Methylation quantitative trait loci (mQTLs) are essential for understanding the role of DNA methylation changes in genetic predisposition, yet they have not been fully characterized in East Asians (EAs). Here we identified mQTLs in whole blood from 3,523 Chinese individuals and replicated them in additional 1,858 Chinese individuals from two cohorts. Over 9% of mQTLs displayed specificity to EAs, facilitating the fine-mapping of EA-specific genetic associations, as shown for variants associated with height. Trans-mQTL hotspots revealed biological pathways contributing to EA-specific genetic associations, including an ERG-mediated 233 trans-mCpG network, implicated in hematopoietic cell differentiation, which likely reflects binding efficiency modulation of the ERG protein complex. More than 90% of mQTLs were shared between different blood cell lineages, with a smaller fraction of lineage-specific mQTLs displaying preferential hypomethylation in the respective lineages. Our study provides new insights into the mQTL landscape across genetic ancestries and their downstream effects on cellular processes and diseases/traits.
DNA Methylation , East Asian People , Quantitative Trait Loci , Female , Humans , Male , East Asian People/genetics , Genetic Predisposition to Disease , Genome-Wide Association Study/methods , Multifactorial Inheritance , Polymorphism, Single Nucleotide
Guesswork is an information-theoretic quantity which can be seen as an alternate security criterion to entropy. Recent work has established the theoretical framework for guesswork in the presence of quantum side information, which we extend both theoretically and experimentally. We consider guesswork when the side information consists of the BB84 states and their higher-dimensional generalizations. With this side information, we compute the guesswork for two different scenarios for each dimension. We then performed a proof-of-principle experiment using Laguerre-Gauss modes to experimentally compute the guesswork for higher-dimensional generalizations of the BB84 states. We find that our experimental results agree closely with our theoretical predictions. This work shows that guesswork can be a viable security criterion in cryptographic tasks and is experimentally accessible in a number of optical setups.
In 1981, Caves pointed out that the phase sensitivity of a Mach-Zehnder interferometer with single-mode inputs is bounded by the shot-noise limit. The quantum Fisher information analysis shows that this statement holds true for the scenario where two antisymmetric phase shifts occur in two arms, but it is invalid for the scenario where an unknown phase is embedded in one of two arms. In this paper, we focus on the phase sensitivity directed against the latter scenario. The optimal single-mode input is discussed by analyzing common states, including displaced squeezed states, displaced number states, squeezed number states, Schrödinger cat states and completely mixed states. We find that the best choice is a squeezed vacuum state and show the specific measurement scheme which is capable of saturating the corresponding phase sensitivity limit. In addition, we study the effects of several realistic factors-anti-squeezing noise, photon loss and dark counts-on the phase sensitivity. Our results suggest that sub-shot-noise-limited phase sensitivity is attainable with low noise or loss, which paves the way for practical metrology.
For almost two decades, researchers have observed the preservation of the quantum statistical properties of bosons in a large variety of plasmonic systems. In addition, the possibility of preserving nonclassical correlations in light-matter interactions mediated by scattering among photons and plasmons stimulated the idea of the conservation of quantum statistics in plasmonic systems. It has also been assumed that similar dynamics underlie the conservation of the quantum fluctuations that define the nature of light sources. So far, plasmonic experiments have been performed in nanoscale systems in which complex multiparticle interactions are restrained. Here, we demonstrate that the quantum statistics of multiparticle systems are not always preserved in plasmonic platforms and report the observation of their modification. Moreover, we show that optical near fields provide additional scattering paths that can induce complex multiparticle interactions. Remarkably, the resulting multiparticle dynamics can, in turn, lead to the modification of the excitation mode of plasmonic systems. These observations are validated through the quantum theory of optical coherence for single- and multi-mode plasmonic systems. Our findings unveil the possibility of using multiparticle scattering to perform exquisite control of quantum plasmonic systems.
In this paper, tunable dual plasmon-induced transparency (PIT) is achieved by using a monolayer graphene metamaterial in the terahertz region, which consists of two graphene strips of different sizes and a graphene ring. As the dual PIT effect is induced by the destructive interference between the two quasi-dark modes and the bright mode, we propose a four-level plasmonic system based on the linearly coupled Lorentzian oscillators to explain the mechanism behind the dual PIT. It is proved that the theoretical results agree well with the simulation results. Most importantly, the sensing properties of the designed device have been investigated in detail and we found that it can exhibit high sensitivities and figure of merit (FOM). Furthermore, the dual PIT windows can be effectively modulated by changing the Fermi energy of the graphene layer and the angle of incidence. Thus, the proposed graphene-based metamaterial can hold wide applications for switches, modulators, and multi-band refractive index sensors in the terahertz region.
Highly reproducible smoking-associated DNA methylation changes in whole blood have been reported by many Epigenome-Wide-Association Studies (EWAS). These epigenetic alterations could have important implications for understanding and predicting the risk of smoking-related diseases. To this end, it is important to establish if these DNA methylation changes happen in all blood cell subtypes or if they are cell-type specific. Here, we apply a cell-type deconvolution algorithm to identify cell-type specific DNA methylation signals in seven large EWAS. We find that most of the highly reproducible smoking-associated hypomethylation signatures are more prominent in the myeloid lineage. A meta-analysis further identifies a myeloid-specific smoking-associated hypermethylation signature enriched for DNase Hypersensitive Sites in acute myeloid leukemia. These results may guide the design of future smoking EWAS and have important implications for our understanding of how smoking affects immune-cell subtypes and how this may influence the risk of smoking related diseases.
DNA Methylation/drug effects , Epigenome , Smoking/adverse effects , Algorithms , Asian People , Blood , CpG Islands , Epigenomics/methods , Ethnicity , Female , Humans , Lymphocytes , Male , Middle Aged , Models, Statistical , Myeloid Cells
In this paper, we theoretically demonstrate a dual-band independently tunable absorber consisting of a stacked graphene nanodisk and graphene layer with nanohole structure, and a metal reflector spaced by insulator layers. This structure exhibits a dipole resonance mode in graphene nanodisks and a quadrupole resonance mode in the graphene layer with nanoholes, which results in the enhancement of absorption over a wide range of incident angles for both TE and TM polarizations. The peak absorption wavelength is analyzed in detail for different geometrical parameters and the Fermi energy levels of graphene. The results show that both peaks of the absorber can be tuned dynamically and simultaneously by varying the Fermi energy level of graphene nanodisks and graphene layer with nanoholes structure. In addition, one can also independently tune each resonant frequency by only changing the Fermi energy level of one graphene layer. Such a device could be used as a chemical sensor, detector or multi-band absorber.
We theoretically study the phase sensitivity of an SU(1,1) interferometer with a thermal state and a squeezed vacuum state as inputs and parity detection as the measurement. We find that the phase sensitivity can beat the shot-noise limit and approaches the Heisenberg limit, with increasing input photon number, in an ideal situation. We also consider the effect of various noises, including photon loss, dark counts, and thermal photon noise. Our results show that the phase sensitivity is below the shot-noise limit with photon loss and dark counts, but cannot beat the shot-noise limit in the presence of thermal noise.
We report on an orbital-angular-momentum-enhanced scheme for angular displacement estimation based on two-mode squeezed vacuum and parity detection. The sub-Heisenberg-limited sensitivity for angular displacement estimation is obtained in an ideal situation. Several realistic factors are also considered, including photon loss, dark counts, response-time delay, and thermal photon noise. Our results indicate that the effects of realistic factors on the sensitivity can be offset by raising orbital angular momentum quantum number â. This implies that the robustness and the practicability of the system can be improved via raising â without changing mean photon number N.
