High-resolution TADs reveal DNA sequences underlying genome organization in flies

Autor: Fidel Ramírez, Vivek Bhardwaj, Laura Arrigoni, Kin Chung Lam, Björn A. Grüning, José Villaveces, Bianca Habermann, Asifa Akhtar, Thomas Manke

Publikováno v: Nature Communications, Vol 9, Iss 1, Pp 1-15 (2018)

Although topologically associating domains (TADs) have been extensively investigated, it is not clear to what extent DNA sequence contributes to their formation. Here the authors develop software to identify high-resolution TAD boundaries and reveal

Externí odkaz: https://doaj.org/article/f48cef696c874fc680f5d90d7c13d700

PrimeDesign software for rapid and simplified design of prime editing guide RNAs

Autor: Andrew V. Anzalone, Luca Pinello, J. Keith Joung, Jonathan Y. Hsu, Kin Chung Lam, Julian Grünewald, Max W. Shen, David R. Liu

Prime editing (PE) is a versatile genome editing technology, but design of the required guide RNAs is more complex than for standard CRISPR-based nucleases or base editors. Here we describe PrimeDesign, a user-friendly, end-to-end web application and

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d3dee4ac0b6ffab68fc5a6695f992bed
https://doi.org/10.1101/2020.05.04.077750

The NSL complex-mediated nucleosome landscape is required to maintain transcription fidelity and suppression of transcription noise

Autor: Shantanu S. Iyer, Vivek Bhardwaj, Plamen Georgiev, Kin Chung Lam, Asifa Akhtar, Giuseppe Semplicio, Ho-Ryun Chung, Aline Gaub, Herbert Holz

Publikováno v: Genes and Development

Nucleosomal organization at gene promoters is critical for transcription, with a nucleosome-depleted region (NDR) at transcription start sites (TSSs) being required for transcription initiation. How NDRs and the precise positioning of the +1 nucleoso

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::603dac35a9f37d33010e6d9e4ffe5fe5
https://hdl.handle.net/21.11116/0000-0003-66C6-B21.11116/0000-0003-66C8-9

High-resolution TADs reveal DNA sequences underlying genome organization in flies

Autor: Vivek Bhardwaj, Thomas Manke, Bianca Habermann, Jose M. Villaveces, Asifa Akhtar, Fidel Ramírez, Kin Chung Lam, Björn Grüning, Laura Arrigoni

Publikováno v: Nature Communications
Nature Communications, Nature Publishing Group, 2018, 9 (1), pp.189. ⟨10.1038/s41467-017-02525-w⟩
Nature Communications, Vol 9, Iss 1, Pp 1-15 (2018)
Nature Communications, 2018, 9 (1), pp.189. ⟨10.1038/s41467-017-02525-w⟩

Despite an abundance of new studies about topologically associating domains (TADs), the role of genetic information in TAD formation is still not fully understood. Here we use our software, HiCExplorer (hicexplorer.readthedocs.io) to annotate >2800 h

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5fec4ac0aeca0bc68a23161328b9a6d3
https://doi.org/10.1038/s41467-017-02525-w

Synthesis, Characterization, and Laser Flash Photolysis Reactivity of a Carbonmonoxy Heme Complex

Autor: David W. Thompson, Donald V. Scaltrito, Arnold L. Rheingold, Gerald J. Meyer, Reza A. Ghiladi, Ryan M. Kretzer, Kin Chung Lam, Estelle L. Lebeau, Kenneth D. Karlin

Publikováno v: Inorganic Chemistry. 42:5211-5218

We present here the synthesis, characterization, and flash photolysis study of [(F(8)TPP)Fe(II)(CO)(THF)] (1) [F(8)TPP = tetrakis(2,6-difluorophenyl)porphyrinate(2-)]. Complex 1 crystallizes from THF/heptane solvent system as a tris-THF solvate, [(F(

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::c3d9cc3ef72e7dfed8fead93f61924f1
https://doi.org/10.1021/ic026307b