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Bayesian Peak Picking for NMR Spectra

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Genomics, Proteomics & Bioinformatics 2014年第1期12卷 39-47页

作者： yichen cheng Xin Gao Faming Liang Department of Statistics Texas A&M UniversityCollege StationTX 77843USA Computer Electrical and Mathematical Sciences and Engineering DivisionKing Abdullah University of Science and Technology (KAUST)Thuwal 23955-6900Saudi Arabia

Protein structure determination is a very important topic in structural genomics,which helps people to understand varieties of biological functions such as protein-protein interactions,protein-DNA interactions and so ***,nuclear magnetic resonance （NMR） has often been used to determine the three-dimensional structures of protein in *** study aims to automate the peak picking step,the most important and tricky step in NMR structure *** propose to model the NMR spectrum by a mixture of bivariate Gaussian densities and use the stochastic approximation Monte Carlo algorithm as the computational tool to solve the *** the Bayesian framework,the peak picking problem is casted as a variable selection *** proposed method can automatically distinguish true peaks from false ones without preprocessing the *** the best of our knowledge,this is the first effort in the literature that tackles the peak picking problem for NMR spectrum data using Bayesian method.

关键词： Markov chain Monte Carlo Nuclear magnetic resonance Peak picking

Status quo on recycling of waste crystalline silicon for photovoltaic modules and its implications for China's photovoltaic industry

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Frontiers in Energy 2024年第5期18卷 685-698页

作者： yichen Zhou Jia Wen Yulin Zheng Wei Yang Yuru Zhang Wenxing cheng College of Environmental Science and Engineering Hunan UniversityChangsha 410082China Key Laboratory of Environmental Biology and Pollution Control of Ministry of Education Hunan UniversityChangsha 410082China

As a clean and efficient renewable energy source,solar energy has been rapidly applied *** growth rate of China's installed capacity ranks first in the ***,the life span of photovoltaic(PV)modules is 25 to 30 years,and the rapid development of installed capacity indicates that a large number of PV modules will be decommissioned in the ***,the ongoing treatment of the scrapped PV waste cells in the near future requires urgent plans and *** recycling and disposal of decommissioned PV modules is a practical requirement for the sustainable development of the country and *** silicon(c-Si)solar cells currently occupy 85%-90%of the market share,and some scholars have begun to seek the utilization pathways of the waste Si in and outside the PV *** this paper,the research status of the separation and recycling process of crystalline Si PV modules is reviewed,and the recycling ways of crystalline silicon are particularly focused *** addition,the current bottlenecks in the PV recycling industry in China are analyzed and some suggestions on the sustainable development of the PV industry are proposed.

关键词： waste photovoltaic(PV)modules crystalline silicon(c-Si)battery separation and recovery sustainable development

QTL-Seq Identified a Major QTL for Grain Length and Weight in Rice Using Near Isogenic F_2 Population

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Rice science 2018年第3期25卷 121-131页

作者： QIN Yaobin cheng Peng cheng yichen FENG Yue HUANG Derun HUANG Tingxu SONG Xianjun YING Jiezheng State Key Laboratory of Rice Biology/Chinese National Center for Rice Improvement China National Rice Research Institute Key Laboratory of Plant Molecular Physiology/Institute of Botany the Chinese Academy of Sciences Institute of Rice Research Fujian Academy of Agricultural Sciences/Fuzhou National Sub-Center for Rice Improvement

Mapping and isolation of quantitative trait loci(QTLs)or genes controlling grain size or weight is very important to uncover the molecular mechanisms of seed development and crop *** identify the QTLs controlling grain size and weight,we developed a near isogenic line F_2(NIL-F_2)population,which was derived from a residual heterozygous plant in an F_7 generation of recombinant inbred line(RIL).With the completion of more than 30×whole genome re-sequencing of the parents,two DNA bulks for large and small grains,a total of 58.94 Gb clean nucleotide data were generated.A total of455 262 single nucleotide polymorphisms(SNPs)between the parents were identified to perform bulked QTL-seq.A candidate genomic region containing SNPs strongly associated with grain length and weight was identified from 15 to 20 Mb on chromosome *** designated the major QTL in the candidate region as q ***,q TGW5.3 was further validated with PCR-based conventional QTL mapping method through developing simple sequence repeat and Insertion/Deletion markers in the F_2 ***,recombinants and the progeny tests delimited the candidate region of q TGW5.3 to 1.13 Mb,flanked by HX5009(15.15 Mb)and HX5003(16.28 Mb).A set of NILs,selected from the F_2 population,was developed to evaluate the genetic effect of q *** QTL effects were detected on grain length,grain width and 1000-grain weight of H12-29 allele with 1.14 mm,-0.11 mm and 3.11 g,which explained 99.64%,95.51%and 97.32%of the phenotypic variations,respectively.

关键词： grain length grain weight QTL-seq quantitative trait locus near-isogenic line rice single nucleotide polymorphism recombinant inbred line qTGW5.3

Synthesis of Cs_(2.5)H_(0.5)PW_(12)O_(40)/TiO_(2) Nanocomposites with Dominant TiO_(2){001}Facets and Related Photocatalytic Properties

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Chinese Journal of Chemistry 2014年第11期32卷 1151-1156页

作者： yichen Hu Yuanhang Ren Gangfeng Tang cheng Wang Min Tang Bin Yue Heyong He Department of Chemistry and Shanghai Key Laboratory of Molecular Catalysis and Innovative Materials Fudan UniversityShanghai 200433China

TiO_(2)nanosheets with dominant{001}facets,coupled with Cs_(2.5)H_(0.5)PW_(12)O_(40),were successfully synthesized by a one-step hydrothermal *** photocatalytic activity of nanocatalysts was evaluated by the degradation of Rhodamine B under UV light *** results showed that both the addition of Cs_(2.5)H_(0.5)PW_(12)O_(40)and the exposed{001}facets of TiO_(2)have a positive effect on the photocatalytic *** improved photoactivity of nanocomposites in comparison with that of TiO_(2)nanosheets could be attributed to the synergistic effect between Cs_(2.5)H_(0.5)PW_(12)O_(40)and TiO_(2)which facilitates the separation of photo-induced hole-electron pairs.

关键词： anatase TiO_(2) {001}facets cesium tungstophosphate photocatalysis

An Integrated Systems Biology Approach Identifies ZIKV and DENV Replication

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Genomics, Proteomics & Bioinformatics 2021年第1期19卷 108-122页

作者： Guang Song Emily M.Lee Jianbo Pan Miao Xu Hee-Sool Rho yichen cheng.nadia whitt Shu Yang Jennifer Kouznetsova Carleen Klumpp-Thomas Samuel G.Michael Cedric Moore Ki-Jun Yoon Kimberly M.Christian Anton Simeonov Wenwei Huang Menghang Xia Ruili Huang Madhu Lal-Nag Hengli Tang Wei Zheng Jiang Qian Hongjun Song Guo-li Ming Heng Zhu Department of Pharmacology&Molecular Sciences Johns Hopkins School of MedicineBaltimoreMD 21205USA Department of Biological Science Florida State UniversityTallahasseeFL 32306USA Department of Ophthalmology Johns Hopkins School of MedicineBaltimoreMD 21205USA National Center for Advancing Translational Sciences National Institutes of HealthBethesdaMD 20892USA Sir Run Run Shaw Hospital Zhejiang University School of MedicineHangzhou 310016China Institute for Cell Engineering Johns Hopkins University School of MedicineBaltimoreMD 21205USA Department of Neuroscience and Mahoney Institute for Neurosciences Perelman School for MedicineUniversity of PennsylvaniaPhiladelphiaPA 19104USA Department of Cell and Developmental Biology Perelman School for MedicineUniversity of PennsylvaniaPhiladelphiaPA 19104USA Institute for Regenerative Medicine Perelman School for MedicineUniversity of PennsylvaniaPhiladelphiaPA 19104USA The Epigenetics Institute Perelman School for MedicineUniversity of PennsylvaniaPhiladelphiaPA 19104USA

The Zika virus(ZIKV)and dengue virus(DENV)flaviviruses exhibit similar replicative processes but have distinct clinical outcomes.A systematic understanding of virus–host protein–protein interaction networks can reveal cellular pathways critical to viral replication and disease *** we employed three independent systems biology approaches toward this ***,protein array analysis of direct interactions between individual ZIKV/DENV viral proteins and20,240 human proteins revealed multiple conserved cellular pathways and protein complexes,including proteasome ***,an RNAi screen of 10,415 druggable genes identified the host proteins required for ZIKV infection and uncovered that proteasome proteins were crucial in this ***,high-throughput screening of 6016 bioactive compounds for ZIKV inhibition yielded 134 effective compounds,including six proteasome inhibitors that suppress both ZIKV and DENV *** analyses of these orthogonal datasets pinpoint proteasomes as critical host machinery for ZIKV/DENV *** study provides multi-omics datasets for further studies of flavivirus–host interactions,disease pathogenesis,and new drug targets.

关键词： Protein–protein interaction RNAi screening Chemical genetics screening Multi-omics

Ambipolar tribotronic transistor of MoTe_(2)

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Nano Research 2023年第9期16卷 11907-11913页

作者： Yonghai Li Jinran Yu yichen Wei Yifei Wang Liuqi cheng Zhenyu Feng Ya Yang Zhong Lin Wang Qijun Sun Center on Nanoenergy Research School of Chemistry and Chemical EngineeringGuangxi UniversityNanning 530004China Beijing Institute of Nanoenergy and Nanosystems Chinese Academy of SciencesBeijing 101400China School of Nanoscience and Technology University of Chinese Academy of SciencesBeijing 100049China Center on Nanoenergy Research School of Physical Science and TechnologyGuangxi UniversityNanning 530004China Georgia Institute of Technology AtlantaGA 30332-0245USA

Two-dimensional(2D)tribotronic devices have been successfully involved in electromechanical modulation for channel conductance and applied in intelligent sensing system,touch screen,and logic *** transistors and corresponding complementary inverters based on one type of semiconductors are highly promising due to the facile fabrication process and readily tunable ***,we demonstrate an ambipolar tribotronic transistor of molybdenum ditelluride(MoTe_(2)),which shows typical ambipolar transport properties modulated by triboelectric *** is comprised of a MoTe_(2)transistor and a lateral sliding triboelectric nanogenerator(TENG).The induced triboelectric potential by Maxwell’s displacement current(a driving force for TENG)can readily modulate the transport properties of both electrons and holes in MoTe_(2)channel and effectively drive the *** performance tribotronic properties have been achieved,including low cutoff current below 1 pA·μm^(−1)and high current on/off ratio of~103 for holes and electrons dominated *** working mechanism on how to achieve tribotronic ambipolarity is discussed in detail.A complementary tribotronic inverter based on single flake of MoTe_(2)is also demonstrated with low power consumption and high *** work presents an active approach to efficiently modulate semiconductor devices and logic circuits based on 2D materials through external mechanical signal,which has great potential in human–machine interaction,intelligent sensor,and other wearable devices.

关键词： ambipolar tribotronic transistor triboelectric potential mechanical displacement logic gate

Investigation of Nb Ox-based volatile switching device with self-rectifying characteristics

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Science China(Information Sciences) 2019年第12期62卷 277-280页

作者： yichen FANG Zongwei WANG Caidie cheng Zhizhen YU Teng ZHANG Yuchao YANG Yimao CAI Ru HUANG Key Laboratory of Microelectronic Devices and Circuits (MOE) Institute of MicroelectronicsPeking University

Dear editor,Resistive random access memory (RRAM), one of the most promising emerging non-volatile memory technologies, has been extensively investigated by researchers from both academia and industry due to its fast ... 详细信息

关键词： Investigation of Nb Ox-based volatile switching device with self-rectifying characteristics

Bioadaptation of implants to In vitro and In vivo oxidative stress pathological conditions via nanotopography-induced FoxO1 signaling pathways to enhance Osteoimmunal regeneration

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Bioactive Materials 2021年第10期6卷 3164-3176页

作者： Jingyan Huang Ruoqi Li Jinghong Yang Min Cai yichen Lee Anxun Wang Bin cheng Yan Wang Hospital of Stomatology Guanghua School of StomatologySun Yat-sen University and Guangdong Key Laboratory of StomatologyGuangzhouGuangdong510055China Department of Oral and Maxillofacial Surgery The First Affiliated Hospital of Sun Yat-sen UniversityGuangzhouGuangdong510080China

Varieties of pathological conditions,including diabetes,are closely related to oxidative stress(OS),but the osseointegration or bioadaptation of implants to OS and the related mechanism remain poorly *** this study,the antioxidation and osteoimmune regeneration of titanium implants with micro/nanotopographies were evaluated under H2O2-,lipopolysaccharide(LPS)-and hyperglycemia-mediated cellular OS models and in diabetic rats as a representative animal model of ***2 nanotube(TNT)coating on titanium implants directly induced superior osteogenic differentiation of bone mesenchymal stem cells(MSCs)and osseointegration compared with microscale sand blasted-acid etched topography(SLA)under OS,attributed to higher superoxide dismutase 2 activity,the neutralization of intracellular reactive oxygen species(ROS),and less ***,the oxidation resistance on TNT is driven by upregulated forkhead box transcription factor O1(FoxO1),which is abolished after knockdown of FoxO1 via shRNA in ***,TNT also alleviates OS in macrophages,therefore inducing a higher portion of the M2 phenotype under OS with increased secretion of the anti-inflammatory cytokine IL-10,further promoting the osseoimmunity capacity compared with *** current study not only suggests the potential application of TiO2 nanotube-coated titanium implants in compromised conditions but also provides a systematic evaluation strategy for the future development of bone biomaterials.

关键词： Oxidative stress Osteogenesis TiO2 nanotubes FoxO1 Inflammation

Photonic matrix multiplication lights up photonicaccelerator and beyond

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Light(Science & Applications) 2022年第2期11卷 158-178页

作者： Hailong Zhou Jianji Dong Junwei cheng Wenchan Dong Chaoran Huang yichen Shen Qiming Zhang Min Gu Chao Qian Hongsheng Chen Zhichao Ruan Xinliang Zhang Wuhan National Laboratory for Optoelectronics Huazhong University of Science and TechnologyWuhan 430074China Department of Electronic Engineering The Chinese University of Hong KongShatinHong KongChina Lightelligence Hangzhou 311121China Institute of Photonic Chips University of Shanghai for Science and TechnologyShanghai 200093China Centre for Artificial-Intelligence Nanophotonics School of Optical-Electrical and Computer EngineeringUniversity of Shanghai for Science and TechnologyShanghai 200093China Interdisciplinary Center for Quantum Information State Key Laboratory of Modern Optical InstrumentationZJUHangzhou Global Scientific and Technological Innovation CenterZJU-UIUC InstituteZhejiang UniversityHangzhou 310027China Interdisciplinary Center of Quantum Information State Key Laboratory of Modern Optical Instrumentationand Zhejiang Province Key Laboratory of Quantum Technology and DeviceDepartment of PhysicsZhejiang UniversityHangzhou 310027China

Matrix computation,as a fundamental building block of information processing in science and technology,contributes most of the computational overheads in modern signal processing and artificial intelligence *** accelerators are designed to accelerate specific categories of computing in the optical domain,especially matrix multiplication,to address the growing demand for computing resources and *** matrix multiplication has much potential to expand the domain of telecommunication,and artificial intelligence benefiting from its superior *** research in photonic matrix multiplication has flourished and may provide opportunities to develop applications that are unachievable at present by conventional electronic *** this review,we first introduce the methods of photonic matrix multiplication,mainly including the plane light conversion method,Mach–Zehnder interferometer method and wavelength division multiplexing *** also summarize the developmental milestones of photonic matrix multiplication and the related ***,we review their detailed advances in applications to optical signal processing and artificial neural networks in recent ***,we comment on the challenges and perspectives of photonic matrix multiplication and photonic acceleration.

关键词： interferometer beyond matrix