi: 10.1186/s13059-022-02639-5. Genome Biol. 2022. PMID: 35232465 Free PMC article.

6

NEAT-seq: simultaneous profiling of intra-nuclear proteins, chromatin accessibility and gene expression in single cells.

Chen AF, Parks B, Kathiria AS, Ober-Reynolds B, Goronzy JJ, Greenleaf WJ. Chen AF, et al. Among authors: greenleaf wj. Nat Methods. 2022 May;19(5):547-553. doi: 10.1038/s41592-022-01461-y. Epub 2022 May 2. Nat Methods. 2022. PMID: 35501385 Free PMC article.

7

High-throughput biochemistry in RNA sequence space: predicting structure and function.

Marklund E, Ke Y, Greenleaf WJ. Marklund E, et al. Among authors: greenleaf wj. Nat Rev Genet. 2023 Jun;24(6):401-414. doi: 10.1038/s41576-022-00567-5. Epub 2023 Jan 12. Nat Rev Genet. 2023. PMID: 36635406 Review.

8

Genome-Wide Mapping of Active Regulatory Elements Using ATAC-seq.

Marinov GK, Shipony Z, Kundaje A, Greenleaf WJ. Marinov GK, et al. Among authors: greenleaf wj. Methods Mol Biol. 2023;2611:3-19. doi: 10.1007/978-1-0716-2899-7_1. Methods Mol Biol. 2023. PMID: 36807060

9

Single-Molecule Mapping of Chromatin Accessibility Using NOMe-seq/dSMF.

Hinks M, Marinov GK, Kundaje A, Bintu L, Greenleaf WJ. Hinks M, et al. Among authors: greenleaf wj. Methods Mol Biol. 2023;2611:101-119. doi: 10.1007/978-1-0716-2899-7_8. Methods Mol Biol. 2023. PMID: 36807067

10

Simultaneous Single-Cell Profiling of the Transcriptome and Accessible Chromatin Using SHARE-seq.

Kim SH, Marinov GK, Bagdatli ST, Higashino SI, Shipony Z, Kundaje A, Greenleaf WJ. Kim SH, et al. Among authors: greenleaf wj. Methods Mol Biol. 2023;2611:187-230. doi: 10.1007/978-1-0716-2899-7_11. Methods Mol Biol. 2023. PMID: 36807070

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