Jef D Boeke
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Explore the profile of Jef D Boeke including associated specialties, affiliations and a list of published articles.
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282
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15336
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Recent Articles
1.
Yi E, Gujar A, Zhao D, Suina K, Jin X, Pardon K, et al.
bioRxiv
. 2025 Mar;
PMID: 40060579
Dear Editor Extrachromosomal DNA (ecDNA), a major focal oncogene amplification mode found across cancer, has recently regained attention as an emerging cancer hallmark , with a pervasive presence across cancers...
2.
Construction and iterative redesign of synXVI a 903 kb synthetic Saccharomyces cerevisiae chromosome
Goold H, Kroukamp H, Erpf P, Zhao Y, Kelso P, Calame J, et al.
Nat Commun
. 2025 Jan;
16(1):841.
PMID: 39833175
The Sc2.0 global consortium to design and construct a synthetic genome based on the Saccharomyces cerevisiae genome commenced in 2006, comprising 16 synthetic chromosomes and a new-to-nature tRNA neochromosome. In...
3.
Goldberg G, Kogenaru M, Keegan S, Haase M, Kagermazova L, Arias M, et al.
Nat Commun
. 2024 Nov;
15(1):10287.
PMID: 39604381
DNA targeting Class 2 CRISPR-Cas effector nucleases, including the well-studied Cas9 proteins, evolved protospacer-adjacent motif (PAM) and guide RNA interactions that sequentially license their binding and cleavage activities at protospacer...
4.
Zhou C, Wang Y, Huang Y, An Y, Fu X, Yang D, et al.
Nat Commun
. 2024 Nov;
15(1):10139.
PMID: 39578428
In the era of synthetic biology, design, construction, and utilization of synthetic chromosomes with unique features provide a strategy to study complex cellular processes such as aging. Herein, we successfully...
5.
Kraft K, Murphy S, Jones M, Shi Q, Bhargava-Shah A, Luong C, et al.
bioRxiv
. 2024 Sep;
PMID: 39282372
Extrachromosomal DNA (ecDNA) is a hallmark of aggressive cancer, contributing to both oncogene amplification and tumor heterogeneity. Here, we used Hi-C, super-resolution imaging, and long-read sequencing to explore the nuclear...
6.
Haase M, Lazar-Stefanita L, Olafsson G, Wudzinska A, Shen M, Truong D, et al.
Cell Rep
. 2024 Jul;
43(7):114472.
PMID: 38990716
In addition to replicative histones, eukaryotic genomes encode a repertoire of non-replicative variant histones, providing additional layers of structural and epigenetic regulation. Here, we systematically replace individual replicative human histones...
7.
Pan W, Zhang W, Zheng B, Camellato B, Stern J, Lin Z, et al.
Med
. 2024 May;
5(8):1016-1029.e4.
PMID: 38776915
Background: Xenotransplantation of genetically engineered porcine organs has the potential to address the challenge of organ donor shortage. Two cases of porcine-to-human kidney xenotransplantation were performed, yet the physiological effects...
8.
Schmauch E, Piening B, Mohebnasab M, Xia B, Zhu C, Stern J, et al.
Nat Med
. 2024 May;
30(5):1448-1460.
PMID: 38760586
In a previous study, heart xenografts from 10-gene-edited pigs transplanted into two human decedents did not show evidence of acute-onset cellular- or antibody-mediated rejection. Here, to better understand the detailed...
9.
Ordonez R, Zhang W, Ellis G, Zhu Y, Ashe H, Ribeiro-Dos-Santos A, et al.
Mol Cell
. 2024 May;
84(10):1842-1854.e7.
PMID: 38759624
Genomic context critically modulates regulatory function but is difficult to manipulate systematically. The murine insulin-like growth factor 2 (Igf2)/H19 locus is a paradigmatic model of enhancer selectivity, whereby CTCF occupancy...
10.
Camellato B, Brosh R, Ashe H, Maurano M, Boeke J
Nature
. 2024 Mar;
628(8007):373-380.
PMID: 38448583
Pervasive transcriptional activity is observed across diverse species. The genomes of extant organisms have undergone billions of years of evolution, making it unclear whether these genomic activities represent effects of...