Three-dimensional folding and functional organization principles of the Drosophila genome.

By Tom Sexton, Eitan Yaffe, E. Kenigsberg, F. Bantignies, Benjamin Leblanc, Michael Hoichman, H. Parrinello, Amos Tanay, G. Cavalli. Cell, 2012

1,830 citations recorded by the source corpus.

Subfields: Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/35870c13779192bb81fd2a2187eb8a38573e6a02

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Citations in the corpus

Genome-scale functional characterization of Drosophila developmental enhancers in vivo (2014, background): “Togethertheseresultssup-portapredominantlylocalorganizationofthe Drosophila genomeinto regulatorydomainsreminiscentofthe chromosomaldomainsinferred from chromatin interactions 21 .”
HiCUP: pipeline for mapping and processing Hi-C data (2015, background): “The bacterial sample was a species of Caulobacter crescentus (SRR824843) 15 ; human refers to Homo sapiens (SRR027963) 1 ; fruit fly refers to Drosophila melanogaster (SRR389762) 16 and yeast was a strain of Schizosaccharomyces pombe (SRR1271321) 17 .”
The physics of epigenetics (2015, neutral): “Phys., Vol. 88, No. 2, April–June 2016 025002-12 (Sexton et al., 2012)].”
A Polymer Model with Epigenetic Recolouring Reveals a Pathway for the de novo Establishment and 3D organisation of Chromatin Domains (2016, background): “Although one of the current paradigms of the field is that the epigenetic landscape and 3D genome folding are intimately related [16–24], most of the existing biophysical studies incorporating epigenetic dynamics have focused on 1-dimensional (1D) or mean field models [25–34].”
Cell-cycle dynamics of chromosomal organisation at single-cell resolution (2016, positive): “One group of 165 clusters (2, 3, 5, 6, 10) showed strong preference for short-range contacts, as shown for cells linked with replication above (Extended Data Fig.”
Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes (2014, positive): “…formation, insulator activity and transcriptional regulation (Bell et al., 1999; Denholtz et al., 2013; Felsenfeld et al., 2004; Handoko et al., 2011; Kim et al., 2007; Phillips and Corces, 2009; Schwartz et al., 2012; Sexton et al., 2012; Soshnikova et al., 2010; Valenzuela and Kamakaka, 2006).”
Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts (2014, background): “Recently, several chromatin conformation capture (3C)-based methods have been used to characterize, on a genome-wide scale, the chromatin architectures of many genomes and cell types at different resolutions (Lieberman-Aiden et al., 2009; Duan et al., 2010; Dixon et al., 2012; Tanizawa et al., 2010;”