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| 1 | Angiogenesis in a 3D model containing adipose tissue stem cells and endothelial cells is mediated by canonical Wnt signaling显示文摘Adipose-derived stromal cells(ASCs) have gained great attention in regenerative medicine. Progress in our understanding of adult neovascularization further suggests the potential of ASCs in promoting vascular regeneration, although the specific cues that stimulate their angiogenic behavior remain controversial. In this study, we established a three-dimensional(3D) angiogenesis model by co-culturing ASCs and endothelial cells(ECs) in collagen gel and found that ASC-EC-instructed angiogenesis was regulated by the canonical Wnt pathway. Furthermore, the angiogenesis that occurred in implants collected after injections of our collagen gelbased 3D angiogenesis model into nude mice was confirmed to be functional and also regulated by the canonical Wnt pathway. Wnt regulation of angiogenesis involving changes in vessel length, vessel density,vessel sprout, and connection numbers occurred in our system. Wnt signaling was then shown to regulate ASCmediated paracrine signaling during angiogenesis through the nuclear translocation of β-catenin after its cytoplasmic accumulation in both ASCs and ECs. This translocation enhanced the expression of nuclear cofactor Lef-1 and cyclin D1 and activated the angiogenic transcription of vascular endothelial growth factor A(VEGFA), basic fibroblast growth factor(bF GF), and insulin-like growth factor 1(IGF-1). The angiogenesis process in the 3D collagen model appeared to follow canonical Wnt signaling, and this model can help us understand the importance of the canonical Wnt pathway in the use of ASCs in vascular regeneration. | Xiaoxiao Cai Jing Xie Yang Yao Xiangzhu Cun Shiyu Lin Taoran Tian Bofeng Zhu Yunfeng Lin | 2017 | Bone Research2017，5，4： | 6 |
| 2 | Generation and characterization of stable pig pregastrulation epiblast stem cell lines显示文摘Pig epiblast-derived pluripotent stem cells are considered to have great potential and broad prospects for human therapeutic model developme nt and livestock breeding.Despite on going attempts since the 1990s,no stably defined pig epiblast-derived stem cell line has bee n established.Here,guided by in sights from a large-scale sin gle-cell tran scriptome an alysis of pig embryos from embryonic day(E)0 to E14,specifically,the tracing of pluripotency changes during epiblast development,we developed an in vitro culture medium for establishing and maintaining stable pluripotent stem cell lines from pig E10 pregastrulation epiblasts(pgEpiSCs).Enabled by chemical inhibition of WNT-related signaling in combination with growth factors in the FGF/ERK,JAK/STAT3,and Activin/Nodal pathways,pgEpiSCs maintain their pluripotency transcriptome features,similar to those of E10 epiblast cells,and normal karyotypes after more than 240 passages and have the potential to differentiate into three germ layers.Strikingly,ultradeep in situ Hi-C analysis revealed functional impacts of chromatin 3D-spatial associations on the transcriptional regulation of pluripote ncy marker genes in pgEpiSCs.I n practice,we con firmed that pgEpiSCs readily tolerate at least three rounds of successive gene editi ng and gene rated cloned gen e-edited live piglets.Our findings deliver on the long-a nticipated promise of pig pluripote nt stem cells and open new avenues for biological research,animal husbandry,and regenerative biomedicine. | Minglei Zhi Jinying Zhang Qianzi Tang Dawei Yu Shuai Gao Dengfeng Gao Pengliang Liu Jianxiong Guo Tang Hai Jie Gao Suying Cao Zimo Zhao Chongyang Li Xiaogang Weng Mengnan He Tianzhi Chen Yingjie Wang Keren Long Deling Jiao Guanglei Li Jiaman Zhang Yan Liu Yu Lin Daxin Pang Qianqian Zhu Naixin Chen Jingjing Huang Xinze Chen Yixuan Yao Jingcang Yang Zicong Xie Xianya Huang Mengxin Liu Ran Zhang Qiuyan Li Yiliang Miao Jianhui Tian Xingxu Huang Hongsheng Ouyang Bofeng Liu Wei Xie Qi Zhou Zhonghua Liu Caihong Zheng Mingzhou Li Jianyong Han | 2022 | Cell Research2022，32，4： | 3 |
| 3 | Genetic diversity analysis of forty-three insertion/deletion loci for forensic individual identification in Han Chinese from Beijing based on a novel panel显示文摘Due to the virtues of no stutter peaks,low rates of mutation,and short amplicon sizes,insertion/deletion(InDei)polymorphism is an indispensable tool for analyzing degraded DNA samples from crime scenes for human identifications(Wang et al.,2021).Herein,a self-developed panel of 43 InDei loci constructed previously by our group was utilized to evaluate the genetic diversities and explore the genetic background of the Han Chinese from Beijing(HCB)including 301 random healthy individuals. | Congying ZHAO Jinlong YANG Hui XU Shuyan MEI Yating FANG Qiong LAN Yajun DENG Bofeng ZHU | 2022 | Journal of Zhejiang University-Science B(Biomedicine & Biotechnology)2022，23，3： | 2 |
| 4 | SPM-IS: An auto-algorithm to acquire a mature soybean phenotype based on instance segmentation显示文摘Mature soybean phenotyping is an important process in soybean breeding;however, the manual process is time-consuming and labor-intensive. Therefore, a novel approach that is rapid, accurate and highly precise is required to obtain the phenotypic data of soybean stems, pods and seeds. In this research, we propose a mature soybean phenotype measurement algorithm called Soybean Phenotype Measure-instance Segmentation(SPM-IS). SPM-IS is based on a feature pyramid network, Principal Component Analysis(PCA) and instance segmentation. We also propose a new method that uses PCA to locate and measure the length and width of a target object via image instance segmentation. After 60,000 iterations, the maximum mean Average Precision(m AP) of the mask and box was able to reach 95.7%. The correlation coefficients R^(2) of the manual measurement and SPM-IS measurement of the pod length, pod width, stem length, complete main stem length, seed length and seed width were 0.9755, 0.9872, 0.9692, 0.9803,0.9656, and 0.9716, respectively. The correlation coefficients R^(2) of the manual counting and SPM-IS counting of pods, stems and seeds were 0.9733, 0.9872, and 0.9851, respectively. The above results show that SPM-IS is a robust measurement and counting algorithm that can reduce labor intensity, improve efficiency and speed up the soybean breeding process. | Shuai Li Zhuangzhuang Yan Yixin Guo Xiaoyan Su Yangyang Cao Bofeng Jiang Fei Yang Zhanguo Zhang Dawei Xin Qingshan Chen Rongsheng Zhu | 2022 | The Crop Journal2022，10，5： | 2 |
| 5 | Genetic polymorphism analysia of 15 STR loci in Chinese Hui ethnic group residing in Qinghai province of China显示文摘 | Yajun Deng Bofeng Zhu Chunmei Shen | 2011 | Mol Biol Rep2011，38，4： | 1 |
| 6 | Genetic polymorphism of STR loci in Chinese Drugs 显示文摘 | Lai Jianghua Zheng Haibo Zhu Bofeng | 2002 | J Xi''an Med Univ2002，14，1： | 1 |
| 7 | Population genetic analysis of 15 STR loci of Chinese Tu ethnic minority group 显示文摘 | BOFENG ZHU JIANGWEI YAN CHUNMEI SHEN | 2008 | Forensic Science International2008，174，23： | 1 |
| 8 | An interpretation of the genetic polymorphism and population genetic background of Ankang Han population via a novel InDel panel显示文摘In this research,genotyping data of 43 InDel loci in 311 Han individuals in Ankang City,Shaanxi Province,China were detected using a self-developed five-dye multiplex amplification panel.The allelic frequencies and forensic parameters of all InDel loci were calculated.The combined power of discrimination and probability of exclusion values were 0.99999999999999999882739 and 0.999887424,respectively,which demonstrated that this 43-InDel panel was powerful for individual identifications in Ankang Han population.Moreover,genetic distances,pairwise F_(ST)values,principal component analyses,phylogenetic trees and STRUCTURE analyses were performed to investigate the genetic affinities between Ankang Han and reference groups.Population genetic investigations indicated that Ankang Han population had a close genetic relationship with Southern Han population compared with other reference groups. | Wei Cui Xiaoye Jin Yating Fang Qiong Lan Jiangwei Lan Man Chen Shuyan Mei Tong Xie Bofeng Zhu | 2022 | Forensic Sciences Research2022，7，4： | 0 |
| 9 | Synergetic roadmap of carbon neutrality and clean air for China显示文摘It is well recognized that carbon dioxide and air pollutants share similar emission sources so that synergetic policies on climate change mitigation and air pollution control can lead to remarkable co-benefits on greenhouse gas reduction,air quality improvement,and improved health.In the context of carbon peak,carbon neutrality,and clean air policies,this perspective tracks and analyzes the process of the synergetic governance of air pollution and climate change in China by developing and monitoring 18 indicators.The 18 indicators cover the following five aspects:air pollution and associated weather-climate conditions,progress in structural transition,sources,inks,and mitigation pathway of atmospheric composition,health impacts and benefits of coordinated control,and synergetic governance system and practices.By tracking the progress in each indicator,this perspective presents the major accomplishment of coordinated control,identifies the emerging challenges toward the synergetic governance,and provides policy recommendations for designing a synergetic roadmap of Carbon Neutrality and Clean Air for China. | Qiang Zhang Zhicong Yin Xi Lu Jicheng Gong Yu Lei Bofeng Cai Cilan Cai Qimin Chai Huopo Chen Hancheng Dai Zhanfeng Dong Guannan Geng Dabo Guan Jianlin Hu Cunrui Huang Jianing Kang Tiantian Li Wei Li Yongsheng Lin Jun Liu Xin Liu Zhu Liu Jinghui Ma Guofeng Shen Dan Tong Xuhui Wang Xuying Wang Zhili Wang Yang Xie Honglei Xu Tao Xue Bing Zhang Da Zhang Shaohui Zhang Shaojun Zhang Xian Zhang Bo Zheng Yixuan Zheng Tong Zhu Jinnan Wang Kebin He | 2023 | Environmental Science and Ecotechnology2023，，4： | 0 |
| 10 | Quantum Implementation of Numerical Methods for Convection-Diffusion Equations:Toward Computational Fluid Dynamics显示文摘We present quantum numerical methods for the typical initial boundary value problems(IBVPs)of convection-diffusion equations in fluid dynamics.The IBVP is discretized into a series of linear systems via finite difference methods and explicit time marching schemes.To solve these discrete systems in quantum computers,we design a series of quantum circuits,including four stages of encoding,amplification,adding source terms,and incorporating boundary conditions.In the encoding stage,the initial condition is encoded in the amplitudes of quantum registers as a state vector to take advantage of quantum algorithms in space complexity.In the following three stages,the discrete differential operators in classical computing are converted into unitary evolutions to satisfy the postulate in quantum systems.The related arithmetic calculations in quantum amplitudes are also realized to sum up the increments from these stages.The proposed quantum algorithm is implemented within the open-source quantum computing framework Qiskit[2].By simulating one-dimensional transient problems,including the Helmholtz equation,the Burgers’equation,and Navier-Stokes equations,we demonstrate the capability of quantum computers in fluid dynamics. | Bofeng Liu Lixing Zhu Zixuan Yang Guowei He | 2023 | Communications in Computational Physics2023，33，2： | 0 |
| 11 | Comprehensive analyses for genetic diversities of 19 autosomal STRs in Chinese Kazak group and its phylogenetic relationships with other continental populations显示文摘Short tandem repeats(STRs)play an essential role in forensic genetics due to their high degree of polymorphisms,wide distributions and easy detection method.In this study,allelic frequencies and forensic statistical parameters of the 19 autosomal STR loci in a Kazak ethnic group were calculated,and its genetic relationships with reference populations were assessed in order to understand population structure better and enrich population genetic data for forensic practice in Chinese Kazak ethnic group.There were 226 identified alleles with the corresponding allelic frequencies ranging from 0.0008 to 0.5295 in the 628 unrelated healthy Kazak individuals in Xinjiang Uygur Autonomous Region.All autosomal STRs were conformed to the Hardy-Weinberg equilibrium after Bonferroni’s correction.The cumulative power of discrimination and the combined probability of exclusion of all the 19 autosomal STRs were 0.999999999999999999999997162 and 0.999999994484,respectively.Furthermore,the DA distances and Fixation index values of pairwise populations,principal component analysis,multidimensional scaling analysis,phylogenetic tree analysis and structure analysis were conducted to probe the genetic relationships between the Kazak group and other reference populations.The population genetic results showed that these 19 autosomal STR loci were characterised by high genetic diversities in the Kazak group.Furthermore,the studied Kazak group had close genetic relationships with the Uyghur group and the Uzbek group.The present results may facilitate understanding the genetic background of the Chinese Xinjiang Kazak group. | Yijie Wang Xiaoye Jin Wenqing Zhang Wei Cui Tingting Kong Chong Chen Yuxin Guo Haotian Meng Bofeng Zhu | 2022 | Forensic Sciences Research2022，7，2： | 0 |
| 12 | Genetic polymorphisms and phylogenetic analyses of the Ü-Tsang Tibetan from Lhasa based on 30 slowly and moderately mutated Y-STR loci显示文摘As a result of the expansion of old Tibet on the Qinghai-Tibet Plateau,Tibetans diverged into three main branches,Ü-Tsang,Amdo,and Kham Tibetan.Ü-Tsang Tibetans are geographically distributed across the wide central and western portions of the Qinghai-Tibet Plateau while Lhasa is the central gathering place for Tibetan culture.The AGCU Y30,a 6-dye fluorescence kit including 30 slowly and moderately mutated Y-STR loci,has been validated for its stability and sensitivity in different biomaterials and diverse Chinese populations(Han and other minorities),and widely used in the practical work of forensic science.However,the 30 Y-STR profiling of Tibetan,especially forÜ-Tsang Tibetan,were insufficient.We utilized the AGCU Y30 to genotype 577Ü-Tsang Tibetan unrelated males from Lhasa in the Tibet Autonomous Region of China to fill up the full and accurate Y-STR profiles.A total of 552 haplotypes were observed,536(97.10%)of which were unique.One hundred and ninety-four alleles were observed at 26 single copy loci and the allelic frequencies ranged from 0.0017 to 0.8180.For the two multi-copy loci DYS385a/b and DYS527a/b,64 and 36 allelic combinations were observed,respectively.The gene diversity(GD)values ranged from 0.3079 at DYS391 to 0.9142 at DYS385a/b and the overall haplotype diversity(HD)was 0.9998,and its discrimination capacity(DC)was 0.9567.The population genetic analyses demonstrated that LhasaÜ-Tsang Tibetan had close relationships with other Tibetan populations from Tibet and Qinghai,especially withÜ-Tsang Tibetan.From the perspective of Y haplogroups,the admixture of the southward Qiang people with dominant haplogroup O-M122 and the northward migrations of the initial settlers of East Asia with haplogroup D-M175 hinted the Sino-Tibetan homologous,thus,we could not ignore the gene flows with other Sino-Tibetan populations,especially for Han Chinese,to characterize the forensic genetic landscape of Tibetan. | Jiuyang Ding Haoliang Fan Yongsong Zhou Zhuo Wang Xiao Wang Xuheng Song Bofeng Zhu Pingming Qiu | 2022 | Forensic Sciences Research2022，7，2： | 0 |
| 13 | NR5A2 connects zygotic genome activation to the first lineage segregation in totipotent embryos显示文摘Zygotic genome activation(ZGA)marks the beginning of the embryonic program for a totipotent embryo,which gives rise to the inner cell mass(ICM)where pluripotent epiblast arises,and extraembryonic trophectoderm.However,how ZGA is connected to the first lineage segregation in mammalian embryos remains elusive.Here,we investigated the role of nuclear receptor(NR)transcription factors(TFs),whose motifs are highly enriched and accessible from the 2-cell(2C)to 8-cell(8C)stages in mouse embryos.We found that NR5A2,an NR TF strongly induced upon ZGA,was required for this connection.Upon Nr5a2 knockdown or knockout,embryos developed beyond 2C normally with the zygotic genome largely activated.However,4–8C-specific gene activation was substantially impaired and Nr5a2-deficient embryos subsequently arrested at the morula stage.Genome-wide chromatin binding analysis showed that NR5A2-bound cis-regulatory elements in both 2C and 8C embryos are strongly enriched for B1 elements where its binding motif is embedded.NR5A2 was not required for the global opening of its binding sites in 2C embryos but was essential to the opening of its 8C-specific binding sites.These 8C-specific,but not 2C-specific,binding sites are enriched near genes involved in blastocyst and stem cell regulation,and are often bound by master pluripotency TFs in blastocysts and embryonic stem cells(ESCs).Importantly,NR5A2 regulated key pluripotency genes Nanog and Pou5f1/Oct4,and primitive endoderm regulatory genes including Gata6 among many early ICM genes,as well as key trophectoderm regulatory genes including Tead4 and Gata3 at the 8C stage.By contrast,master pluripotency TFs NANOG,SOX2,and OCT4 targeted both early and late ICM genes in mouse ESCs.Taken together,these data identify NR5A2 as a key regulator in totipotent embryos that bridges ZGA to the first lineage segregation during mouse early development. | Fangnong Lai Lijia Li Xiaoyu Hu Bofeng Liu Ziqi Zhu Ling Liu Qiang Fan Huabin Tian Kai Xu Xukun Lu Qing Li Kong Feng Lijuan Wang Zili Lin Hongyu Deng Jinsong Li Wei Xie | 2023 | Cell Research2023，33，12： | 0 |
| 14 | Genetic polymorphisms of 44 Y chromosomal genetic markers in the Inner Mongolia Han population and its genetic relationship analysis with other reference populations显示文摘Y chromosomal genetic markers in the non-recombining region are commonly used for human evolution research,familial searching,and forensic male differentiation since they strictly follow paternal inheritance.Y chromosomal short tandem repeats(Y-STRs)possess extraordinarily advantages in forensic applications because of their high polymorphisms and special genetic pattern.Here,we assessed the genetic diversities of 41 Y-STRs and three Y chromosomal insertion/deletion(Y-InDels)loci in the Chinese Inner Mongolia Han population;besides,genetic differentiation analyses among the studied Han population and other previously reported populations were conducted based on 27 same Y-STRs.Totally,425 alleles were observed in 324 Inner Mongolia Han individuals for these Y-markers.Gene diversities of these Y-markers distributed from 0.0306 to 0.9634.The haplotype diversity and discriminatory capacity of these Y-markers in the Inner Mongolia Han population were 0.9999 and 0.98457,respectively.Haplotype resolution comparisons of different Y-marker groups in the studied Han population revealed that higher haplotype resolution could be achieved for these 44 Y-markers.Population genetic analyses of the Inner Mongolia Han population and other reference populations demonstrated that the studied Han population had relatively closer genetic affinities with Northern Han Chinese populations than Southern Han and other minority groups.To sum up,these 44 Y-markers can be utilized as a valuable tool for male differentiation in the Inner Mongolia Han population. | Xiaoye Jin Guohui Xing Chunhua Yang Xingru Zhang Wei Cui Chong Chen Bofeng Zhu | 2022 | Forensic Sciences Research2022，7，3： | 0 |
| 15 | Controllably tailoring external surface sites of nanosheet HZSM-5 for maximizing light olefins in catalytic cracking of n-decane显示文摘A series of triphenylethoxysilane(TPEOS)-modified nanosheet HZSM-5 catalysts(ZN-x,x=4%,8%and16%,mass)were synthesized by chemical liquid deposition to selectively change external acidity distributions.TPEOS modification was found to passivate some external Br?nsted and Lewis acid sites by37.8%,in which Br?nsted acid sites(BAS)were found more easily sacrificed by breaking the surface Al AO bond of bridging hydroxyl groups and forming Si AOASi bonds.The selectivity of ZN-8 catalyst for light olefins(ethylene,propylene and butene)in n-decane catalytic cracking is up to 26%(450℃,WHSV=10.95 h^(-1)),which is ca.78%higher than that of parent one.The better performance was attributed to the appropriate external acid density in ZN-8,which inhibits bimolecular hydrogen transfer reaction of light olefins on the adjacent acid sites,resulting in more olefins,few coke precursors and thus an excellent catalytic stability. | Tiantian Zhu Hairui Liang Bofeng Zhang Yajie Tian Guozhu Liu | 2021 | Chinese Journal of Chemical Engineering2021，34，10： | 0 |
| 16 | Genetic and structural characterization of 20 autosomal short tandem repeats in the Chinese Qinghai Han population and its genetic relationships and interpopulation differentiations with other reference populations显示文摘China is a multinational country composed of 56 ethnic groups of which the Han Chinese accounts for 91.60%.Qinghai Province is located in the northeastern part of the Qinghai-Tibet Plateau,has an area of 72.12 km2,and is the fourth largest province in China.In the present study,we investigated the genetic polymorphisms of 20 short tandem repeat (STR) loci in a Qinghai Han population,as well as its genetic relationships with other populations.A total of 273 alleles were identified in 2 000 individuals at 20 loci,and the allelic frequency ranged from 0.0002 to 0.5327.The 20 STR loci showed a relatively high polymorphic rate in the studied group.Observed and expected heterozygosities ranged 0.613 0-0.907 5 and 0.614 8-0.920 0,respectively.The combined power of discrimination,and the probability of exclusion in duo and trio cases were 0.999 999 999 999 999 999 999 999 34,0.9999960 and 0.9999999965,respectively.Analyses of interpopulation differentiation revealed that the most significant differences were found between the Qinghai Han and Malaysian,while no significant differences were found between the Qinghai Han and Han people from Shaanxi and Jiangsu.The results of principal component analysis,multidimensional scaling analysis and phylogenetic reconstructions also suggested the close relationships between the Qinghai Han and other two Han populations.The present results,therefore,indicated that these 20 STR loci could be used for paternity testing and individual identification in forensic applications,and may also provide information for the studies of genetic relationships between Qinghai Han and other groups. | Zhanhai Wang Bin Lu Xiaoye Jin Jiangwei Yan Haotian Meng Bofeng Zhu | 2018 | Forensic Sciences Research2018，3，2： | 0 |
| 17 | Construction and evaluation of in-house methylation-sensitive SNaPshot system and three classification prediction models for identifying the tissue origin of body fluid显示文摘The identification of tissue origin of body fluid can provide clues and evidence for criminal case investigations.To establish an efficient method for identifying body fluid in forensic cases,eight novel body fluid-specific DNA methylation markers were selected in this study,and a multiplex single base extension reaction(SNaPshot)system for these markers was constructed for the identification of five common body fluids(venous blood,saliva,menstrual blood,vaginal fluid,and semen).The results indicated that the in-house system showed good species specificity,sensitivity,and ability to identify mixed biological samples.At the same time,an artificial body fluid prediction model and two machine learning prediction models based on the support vector machine(SVM)and random forest(RF)algorithms were constructed using previous research data,and these models were validated using the detection data obtained in this study(n=95).The accuracy of the prediction model based on experience was 95.79%;the prediction accuracy of the SVM prediction model was 100.00%for four kinds of body fluids except saliva(96.84%);and the prediction accuracy of the RF prediction model was 100.00%for all five kinds of body fluids.In conclusion,the in-house SNaPshot system and RF prediction model could achieve accurate tissue origin identification of body fluids. | Yating FANG Man CHEN Bofeng ZHU | 2023 | Journal of Zhejiang University-Science B(Biomedicine & Biotechnology)2023，24，9： | 0 |
| 18 | Recent Advances in the Geodesy Data Processing显示文摘Geodetic functional models,stochastic models,and model parameter estimation theory are fundamental for geodetic data processing.In the past five years,through the unremitting efforts of Chinese scholars in the field of geodetic data processing,according to the application and practice of geodesy,they have made significant contributions in the fields of hypothesis testing theory,un-modeled error,outlier detection,and robust estimation,variance component estimation,complex least squares,and ill-posed problems treatment.Many functional models such as the nonlinear adjustment model,EIV model,and mixed additive and multiplicative random error model are also constructed and improved.Geodetic data inversion is an important part of geodetic data processing,and Chinese scholars have done a lot of work in geodetic data inversion in the past five years,such as seismic slide distribution inversion,intelligent inversion algorithm,multi-source data joint inversion,water reserve change and satellite gravity inversion.This paper introduces the achievements of Chinese scholars in the field of geodetic data processing in the past five years,analyzes the methods used by scholars and the problems solved,and looks forward to the unsolved problems in geodetic data processing and the direction that needs further research in the future. | Jianjun ZHU Leyang WANG Jun HU Bofeng LI Haiqiang FU Yibin YAO | 2023 | Journal of Geodesy and Geoinformation Science2023，6，3： | 0 |
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