Partially functional linear regression in high dimensions

In modern experiments, functional and nonfunctional data are often encountered simultaneously when observations are sampled from random processes and high-dimensional scalar covariates. It is difficult to apply existing methods for model selection and estimation. We propose a new class of partially functional linear models to characterize the regression between a scalar response and covariates of both functional and scalar types. The new approach provides a unified and flexible framework that simultaneously takes into account multiple functional and ultrahigh-dimensional scalar predictors, enables us to identify important features, and offers improved interpretability of the estimators. The underlying processes of the functional predictors are considered to be infinite-dimensional, and one of our contributions is to characterize the effects of regularization on the resulting estimators. We establish the consistency and oracle properties of the proposed method under mild conditions, demonstrate its performance with simulation studies, and illustrate its application using air pollution data

Partially functional linear regression in high dimensions

SUMMARY In modern experiments, functional and nonfunctional data are often encountered simultaneously when observations are sampled from random processes and high-dimensional scalar covariates. It is difficult to apply existing methods for model selection and estimation. We propose a new class of partially functional linear models to characterize the regression between a scalar response and covariates of both functional and scalar types. The new approach provides a unified and flexible framework that simultaneously takes into account multiple functional and ultrahigh-dimensional scalar predictors, enables us to identify important features, and offers improved interpretability of the estimators. The underlying processes of the functional predictors are considered to be infinite-dimensional, and one of our contributions is to characterize the effects of regularization on the resulting estimators. We establish the consistency and oracle properties of the proposed method under mild conditions, demonstrate its performance with simulation studies, and illustrate its application using air pollution data

Electrical Switching of the Edge Current Chirality in Quantum Anomalous Hall Insulators

A quantum anomalous Hall (QAH) insulator is a topological state of matter, in which the interior is insulating but electrical current flows along the edges of the sample, in either clockwise (right-handed) or counter-clockwise (left-handed) direction dictated by the spontaneous magnetization orientation. Such chiral edge current (CEC) eliminates any backscattering, giving rise to quantized Hall resistance and zero longitudinal resistance. In this work, we fabricate mesoscopic QAH sandwich (i.e. magnetic topological insulator (TI)/TI/magnetic TI) Hall bar devices and succeed in switching the CEC chirality in QAH insulators through spin-orbit torque (SOT) by applying a current pulse and suitably controlled gate voltage. The well-quantized QAH states with opposite CEC chiralities are demonstrated through four- and three-terminal measurements before and after SOT switching. Our theoretical calculations show that the SOT that enables the magnetization switching can be generated by both bulk and surface carriers in QAH insulators, in good agreement with experimental observations. Current pulse-induced switching of the CEC chirality in QAH insulators will not only advance our knowledge in the interplay between magnetism and topological states but also expedite easy and instantaneous manipulation of the QAH state in proof-of-concept energy-efficient electronic and spintronic devices as well as quantum information applications.Comment: 24 pages, 5 figures, comments are welcom

Emergent Spin Phenomena in Air-Stable, Atomically Thin Lead

A stable platform to synthesize ultrathin heavy metals, with a strong interfacial Rashba effect, could lead to high efficiency charge-to-spin conversion for next-generation spintronics. Here we report wafer-scale synthesis of air-stable, epitaxially registered monolayer Pb on SiC (0001) via confinement heteroepitaxy (CHet). The highly asymmetric interfacial bonding in this heavy metal system lends to strong Rashba spin-orbit coupling near the Fermi level. Additionally, the system's air stability enables ex-situ spin torque ferromagnetic resonance (ST-FMR) measurements that demonstrate charge-to-spin conversion in CHet-based 2D-Pb/ferromagnet heterostructures and a 1.5x increase in the effective field ratio compared to control samples.Comment: 17 pages, 4 figures. Supporting Information included (20 pages, 9 figures, 1 table

Gene duplication and evolution in recurring polyploidization–diploidization cycles in plants

Abstract Background The sharp increase of plant genome and transcriptome data provide valuable resources to investigate evolutionary consequences of gene duplication in a range of taxa, and unravel common principles underlying duplicate gene retention. Results We survey 141 sequenced plant genomes to elucidate consequences of gene and genome duplication, processes central to the evolution of biodiversity. We develop a pipeline named DupGen_finder to identify different modes of gene duplication in plants. Genes derived from whole-genome, tandem, proximal, transposed, or dispersed duplication differ in abundance, selection pressure, expression divergence, and gene conversion rate among genomes. The number of WGD-derived duplicate genes decreases exponentially with increasing age of duplication events—transposed duplication- and dispersed duplication-derived genes declined in parallel. In contrast, the frequency of tandem and proximal duplications showed no significant decrease over time, providing a continuous supply of variants available for adaptation to continuously changing environments. Moreover, tandem and proximal duplicates experienced stronger selective pressure than genes formed by other modes and evolved toward biased functional roles involved in plant self-defense. The rate of gene conversion among WGD-derived gene pairs declined over time, peaking shortly after polyploidization. To provide a platform for accessing duplicated gene pairs in different plants, we constructed the Plant Duplicate Gene Database. Conclusions We identify a comprehensive landscape of different modes of gene duplication across the plant kingdom by comparing 141 genomes, which provides a solid foundation for further investigation of the dynamic evolution of duplicate genes

Clustering-structure representative sampling from graph streams

Most existing sampling algorithms on graphs (i.e., network-structured data) focus on sampling from memory-resident static graphs and assume the entire graphs are always available. However, the graphs encountered in modern applications are often too large and/or too dynamic to be processed with limited memory. Furthermore, existing sampling techniques are inadequate for preserving the inherent clustering structure, which is an essential property of complex networks. To tackle these problems, we propose a new sampling algorithm that dynamically maintains a representative sample and is capable of retaining clustering structure in graph streams at any time. Performance of the proposed algorithm is evaluated through empirical experiments using real-world networks. The experimental results have shown that our proposed CPIES algorithm can produce clustering-structure representative samples and outperforms current online sampling algorithms

Acetylation of inorganic pyrophosphatase by S-RNase signaling induces pollen tube tip swelling by repressing pectin methylesterase

Self-incompatibility (SI) is a widespread genetically determined system in flowering plants that prevents self-fertilization to promote gene flow and limit inbreeding. S-RNase-based SI is characterized by the arrest of pollen tube growth through the pistil. Arrested pollen tubes show disrupted polarized growth and swollen tips, but the underlying molecular mechanism is largely unknown. Here, we demonstrate that the swelling at the tips of incompatible pollen tubes in pear (Pyrus bretschneideri, Pbr) is mediated by the SI-induced acetylation of the soluble inorganic pyrophosphatase (PPA). PbrPPA5. Acetylation at Lys-42 of PbrPPA5 by the acetyltransferase GCN5-related N-acetyltransferase 1 (GNAT1) drives accumulation of PbrPPA5 in the nucleus, where it binds to the transcription factor PbrbZIP77, forming a transcriptional repression complex that inhibits the expression of the pectin methylesterase (PME) gene PbrPME44. The function of PbrPPA5 as a transcriptional repressor does not require its pyrophosphatase activity. Downregulating PbrPME44 resulted in increased levels of methyl esterified pectins in growing pollen tubes, leading to swelling at their tips. These observations suggest a mechanism for PbrPPA5-driven swelling at the tips of pollen tubes during the SI response. The targets of PbrPPA5 include genes encoding cell wall-modifying enzymes, which are essential for building a continuous sustainable mechanical structure for pollen tube growth