cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Scaled experimental models of gravitational collapse
Creators: name: Poorvin, Emily Rose
Publisher: name: No Publisher Supplied
Year: 2010

description: This thesis presents the results of scaled experimental models of  gravitational collapse, the non-catastrophic failure of an oversteepened cliff. The  main modeling material is wet clay, which simulates typical lithified, upper-crustal  rocks; the nature-to-model scaling factor for size is ~105. Silicone polymer in one  model simulates a highly ductile layer (e.g., salt). In all models, scarp creation  involves gradual downcutting along a vertical surface. In the standard model (6 cm  of clay with a density of 1.60 g/cm3), faults lengthen and link to form a main normal  fault that dips towards and strikes parallel to the erosional scarp; the zone of  deformation is narrow. Cross sections of the standard model show that the main  fault is listric, most minor faults are listric and dip toward the erosional scarp,  shallow layers dip toward the scarp whereas deep layers dip away from the scarp,  and the base of the scarp bows out. Fault-heave analyses show that differential  iii  extension (increasing with depth and with proximity to the erosional scarp)  accounts for these features. Geometric models of listric faults do not incorporate  differential extension, and thus do not predict the layer geometries observed in the  standard model. Models with stronger (denser) clay require taller scarp heights to  initiate gravitational collapse. In the model with silicone polymer, deformation  (conjugate faults and grabens) is distributed over a larger area compared to the  standard model. Faults that form during scarp retreat (lateral removal of clay)  evolve similarly to faults formed during scarp creation. A preliminary model with a  curved erosional scarp yields a deformation zone that closely parallels the scarp.  The Statfjord field (Norway), the Sirikit field (Thailand), and the Fairy Dell sea cliffs  (Dorset, England) share some similarities with the standard model: listric faults that  strike parallel to and dip towards the erosional scarp and layers rotated away from  the erosional scarp; however, they do not have layers rotated toward the erosional  scarp. Deformation in Canyonlands National Park is similar to that in the model  with silicone polymer: conjugate faults and grabens are related to flow of a ductile  unit toward the erosional scarp.
Decentralized online clustering for supporting autonomic management of distributed systems
Creators: name: Quiroz Hernandez, Andres
Publisher: name: No Publisher Supplied
Year: 2010

description: Distributed computational infrastructures, as well as the applications and  services that they support, are increasingly becoming an integral part of society and affecting every aspect of life. As a result, ensuring their efficient and robust operation is critical. However, the scale and overall complexity of these systems is growing at an alarming rate (current data centers  contain tens to hundreds of thousands of computing and storage devices running complex applications), making the management of these systems extremely challenging and rapidly exceeding human capability.     The large quantities of distributed system data, in the form of user and component interaction and status events, contain meaningful information that can be used to infer the states of different components or of the system as a whole. Accurate and timely knowledge of these states is essential for verifying the correctness and efficiency of the operation of the system, as well as for discovering specific situations of interest, such as anomalies or faults, that require the application of appropriate management actions. Autonomic systems/applications must therefore be able to effectively process the large amounts of distributed data and to characterize operational states in a robust, accurate and timely manner. Although highly accurate, centralized approaches for distributed system management are infeasible in general because of the costs of centralization in terms of infrastructure, fault tolerance, and responsiveness. Since data is naturally distributed and the collective computing power of networked elements (ranging from sensor and device networks to supercomputer clusters and multi-organization grids) is enough to be harnessed for value added, system-level services, online and decentralized approaches for monitoring, data analysis, and self-management are not only feasible, but also quite attractive.This work is based on the premise of realizing and applying online data analysis, exploiting the collective computing resources of distributed systems for supporting autonomic management capabilities. Specifically, we propose and develop decentralized online clustering as a data analysis mechanism and infrastructure, evaluate its accuracy and performance with respect to other known clustering methods, and apply it to the following autonomic management problems: 1) System profiling and outlier detection from distributed data, 2) definition, autonomic adaptation, and application of management policies, and 3) VM provisioning and energy management in data centers.
Gymnocypris pingi subsp. orisolatus Tchang, Yue & Huang 1964
Creators: name: Ye, Enqi
name: Xing, Yingchun
name: Zhang, Chunguang
name: Zhao, Yahui
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Actinopterygii
Cypriniformes
Cyprinidae
Gymnocypris
Gymnocypris pingi
Gymnocypris pingi orisolatus tchang, yue & huang, 1964

description: Gymnocypris pingi orisolatus Tchang, Yue & Huang, 1964 (Fig. 24)
= Gymnocypris waddellii Regan, 1905
Holotype. 45191 ♂ (TS-067), Yamzho Lake, Baidi Village, Langkazi County, Xizang Province, P. R. China, Jun. 12, 1961. Paratypes. 45190 (TS-056), 46080 (TS-054), locality with holotype, Jun. 1, 1961.
description: Published as part of Ye, Enqi, Xing, Yingchun, Zhang, Chunguang & Zhao, Yahui, 2015, Catalogue of the type specimens in the fish collection of the National Zoological Museum, Institute of Zoology, Chinese Academy of Sciences, Beijing, China, pp. 10-113 in Zootaxa 3962 (1) on page 33, DOI: 10.11646/zootaxa.3962.1.4, http://zenodo.org/record/233837
Additional file 1: Table S1. of Urine S100 proteins as potential biomarkers of lupus nephritis activity
Creators: name: Turnier, Jessica
name: Ndate Fall
name: Thornton, Sherry
name: Witte, David
name: Bennett, Michael
name: Appenzeller, Simone
name: Klein-Gitelman, Marisa
name: Grom, Alexei
name: Brunner, Hermine
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Marine Biology
subject: Inorganic Chemistry
subject: Hematology

description: Demographic and clinical data on patients with cSLE with unpaired serum and urine samples from Cohorts Xs and Xu. (DOCX 17Â kb)
Relaying and scheduling in interference limited wireless networks
Creators: name: Raman, Chandrasekharan
Publisher: name: No Publisher Supplied
Year: 2010

description: In this dissertation, we address two issues related to communication in interference-limited wireless networks. In the first part of the thesis, we study benefits of deploying inexpensive half-duplex relays in interference-limited cellular system. We study two relaying schemes in a downlink system, users sharing the same frequency band. In the first collaborative relaying scheme, relays help users after they decode the message intended for the user by a collaborative power addition scheme. We evaluate power savings and rate improvement for delivering a common rate for 90% of users in the system. We then consider power control at the base stations and relays in order to manage the interference. In both cases, the ability of relays to reduce the peak base station transmit power while delivering the baseline rate or alternately to increase the user rate is computed. When power control is employed, the peak power saving is 2.6 dB and the average total power in the system can be reduced by 3 dB. We also observe a 34% improvement over the baseline in the users’ common rate. In the second orthogonal relaying scheme, we study a simple scheme where the base station and relays transmit in orthogonal time slots. We find that the performance of the simple orthogonal relaying scheme comes very close to that of the collaborative power addition scheme.    In the second part of the thesis, we consider a centralized spectrum server that coordinates the transmissions of a group of links sharing a common spectrum. Links employ on-off modulation with fixed transmit power when active. The rate obtained by an active link depends on the activity of all other links. With knowledge of the link gains in the network, the spectrum server schedules the on/off periods of the links so as to satisfy constraints on link fairness and efficiency. We then extend the centralized scheduling framework to multi-hop wireless networks with interfering links. A framework for cross-layer scheduling of end-to-end flows in a multi-hop wireless network with links sharing a common spectrum is presented. Given a set of known routes, the optimization framework can be used to find the flow on each route in order to maximize an objective function. The framework encompasses a variety of physical layer transmission schemes. The rates in the individual links are determined based on the transmission strategy employed. With the knowledge of the link rates in the network, the spectrum server schedules the rates on the links and flows on the sessions to maximize a utility function of the source rates. The schedules are a collection of time shared transmission modes (sets of active links).
Monoclonal antibody therapy demonstrates increased virulence of a lineage VII strain of Lassa virus in nonhuman primates
Creators: name: Woolsey, Courtney
name: Cross, Robert W.
name: Prasad, Abhishek N.
name: Agans, Krystle N.
name: Borisevich, Viktoriya
name: Deer, Daniel J.
name: Dobias, Natalie S.
name: Fears, Alyssa C.
name: Harrison, Mack B.
name: Heinrich, Megan L.
name: Fenton, Karla A.
name: Garry, Robert F.
name: Branco, Luis M.
name: Geisbert, Thomas W.
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Physiology
subject: FOS: Biological sciences
subject: Biotechnology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Cancer
subject: Mental Health
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Lassa virus (LASV) is a World Health Organization (WHO) priority pathogen that causes high morbidity and mortality. Recently, we showed that a combination of three broadly neutralizing human monoclonal antibodies known as Arevirumab-3 (8.9F, 12.1F, 37.2D) based on the lineage IV Josiah strain protected 100% of cynomolgus macaques against heterologous challenge with lineage II and III strains of LASV when therapy was initiated beginning at day 8 after challenge. LASV strains from Benin and Togo represent a new lineage VII that are more genetically diverse from lineage IV than strains from lineages II and III. Here, we tested the ability of Arevirumab-3 to protect macaques against a LASV lineage VII Togo isolate when treatment was administered beginning 8 days after exposure. Unexpectedly, only 40% of treated animals survived challenge. In a subsequent study we showed that Arevirumab-3 protected 100% of macaques from lethal challenge when treatment was initiated 7 days after LASV Togo exposure. Based on our transcriptomics data, successful Arevirumab-3 treatment correlated with diminished neutrophil signatures and the predicted development of T cell responses. As the in vitro antiviral activity of Arevirumab-3 against LASV Togo was equivalent to lineage II and III strains, the reduced protection in macaques against Togo likely reflects the faster disease course of LASV Togo in macaques than other strains. This data causes concern regarding the ability of heterologous vaccines and treatments to provide cross protection against lineage VII LASV isolates.
Small Regulatory RNA RSaX28 Promotes Virulence by Reinforcing the Stability of RNAIII in Community-associated ST398 Clonotype Staphylococcus aureus
Creators: name: Jian, Ying
name: Chen, Tianchi
name: Yang, Ziyu
name: Xiang, Guoxiu
name: Xu, Kai
name: Wang, Yanan
name: Zhao, Na
name: He, Lei
name: Liu, Qian
name: Li, Min
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Molecular Biology
subject: Environmental Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology
subject: Computational Biology

description: Staphylococcus aureus (S. aureus) is a notorious pathogen that cause metastatic or complicated infections. Hypervirulent ST398 clonotype strains, remarkably increased in recent years, dominated Community-associated S. aureus (CA-SA) infections in the past decade in China. Small RNAs like RNAIII have been demonstrated to play important roles in regulating the virulence of S. aureus, however, the regulatory roles played by many of these sRNAs in the ST398 clonotype strains are still unclear. Through transcriptome screening and combined with knockout phenotype analysis, we have identified a highly transcribed sRNA, RSaX28, in the ST398 clonotype strains. Sequence analysis revealed that RSaX28 is highly conserved in the most epidemic clonotypes of S. aureus, but its high transcription level is particularly prominent in the ST398 clonotype strains. Characterization of RSaX28 through RACE and Northern blot revealed its length to be 533nt. RSaX28 is capable of promoting the hemolytic ability, reducing biofilm formation capacity, and enhancing virulence of S. aureus in the in vivo murine infection model. Through IntaRNA prediction and EMSA validation, we found that RSaX28 can specifically interact with RNAIII, promoting its stability and positively regulating the translation of downstream alpha-toxin while inhibiting the translation of Sbi, thereby regulating the virulence and biofilm formation capacity of the ST398 clonotype strains. RSaX28 is an important virulence regulatory factor in the ST398 clonotype S. aureus and represents a potential important target for future treatment and immune intervention against S. aureus infections.
Properties of LDGM-LDPC codes with applications to secrecy coding
Creators: name: Raina, Manik
Publisher: name: No Publisher Supplied
Year: 2010

description: The ensemble of low-density generator-matrix/low-density parity-check (LDGM-LDPC) codes has been proposed in literature. In this thesis, an irregular LDGM-LDPC code is studied as a sub-code of an LDPC code with some randomly emph{punctured} output-bits. It is shown that the LDGM-LDPC codes achieve rates arbitrarily close to the channel-capacity of the binary-input symmetric-output memoryless (BISOM) channel  with a finite lower-bound on the emph{complexity}. The measure of  complexity is the average-degree (per information-bit) of the check-nodes for the factor-graph of the code. A lower-bound on the average degree of the check-nodes of the irregular LDGM-LDPC codes is obtained. The bound does not depend on the decoder used at the receiver. The stability condition for decoding the irregular LDGM-LDPC codes over the binary-erasure channel (BEC) under iterative-decoding with message-passing is described. The LDGM-LDPC codes are capacity achieving with bounded complexity and possess natural binning/nesting structure. These codes are applied to secrecy coding. The problem of secrecy coding for the type-II binary symmetric memoryless wiretap channel is studied. In this model, the main channel is binary-input and noiseless and the eavesdropper channel is binary-symmetric memoryless. A coding strategy based on emph{secure nested codes} is proposed. A  capacity achieving length-$n$ code for the eavesdropper channel bins the space ${0,1}^n$ into co-sets which are used for secret messaging. The resulting co-set scheme achieves secrecy capacity of the type-II binary symmetric memoryless channel. As an example, the ensemble of capacity-achieving regular low-density generator-matrix/low-density parity-check (LDGM-LDPC) codes is studied as a basis for binning. The previous result is generalized to the case of a noisy main-channel. The problem of secrecy-coding for a specific type-I wiretap channel is studied. In the type-I wiretap channel under consideration, the main channel is a binary-input symmetric-output memoryless (BISOM) channel and the eavesdropper channel is a binary-symmetric channel (BSC). A secure-nested-code that achieves perfect-secrecy for the above type-I channel is proposed. The secure-nested-code is based on a nested regular LDGM-LDPC code construction.
Megagobio roulei Tchang 1930
Creators: name: Ye, Enqi
name: Xing, Yingchun
name: Zhang, Chunguang
name: Zhao, Yahui
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Cypriniformes
Cyprinidae
Megagobio
Megagobio roulei

description: Megagobio roulei Tchang, 1930 (Fig. 25)
= Rhinogobio ventralis Sauvage & Dabry de Thiersant, 1874
Holotype. 0 9568 (9770), Sichuan Province, P. R. China, no date.
description: Published as part of Ye, Enqi, Xing, Yingchun, Zhang, Chunguang & Zhao, Yahui, 2015, Catalogue of the type specimens in the fish collection of the National Zoological Museum, Institute of Zoology, Chinese Academy of Sciences, Beijing, China, pp. 10-113 in Zootaxa 3962 (1) on page 34, DOI: 10.11646/zootaxa.3962.1.4, http://zenodo.org/record/233837
Identification of candidate anti-obesity targets
Creators: name: Rizvi, Ahmed
Publisher: name: No Publisher Supplied
Year: 2010

description: Over the past decade, obesity has become a major health issue in the western world, and is very rapidly becoming a concern for eastern countries as well.  In the most basic sense, obesity results from an imbalance between energy intake and energy expenditure. However, the complex disease that is obesity arises as a result of the insufficient energy consumption, resulting in adiposity, the increase of triglyceride storage in adipocytes, body weight gain, and an increased risk of obesity co-morbidities.  As the prevalence of obesity is expected to increase over the next 20 years, the identification of novel anti-obesity targets has become paramount in the search for an efficacious and compliance-friendly obesity therapy.  In an effort to identify and classify potential anti-obesity targets as experimental candidates for obesity therapy, WAT (white adipose tissue) from Hmga2-/-, Lepob.Lepob double knockout mice, Hmga2+/+ mice, Hmga2-/- mice, and Lepob/Lepob mice were run on microarray to determine gene expression profiles for each genotype.  Exclusion criteria were added, and a list of 138 adipocyte-specific genes remained.  The genes were then characterized through bioinformatics according to 6 parameters: 1) chromosomal location in mouse genome; 2) chromosomal location in human genome; 3) subcellular localization; 4) function; 5) knockout phenotype in mice; 6) obesity-related QTLs in human genome.  After characterization, each gene was evaluated in greater detail and filtered to form a list of candidates for experimental analysis to evaluate anti-obesity effectiveness.  The list of 138 genes was finally narrowed to 10 genes, 6 of which were present in the top 25 most highly expressed genes in adipocyte-rich WAT.  Preliminary experimental analysis reveals diminished weight gain and overall decreased body weight in mice upon peptide inhibition for one gene from the filtered list.  While we have only begun evaluating one gene, thus far, the results are encouraging in that the method used to develop and filter such a list of genes is proving to be validated.  Further experimental research is required in order to fully validate each potential candidate; however such an approach, to determine solid candidates, appears promising.
An IBC and certificate based hybrid approach to WIMAX security
Creators: name: Rodoper, Mete
Publisher: name: No Publisher Supplied
Year: 2010

description: WiMAX is a promising technology that provides high data throughput with low delays for various user types and modes of operation. These advantages make WiMAX applicable both for infrastructure purposes and end-client usage. Since WiMAX is presented as a network framework and a last-mile technology, it is believed to be capable of handling a wide range of usage scenarios. For example, while the end users have an opportunity to use WiMAX as the primary connection medium for acquiring services such as on-demand video streaming, VoIP connections and mobile bank transactions, the service providers may use it for data relaying purposes among access points. To meet the technical requirements of these various scenarios, majority of the WiMAX research has been conducted on physical and MAC layers; however little has been invested in a comprehensive and efficient security solution, which has resulted in a wide range of security weaknesses and reactive solutions. Many security problems remain to be addressed in different modes and for different user types even in the final security standard of WiMAX, PKMv2.    In this thesis, we present a hybrid security solution combining Identity-Based Cryptography (IBC) and certificate based approaches to overcome the existing security problems of WiMAX without degrading service quality. IBC has potential benefits that can provide enhancements to the overall security and efficiency of the security standard. One such enhancement is combining user identity with the public key and therefore eliminating the public key distribution load from the network. However, IBC has a few caveats, such as the necessity of a secure medium to distribute private keys. To compensate for these disadvantages, in this study, IBC is combined with certificate-based security. As a result, the benefits of IBC are maintained while the disadvantages are eliminated.    Using the hybrid approach, this study also aims to clarify the key revocation procedures and key lifetimes of WiMAX. To achieve this goal, key renewal intervals are examined and corresponding lifetimes are assigned to the credentials missing in both PKMv2 and PKMv1. Additionally, the key distribution procedures are investigated and a pattern is provided with the message exchange details.     To be able to correctly assess the efficiency of this approach, a new mobility model is defined in the evaluation chapter of this thesis. Based on this model, the analysis has shown that our hybrid solution that combines IBC and the certified based security scheme results in a significant bandwidth improvement over the standard’s approach, PKMv2. This work is the first study that unites the advantages of both IBC and the certified-based security scheme for improved security while maintaining low overhead for WiMAX.
Immunocompetent mouse models revealed that S100A4+ monocytes/macrophages facilitate long-term Zika virus infection in the testes
Creators: name: Yang, Wei
name: Zhang, Chen
name: Liu, Li-Bo
name: Bian, Zhan-Zhan
name: Chang, Jia-Tong
name: Fan, Dong-Ying
name: Gao, Na
name: Wang, Pei-Gang
name: An, Jing
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology

description: During its global epidemic, Zika virus (ZIKV) attracted widespread attention due to its link with various severe neurological symptoms. and potential harm to male fertility. However, the understanding of how ZIKV invades and persists in the male reproductive system is limited due to the lack of immunocompetent small animal models. In this study, immunocompetent murine models were generated by using anti-IFNAR antibody blocked C57BL/6 male mice and human STAT2 (hSTAT2) knock in (KI) male mice. After infection, viral RNA could persist in the testes even after the disappearance of viremia. We also found a population of ZIKV-susceptible S100A4+ monocytes/macrophages that were recruited into testes from peripheral blood and played a crucial role for ZIKV infection in the testis. By using single-cell RNA sequencing, we also proved that S100A4+ monocytes/macrophages had a great impact on the microenvironment of ZIKV-infected testes, thus promoting ZIKV-induced testicular lesions. In conclusion, this study proposed a novel mechanism of long-term ZIKV infection in the male reproductive system.
Mesogobio tumenensis Chang 1980
Creators: name: Ye, Enqi
name: Xing, Yingchun
name: Zhang, Chunguang
name: Zhao, Yahui
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Actinopterygii
Cypriniformes
Cyprinidae
Mesogobio
Mesogobio tumenensis

description: Mesogobio tumenensis Chang, 1980 (Fig. 26)
Holotype. 62908 (770648), Tumen River basin: Longluguo Community, Helong City, Jilin Province, P. R. China, Jun. 4, 1977. Paratypes. 62909 (770667), Tumen River basin: Baijin Community, Yanji City, Jilin Province, P. R. China, Jun. 10, 1977; 62910-62911 (770541-770542), adjacent of Hongqihe and Tumen rivers, Chongshan Community, Helong City, Jilin Province, P. R. China, Jun. 4, 1977; 62912-62927 (771252-771267), 62928-62929 (770812-770813), 62930 (771115), Baicaogou Community, Wangqing County, Jilin Province, P. R. China, Jun. 25, 1977.
description: Published as part of Ye, Enqi, Xing, Yingchun, Zhang, Chunguang & Zhao, Yahui, 2015, Catalogue of the type specimens in the fish collection of the National Zoological Museum, Institute of Zoology, Chinese Academy of Sciences, Beijing, China, pp. 10-113 in Zootaxa 3962 (1) on page 35, DOI: 10.11646/zootaxa.3962.1.4, http://zenodo.org/record/233837
Additional file 1: of An optimized approach for annotation of large eukaryotic genomic sequences using genetic algorithm
Creators: name: Biswanath Chowdhury
name: Arnav Garai
name: Garai, Gautam
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Evolutionary Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences

description: Statistical analysis and Table S1-S4. Table S1. Performance analysis of GPGA on different benchmark datasets. Considered statistical parameters are Missed exon ratio (ME), Wrong Exons ratio (WE), Sensitivity (ESn), Specificity (ESp), and Average (EAvg). Table S2. A summary of the description of each tool considered in this study for comparison with the proposed method (GPGA). Name of the tools are mentioned alphabetically. Table S3. Comparative analysis of different gene prediction tools on the HMR195 dataset. Numbers of sequences are carefully selected for which the tools were defined so that the tools analyzed the sequences effectively. Table S4. Comparative analysis of different gene prediction tools on the SAG dataset.(PDF 136Â kb)
Herpes zoster mRNA vaccine induces superior vaccine immunity over licensed vaccine in mice and rhesus macaques
Creators: name: Huang, Lulu
name: Zhao, Tongyi
name: Zhao, Weijun
name: Shao, Andong
name: Zhao, Huajun
name: Ma, Wenxuan
name: Gong, Yingfei
name: Zeng, Xianhuan
name: Weng, Changzhen
name: Bu, Lingling
name: Di, Zhenhua
name: Sun, Shiyu
name: Dai, Qinsheng
name: Sun, Minhui
name: Wang, Limei
name: Liu, Zhenguang
name: Shi, Leilei
name: Hu, Jiesen
name: Fang, Shentong
name: Zhang, Cheng
name: Zhang, Jian
name: Wang, Guan
name: Loré, Karin
name: Yang, Yong
name: Lin, Ang
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Herpes zoster remains an important global health issue and mainly occurs in aged and immunocompromised individuals with an early exposure history to Varicella Zoster Virus (VZV). Although the licensed vaccine Shingrix has remarkably high efficacy, undesired reactogenicity and increasing global demand causing vaccine shortage urged the development of improved or novel VZV vaccines. In this study, we developed a novel VZV mRNA vaccine candidate (named as ZOSAL) containing sequence-optimized mRNAs encoding full-length glycoprotein E encapsulated in an ionizable lipid nanoparticle. In mice and rhesus macaques, ZOSAL demonstrated superior immunogenicity and safety in multiple aspects over Shingrix, especially in the induction of strong T-cell immunity. Transcriptomic analysis revealed that both ZOSAL and Shingrix could robustly activate innate immune compartments, especially Type-I IFN signalling and antigen processing/presentation. Multivariate correlation analysis further identified several early factors of innate compartments that can predict the magnitude of T-cell responses, which further increased our understanding of the mode of action of two different VZV vaccine modalities. Collectively, our data demonstrated the superiority of VZV mRNA vaccine over licensed subunit vaccine. The mRNA platform therefore holds prospects for further investigations in next-generation VZV vaccine development.
Microphysogobio pseudoelongatus Zhao & Zhang 2001
Creators: name: Ye, Enqi
name: Xing, Yingchun
name: Zhang, Chunguang
name: Zhao, Yahui
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Actinopterygii
Cypriniformes
Cyprinidae
Microphysogobio
Microphysogobio pseudoelongatus

description: Microphysogobio pseudoelongatus Zhao & Zhang, 2001 (Fig. 27)
Holotype. 70974, Dalu Town, Fangcheng District, Fangchenggang City, Guangxi Province, P. R. China, Apr. 29, 1999. Paratypes. 70975-70976, collected with holotype.
description: Published as part of Ye, Enqi, Xing, Yingchun, Zhang, Chunguang & Zhao, Yahui, 2015, Catalogue of the type specimens in the fish collection of the National Zoological Museum, Institute of Zoology, Chinese Academy of Sciences, Beijing, China, pp. 10-113 in Zootaxa 3962 (1) on page 36, DOI: 10.11646/zootaxa.3962.1.4, http://zenodo.org/record/233837
Investigation of Genomic and Pathogenicity Characteristics of Streptococcus suis ST1 Human Strains from Guangxi Zhuang Autonomous Region (GX) between 2005 and 2020 in China
Creators: name: Kang, Weiming
name: Wang, Mingliu
name: Yi, Xueli
name: Wang, Jianping
name: Zhang, Xiyan
name: Wu, Zongfu
name: Wang, Yan
name: Sun, Hui
name: Gottschalk, Marcelo
name: Zheng, Han
name: Xu, Jianguo
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology
subject: Computational Biology

description: Streptococcus suis is a significant and emerging zoonotic pathogen. ST1 and ST7 strains are the primary agents responsible for S. suis human infections in China, including the Guangxi Zhuang Autonomous Region (GX). To enhance our understanding of S. suis ST1 population characteristics, we conducted an investigation into the phylogenetic structure, genomic features, and virulence levels of 73 S. suis ST1 human strains from GX between 2005 and 2020. The ST1 GX strains were categorized into three lineages in phylogenetic analysis. Sub-lineage 3-1a exhibited a closer phylogenetic relationship with the ST7 epidemic strain SC84. The strains from lineage 3 predominantly harbored 89K-like pathogenicity islands (PAIs) which were categorized into four clades based on sequence alignment. The acquirement of 89K-like PAIs increased the antibiotic resistance and pathogenicity of corresponding transconjugants. We observed significant diversity in virulence levels among the 37 representative ST1 GX strains, that were classified as follows: epidemic (E)/highly virulent (HV) (32.4%, 12/37), virulent plus (V+) (29.7%, 11/37), virulent (V) (18.9%, 7/37), and lowly virulent (LV) (18.9%, 7/37) strains based on survival curves and mortality rates at different time points in C57BL/6 mice following infection. The E/HV strains were characterized by the overproduction of tumor necrosis factor (TNF)-α in serum and promptly established infection at the early phase of infection. Our research offers novel insights into the population structure, evolution, genomic features, and pathogenicity of ST1 strains. Our data also indicates the importance of establishing a scheme for characterizing and subtyping the virulence levels of S. suis strains.
The stereotyping and individuation process model
Creators: name: Salib, Elizabeth
Publisher: name: No Publisher Supplied
Year: 2010

description: This research tests a new model of the role of stereotypes and individuating information. The Stereotyping and Individuation Process Model (SIP) predicts that individuals will use stereotypes versus individuating information based on relevance to the judgment. Three steps of the model were tested by examining discrimination against Arabs and Muslims in an airport security setting. A 2 (Target Ethnicity) x 3 (Target Religion) x 2 (Participant Ethnicity) Mixed Model was employed where Target Ethnicity and Target Religion are within-subjects factors. Participants were asked to review 36 passengers in an airport and recommend suspicious passengers for further questioning. Results show preliminary support for Steps 1 through 3 of the model. Anti-Arab and Anti-Muslim prejudice predicted recommendation for questioning. Additionally, a Black Sheep Effect was found where White Muslims were discriminated against more than any other group. An In-Group Bias effect was found where White participants favored White targets and Non-White participants favored Arab targets.
Additional file 2: Table S2. of Urine S100 proteins as potential biomarkers of lupus nephritis activity
Creators: name: Turnier, Jessica
name: Ndate Fall
name: Thornton, Sherry
name: Witte, David
name: Bennett, Michael
name: Appenzeller, Simone
name: Klein-Gitelman, Marisa
name: Grom, Alexei
name: Brunner, Hermine
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Median S100 and laboratory values in patients with cSLE from Cohorts Ls and Lu. (DOCX 14Â kb)
Jonas cast up at London
Creators: name: Schnepper, Rachel N.
Publisher: name: No Publisher Supplied
Year: 2010

description: My dissertation, “Jonas Cast Up at London: The Experience of New World Churches in Revolutionary England,” offers a completely new way of approaching the history of religious struggle and debate during the English Revolution--blending the history of religious polemic and identity-formation with the history of the book and of print culture, and, for the first time, placing these epochal struggles over church government and religious freedom within a dynamic Atlantic context.  With over one hundred printed books and pamphlets as my research base, my project uncovers the hitherto under-explored importance of English Atlantic colonial churches on the fiery debates over further reformation of the Church of England, and reveals a bustling world of preachers, polemicists and printers who refashioned the experiences of religious life in the Americas for English readers eager to recreate their own church according to what they took to be God’s will.
Epidemiology and global spread of emerging tick-borne Alongshan virus
Creators: name: Gömer, André
name: Lang, Arthur
name: Janshoff, Saskia
name: Steinmann, Joerg
name: Steinmann, Eike
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Evolutionary Biology
subject: Environmental Sciences not elsewhere classified
subject: Ecology
subject: Biological Sciences not elsewhere classified
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology

description: The emergence and spread of novel viral pathogens is a major threat to human health, particularly in the context of climate and human-induced change in land use. Alongshan virus (ALSV) is a tick-borne virus associated with human disease, which was first identified in northeast China. More recently, several studies reported the emergence of ALSV in mammalian and arthropod hosts in multiple different countries outside of Asia, and the first viral genome sequencing data has become available. ALSV is a member of the Jingmenvirus group closely related to the Flaviviridae family. Unusually, the positive-sense, single-stranded RNA genome of ALSV is segmented and consists of four distinct segments, two of which show homology with the NS3 and NS5 protein encoding regions of non-segmented flaviviruses. Transmission of arthropod-borne pathogens will likely increase in the future due to environmental change mediated by a variety of environmental and ecological factors and increasing human encroachment into wild animal habitats. In this review, we present current knowledge of global ALSV distribution and emergence patterns, highlight genetic diversity, evolution and susceptible species. Finally, we discuss the role of this emerging tick-borne virus in the context of urbanization and global health.
Djeboa wondergemi Pesic & Smit, sp. nov.
Creators: name: Pešić, Vladimir
name: Cook, David
name: Gerecke, Reinhard
name: Smit, Harry
Publisher: name: Zenodo
Year: 2013
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Arachnida
Trombidiformes
Mideopsidae
Djeboa
Djeboa wondergemi

description: Djeboa wondergemi Pešić & Smit sp. nov.
(Figs. 36A–E, 38C)
Type series: Holotype female, dissected and slide mounted, Ghana, Kue River, Kyabobo NP, 8º 31.087 N, 0º 36.049E, 208 m asl., 25.ii.2013 Smit.
Diagnosis: Dorsal shield oval (L/W ratio 1.1), with medial depression; muscle scars with well pronounced thickenings, at nearly equal distance anterior and posterior to the postocularia, second pair of muscle scars extending to the edge of dorsal depression (Fig. 38C); gnathosomal bay V-shaped; tips of Cx-I extending beyond frontal margin; medial margin of Cx-IV reduced to a median angle, posterior margin extending posterolaterally. Palp (Fig. 36E): P-1 without dorsal seta; P-2 inflated, ventral margin straight, dorsal margin strongly bowed; P-3 much higher proximally than distally, dorsal margin strongly convex; P-4 slender, basally thickened. Legs: I-L (Fig. 36C), with I-L-6 L/H ratio 2.0, ventral margin distally convexly protruding; IV-L-5-6: Fig. 36D; swimming setae numbers: III-L-4, 5; III-L-5, 7; IV-L-4, 3-4; IV-L-5, 5.
Description:
Female: Idiosoma (ventral view: 36B) L/W 413/363. Dorsal shield (Figs. 36A, 38C) L/W 366/323, ratio 1.14; gnathosomal bay L 71. Gonopore L/W 88/63, ratio 1.4; egg (n = 1) maximum diameter 66. Palp (Fig. 36E): total L 150-154; L/H, L/H ratio: P-1, 15/22, 0.7; P-2, 40/40, 1.0; P-3, 40-42/30-32, 1.29-1.3; P-4, 43-45/16-17, 2.5-2.8; P- 5, 12/7, 1.8; chelicera total L 83; gnathosoma vL 72. Legs: dL of I-L: 26, 39, 31, 34, 49, 60; I-L-6 H 31, I-L-6 L/H ratio 2.0; dL of IV-L-3-6: 53, 66, 80, 94.
Male: Unknown.
Etymology: Named after Peter Wondergem (Accra), in appreciation of his help during the collecting trip of HS.
Discussion: See under Djeboa globulipalpis sp. nov.
Distribution: Ghana, known only from the type locality (Fig. 45C).
description: Published as part of Pešić, Vladimir, Cook, David, Gerecke, Reinhard & Smit, Harry, 2013, The water mite family Mideopsidae (Acari: Hydrachnidia): a contribution to the diversity in the Afrotropical region and taxonomic changes above species level, pp. 1-75 in Zootaxa 3720 (1) on page 62, DOI: 10.11646/zootaxa.3720.1.1, http://zenodo.org/record/285029
Microphysogobio wulonghensis Xing, Zhao, Tang & Zhang 2011
Creators: name: Ye, Enqi
name: Xing, Yingchun
name: Zhang, Chunguang
name: Zhao, Yahui
Publisher: name: Zenodo
Year: 2015
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Actinopterygii
Cypriniformes
Cyprinidae
Microphysogobio
Microphysogobio wulonghensis

description: Microphysogobio wulonghensis Xing, Zhao, Tang & Zhang, 2011 (Fig. 28)
Holotype. 176476 (15654), Wulonghe River, Laiyang, Shandong Province, P. R. China, May 3, 1929. Paratypes. 43503 (15654), 176473-176475 (15654), 176477-176486 (15654), collected with holotype.
description: Published as part of Ye, Enqi, Xing, Yingchun, Zhang, Chunguang & Zhao, Yahui, 2015, Catalogue of the type specimens in the fish collection of the National Zoological Museum, Institute of Zoology, Chinese Academy of Sciences, Beijing, China, pp. 10-113 in Zootaxa 3962 (1) on page 37, DOI: 10.11646/zootaxa.3962.1.4, http://zenodo.org/record/233837
Regulation of endocytic recycling in Caenorhabditis elegans
Creators: name: Shi, Anbing
Publisher: name: No Publisher Supplied
Year: 2010

description: Eukaryotic endocytic pathway is important for the uptake, sorting, and the subsequential recycling or degradation processes of various cargos. It has been shown that the RME-1/EHD1 is a critical regulator of endocytic recycling. In C. elegans and MDCK cells, small GTPase RAB-10 has been specifically implicated in clathrin-independent cargo recycling. Alternatively, some cargos will be recycled from sorting endosomes to Golgi, and retromer complex was shown to be crucial for this transport in yeast and mammalian cells.   In our studies, we analyzed RME-1 and RAB-10 regulated recycling pathway, exploring additional players in the process. First, we demonstrated that ALX-1 is required for endocytic recycling of specific basolateral cargo. The interaction of ALX-1 with RME-1 is required for this recycling process. In our yeast two-hybrid screen for RAB-10-interacting proteins, EHBP-1 and Arf6 GAP/CNT-1 were recovered and revealed to function together with RAB-10 regulating clathrin-independent cargo recycling. Loss of either EHBP-1 or CNT-1 produced rab-10-like cargo transport defects. Furthermore, we showed that EHBP-1 functions, as an unconventional effector, upstream of RAB-10. Nevertheless, similar to canonical Rab effectors, CNT-1 requires RAB-10 for the proper endosome localization. Collectively, our results demonstrate the functional connections of ALX-1/RME-1 and RAB-10/EHBP-1/CNT-1, provided insights into the detail mechanisms of RME-1 and RAB-10 recycling regulation.  We also studied the retromer regulated retrograde transport in C. elegans. We demonstrated the physical interaction of RME-8 with retromer component ALX-1. Additionally, we showed that loss-of-function in rme-8 or snx-1, or depletion of C. elegans Hsc70 (HSP-1) by RNAi, disrupts endosome to Golgi transport of the retromer-dependent cargo protein MIG-14. Furthermore, we identified a previously unsuspected mechanism for the regulation of endosomal clathrin that is required for retrograde transport. We showed that loss of either RME-8, SNX-1 or HSP-1 leads to endosomal clathrin dynamics defect. Our work indicates that, through RME-8 and Hsc70, the retromer acts to limit clathrin accumulation, a prerequisite for the recycling of retrograde cargo.
Additional file 2: Figure S1. of Next-generation mapping: a novel approach for detection of pathogenic structural variants with a potential utility in clinical diagnosis
Creators: name: Barseghyan, Hayk
name: Tang, Wilson
name: Wang, Richard
name: Almalvez, Miguel
name: Segura, Eva
name: Bramble, Matthew
name: Lipson, Allen
name: Douine, Emilie
name: Lee, Hane
name: EmmanuĂ¨Le DĂŠlot
name: Nelson, Stanley
name: Vilain, Eric
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Virology
subject: Computational Biology

description: DMD exons 3â  4 duplication validation in the CDMD1163 case. Exons 2 and 5 are present in single copies on the X chromosome in the proband (light green). The mother (CDMD1164), who has 2 X chromosomes, has 2x more DNA (dark green) indicated by fold change (FC). Exons 3 and 4 are duplicated in the proband and the mother is a carrier - DNA amount in proband (2 copies) is approximately 1.5x lower than in mother (3 copies) consistent with a duplication being present in both. (PDF 153 kb)
Brucellosis seroprevalence in cattle in China during 2014–2024: a systematic review and meta-analysis
Creators: name: Tian, Zihan
name: Wan, Liyun
name: Pei, Jie
name: Li, Tingting
name: Wang, Xiaozhong
name: Yuan, Peng
name: Guo, Aizhen
name: Chen, Yingyu
Publisher: name: Taylor & Francis
Year: 2024
Subjects: subject: Medicine
subject: Neuroscience
subject: Environmental Sciences not elsewhere classified
subject: Immunology
subject: FOS: Clinical medicine
subject: Biological Sciences not elsewhere classified
subject: Information Systems not elsewhere classified
subject: Cancer

description: Brucellosis, caused by several species of Brucella, continues to be a significant illness that poses a global threat to public health. China remains a persistent hotspot for brucellosis, despite the implementation of extensive control measures. This study aims to conduct a systematic review and meta-analysis of the seroprevalence of bovine brucellosis in different breeds and regions of China from 2014-2024, and to provide predictions on the future prevalence patterns of brucellosis in cattle and humans. The analysis comprised a total of 80 research studies, which consisted of 187 datasets and a combined sample size of 3,130,706. We estimated the overall pooled seroprevalence of bovine brucellosis in China to be 1.5% (95% CI: 0.6-2.6%). Subgroup analysis revealed that the seroprevalence in dairy cattle was 3.1%, surpassing the seroprevalence in beef cattle (1.3%) and yak (1.5%). Regions that had authorized vaccination programmes exhibited higher seroprevalence (1.8%) compared to regions that did not have vaccination (0.5%). Notably, the study observed a simultaneous rise in both the prevalence of brucellosis in cattle and the number of human brucellosis cases. This suggests that high-quality routine surveillance of brucellosis in cattle will be essential for predicting and responding to cases in humans. Additionally, given the existing prevention and control measures, brucellosis will likely continue to be prevalent in both cattle and people. This systematic review will assist policymakers in adjusting animal surveillance and interregional livestock movement policies, ultimately contributing to the public safety goal of preventing brucellosis in humans by controlling it in animals.