12 Result(s)

Article

Diverse silent chromatin states modulate genome compartmentalization and loop extrusion barriers

The relationships between chromosomal compartmentalization, chromatin state and function are poorly understood. Here by profiling long-range contact frequencies in HCT116 colon cancer cells, we distinguish thr...

George Spracklin, Nezar Abdennur, Maxim Imakaev… in Nature Structural & Molecular Biology (2023)

Article

Lineage abundance estimation for SARS-CoV-2 in wastewater using transcriptome quantification techniques

Effectively monitoring the spread of SARS-CoV-2 mutants is essential to efforts to counter the ongoing pandemic. Predicting lineage abundance from wastewater, however, is technically challenging. We show that ...

Jasmijn A. Baaijens, Alessandro Zulli, Isabel M. Ott, Ioanna Nika… in Genome Biology (2022)

Article

Author Correction: The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data

Sarah B. Reiff, Andrew J. Schroeder, Koray Kırlı, Andrea Cosolo… in Nature Communications (2022)

Article

The 4D Nucleome Data Portal as a resource for searching and visualizing curated nucleomics data

The 4D Nucleome (4DN) Network aims to elucidate the complex structure and organization of chromosomes in the nucleus and the impact of their disruption in disease biology. We present the 4DN Data Portal ( ...

Sarah B. Reiff, Andrew J. Schroeder, Koray Kırlı, Andrea Cosolo… in Nature Communications (2022)

Article

The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos

Genome organization involves cis and trans chromosomal interactions, both implicated in gene regulation, development, and disease. Here, we focus on trans interactions in Drosophila, where homologous chromosomes ...

Jelena Erceg, Jumana AlHaj Abed, Anton Goloborodko… in Nature Communications (2019)

Article

Publisher Correction: Heterochromatin drives compartmentalization of inverted and conventional nuclei

An Amendment to this paper has been published and can be accessed via a link at the top of the paper.

Martin Falk, Yana Feodorova, Natalia Naumova, Maxim Imakaev, Bryan R. Lajoie… in Nature (2019)

Article

Publisher Correction: Immune genes are primed for robust transcription by proximal long noncoding RNAs located in nuclear compartments

In the version of this article initially published, ‘+’ and ‘–’ labels were missing from the graph keys at the bottom of Fig. 8d. The error has been corrected in the HTML and PDF versions of the article.

Stephanie Fanucchi, Ezio T. Fok, Emiliano Dalla, Youtaro Shibayama… in Nature Genetics (2019)

Article

Genome-wide transcription start site map** of Bradyrhizobium japonicum grown free-living or in symbiosis – a rich resource to identify new transcripts, proteins and to study gene regulation

Differential RNA-sequencing (dRNA-seq) is indispensable for determination of primary transcriptomes. However, using dRNA-seq data to map transcriptional start sites (TSSs) and promoters genome-wide is a bioinf...

Jelena Čuklina, Julia Hahn, Maxim Imakaev, Ulrich Omasits… in BMC Genomics (2016)

Article

Chromosomal architecture changes upon cell differentiation

Maxim Imakaev, Geoffrey Fudenberg, Leonid Mirny in Epigenetics & Chromatin (2013)

Article

Polymer models of topological insulators

Boryana Doyle, Maxim Imakaev, Geoffrey Fudenberg, Leonid Mirny in Epigenetics & Chromatin (2013)

Article

S cerevisiae genome as a confined equilibrium polymer brush

Anton Goloborodko, Jon Matthew Belton, Geoffrey Fudenberg… in Epigenetics & Chromatin (2013)

Article

Polymer models of yeast S. cerevisiae genome organization

Geoff Fudenberg, Jon-Matthew Belton, Anton Goloborodko… in Epigenetics & Chromatin (2013)