Spatial partitioning of the regulatory landscape of the X-inactivation centre

In eukaryotes transcriptional regulation often involves multiple long-range elements and is influenced by the genomic environment. A prime example of this concerns the mouse X-inactivation centre (Xic), which orchestrates the initiation of X-chromosome inactivation (XCI) by controlling the expression of the non-protein-coding Xist transcript. The extent of Xic sequences required for the proper regulation of Xist remains unknown. Here we use chromosome conformation capture carbon-copy (5C) and super-resolution microscopy to analyse the spatial organization of a 4.5-megabases (Mb) region including Xist. We discover a series of discrete 200-kilobase to 1 Mb topologically associating domains (TADs), present both before and after cell differentiation and on the active and inactive X. TADs align with, but do not rely on, several domain-wide features of the epigenome, such as H3K27me3 or H3K9me2 blocks and lamina-associated domains. TADs also align with coordinately regulated gene clusters. Disruption of a TAD boundary causes ectopic chromosomal contacts and long-range transcriptional misregulation. The Xist/Tsix sense/antisense unit illustrates how TADs enable the spatial segregation of oppositely regulated chromosomal neighbourhoods, with the respective promoters of Xist and Tsix lying in adjacent TADs, each containing their known positive regulators. We identify a novel distal regulatory region of Tsix within its TAD, which produces a long intervening RNA, Linx. In addition to uncovering a new principle of cis-regulatory architecture of mammalian chromosomes, our study sets the stage for the full genetic dissection of the X-inactivation centre

Bosons in cigar-shape traps: Thomas-Fermi regime, Tonks-Girardeau regime, and between

We present a quantitative analysis of the experimental accessibility of the Tonks-Girardeau gas in the current day experiments with cigar-trapped alkalis. For this purpose we derive, using a Bethe anzats generated local equation of state, a set of hydrostatic equations describing one-dimensional delta-interacting Bose gases trapped in a harmonic potential. The resulting solutions cover the_entire range_ of atomic densities.Comment: 4 pages, 4 figure

Spin-orbit coupling and electron spin resonance for interacting electrons in carbon nanotubes

We review the theoretical description of spin-orbit scattering and electron spin resonance in carbon nanotubes. Particular emphasis is laid on the effects of electron-electron interactions. The spin-orbit coupling is derived, and the resulting ESR spectrum is analyzed both using the effective low-energy field theory and numerical studies of finite-size Hubbard chains and two-leg Hubbard ladders. For single-wall tubes, the field theoretical description predicts a double peak spectrum linked to the existence of spin-charge separation. The numerical analysis basically confirms this picture, but also predicts additional features in finite-size samples.Comment: 19 pages, 4 figures, invited review article for special issue in J. Phys. Cond. Mat., published versio

Multi Mode Interferometer for Guided Matter Waves

We describe the fundamental features of an interferometer for guided matter waves based on Y-beam splitters and show that, in a quasi two-dimensional regime, such a device exhibits high contrast fringes even in a multi mode regime and fed from a thermal source.Comment: Final version (accepted to PRL

Low-density, one-dimensional quantum gases in a split trap

We investigate degenerate quantum gases in one dimension trapped in a harmonic potential that is split in the centre by a pointlike potential. Since the single particle eigenfunctions of such a system are known for all strengths of the central potential, the dynamics for non-interacting fermionic gases and low-density, strongly interacting bosonic gases can be investigated exactly using the Fermi-Bose mapping theorem. We calculate the exact many-particle ground-state wave-functions for both particle species, investigate soliton-like solutions, and compare the bosonic system to the well-known physics of Bose gases described by the Gross-Pitaevskii equation. We also address the experimentally important questions of creation and detection of such states.Comment: 7 pages, 5 figure