Unannotated small RNA clusters associated with circulating extracellular vesicles detect early stage liver cancer

OBJECTIVE

Surveillance tools for early cancer detection are suboptimal, including hepatocellular carcinoma (HCC), and biomarkers are urgently needed. Extracellular vesicles (EVs) have gained increasing scientific interest due to their involvement in tumour initiation and metastasis; however, most extracellular RNA (exRNA) blood-based biomarker studies are limited to annotated genomic regions.

DESIGN

EVs were isolated with differential ultracentrifugation and integrated nanoscale deterministic lateral displacement arrays (nanoDLD) and quality assessed by electron microscopy, immunoblotting, nanoparticle tracking and deconvolution analysis. Genome-wide sequencing of the largely unexplored small exRNA landscape, including unannotated transcripts, identified and reproducibly quantified small RNA clusters (smRCs). Their key genomic features were delineated across biospecimens and EV isolation techniques in prostate cancer and HCC. Three independent exRNA cancer datasets with a total of 479 samples from 375 patients, including longitudinal samples, were used for this study.

RESULTS

ExRNA smRCs were dominated by uncharacterised, unannotated small RNA with a consensus sequence of 20 nt. An unannotated 3-smRC signature was significantly overexpressed in plasma exRNA of patients with HCC (p<0.01, n=157). An independent validation in a phase 2 biomarker case-control study revealed 86% sensitivity and 91% specificity for the detection of early HCC from controls at risk (n=209) (area under the receiver operating curve (AUC): 0.87). The 3-smRC signature was independent of alpha-fetoprotein (p<0.0001) and a composite model yielded an increased AUC of 0.93.

CONCLUSION

These findings directly lead to the prospect of a minimally invasive, blood-only, operator-independent clinical tool for HCC surveillance, thus highlighting the potential of unannotated smRCs for biomarker research in cancer.

Nagaoka ferromagnetism observed in a quantum dot plaquette

Engineered, highly controllable quantum systems are promising simulators of emergent physics beyond the simulation capabilities of classical computers¹. An important problem in many-body physics is itinerant magnetism, which originates purely from long-range interactions of free electrons and whose existence in real systems has been debated for decades^2,3. Here we use a quantum simulator consisting of a four-electron-site square plaquette of quantum dots⁴ to demonstrate Nagaoka ferromagnetism⁵. This form of itinerant magnetism has been rigorously studied theoretically^6-9 but has remained unattainable in experiments. We load the plaquette with three electrons and demonstrate the predicted emergence of spontaneous ferromagnetic correlations through pairwise measurements of spin. We find that the ferromagnetic ground state is remarkably robust to engineered disorder in the on-site potentials and we can induce a transition to the low-spin state by changing the plaquette topology to an open chain. This demonstration of Nagaoka ferromagnetism highlights that quantum simulators can be used to study physical phenomena that have not yet been observed in any experimental system. The work also constitutes an important step towards large-scale quantum dot simulators of correlated electron systems.

Triplet exciton dissociation in singlet exciton fission photovoltaics

Triplet exciton dissociation in singlet exciton fission devices with three classes of acceptors are characterized: fullerenes, perylene diimides, and PbS and PbSe colloidal nanocrystals. Using photocurrent spectroscopy and a magnetic field probe it is found that colloidal PbSe nanocrystals are the most promising acceptors, capable of efficient triplet exciton dissociation and long wavelength absorption.

Few-body bound states in dipolar gases and their detection

We consider dipolar interactions between heteronuclear molecules in a low-dimensional setup consisting of two one-dimensional tubes. We demonstrate that attraction between molecules in different tubes can overcome intratube repulsion and complexes with several molecules in the same tube are stable. In situ detection schemes of the few-body complexes are proposed. We discuss extensions to many tubes and layers, and outline the implications on many-body physics.

π phases in balanced fermionic superfluids on spin-dependent optical lattices

We study a balanced two-component system of ultracold fermions in one dimension with attractive interactions and subject to a spin-dependent optical lattice potential of opposite sign for the two components. We find states with different types of modulated pairing order parameters which are conceptually similar to π phases discussed for superconductor-ferromagnet heterostructures. Increasing the lattice depth induces sharp transitions between states of different parity. While the origin of the order parameter oscillations is similar to the Fulde-Ferrel-Larkin-Ovchinnikov phase for paired states with spin imbalance, the current system is intrinsically stable to phase separation. We discuss experimental requirements for creating and probing these novel phases.

Interactions and magnetism in graphene boundary states

We analyze interaction effects on boundary states of single layer graphene. Near a half filled band, both short- and long-ranged interactions lead to a fully spin-polarized configuration. In addition, the band of boundary states acquires a finite dispersion as a function of the momentum parallel to the edge, induced by the interactions. Away from half filling the wave function develops charge correlations similar to those in a Wigner crystal, and the spin strongly alternates with the occupation of the boundary states. For certain fillings the ground state has a finite linear momentum, leading to the formation of persistent currents.

Spectroscopy of few-electron collective excitations in charge-tunable artificial atoms

We report the investigation of electronic excitations in InGaAs self-assembled quantum dots using resonant inelastic light scattering. The dots can be charged via a gate by N=1, em leader,6 electrons. We observe excitations, which are identified as transitions of electrons, predominantly from the s to the p shell (s-p transitions) of the quasiatoms. We find that the s-p transition energy decreases and the observed band broadens, when the p shell is filled with 1 to 4 electrons. By a theoretical model, which takes into account the full Coulomb interaction in the few-electron artificial atom, we can confirm the experimental results to be an effect of the Coulomb interaction in the quantum dot.