bluuebunny/crossref_metadata_2025_split huggingface dataset:
Energy-Efficient Virtual Machine Migration Algorithm in Data Centers
Authors: Wu Xiaodong , Zeng Taisheng 
Published: May 2023

Abstract
The issue of data center power consumption is becoming increasingly serious. One of the most effective techniques for increasing resource utilization and lowering power consumption is virtual machine consolidation. This paper proposes a threshold-based energy-efficient and SLA-aware algorithm for virtual machine migration and consolidation. Based on statistics and analysis of historical virtual machine status, the algorithm dynamically obtains the upper CPU utilization threshold of the physical servers and identifies whether to perform the virtual machine migration, so as to reduce the number of active hosts to save energy. The experimental results demonstrate that the proposed algorithm has better comprehensive performance. When compared to the existing algorithm, our method can effectively decrease energy consumption and SLA violations.
A Design of a Miniaturized Receiver Front-end of an X-band Radar
Authors: Liu Shangguang , Gao Yong 
Published: May 2023

Abstract
Based on the development and practice of a high-frequency carrier-based aircraft radar receiver front-end, a design of a high-density miniaturized X-band receiver front-end with its environmental adaptability is introduced. The system scheme introduces the key technologies of technical scheme, specifications allocation, circuit realization and test system design. The front-end of the designed receiver has the characteristics of small volume, high density and good maintainability. The practice shows that the environmental adaptability and test features of the receiver meet the requirements of carrier-based aircraft radar.
A Genetic Algorithm-based Proactive Caching Policy in Edge Networks
Authors: Yuan Xianrui , Wang Fuchao , Wang Zhi , Wang Xin , Wang Yantong 
Published: May 2023

Abstract
The incredible growth in mobile traffic lays down a challenge to network design. Therefore, proactive caching technology has been proposed as an effective method to reduce network congestion and improve the quality of service. In this paper, we focus on the caching position problem in edge networks and use a mixed integer linear programming (MILP) model to provide the optimal selection. Due to the curse of dimensionality, a genetic algorithm-based caching policy is given to make a balance between performance and time complexity. Numerical investigations reveal that the proposed approach can reduce the total cost by around 20% compared with other widely-used caching methods.
Study of the characterizationn of CdTe thin films prepared by the pulsed laser deposition technique with different laser energies
Authors: Kamel Noora Sabah , Aadim Kadhim A. , Kadhim A. 
Published: May 2023

Abstract
This research studied the effects of different laser energies on structural and optical properties. We prepared CdTe thin films by PLD technique using an Nd:YAG laser with a wavelength of 1064 nm and different energies (400, 500, 600, and 700 mJ). The practical experiments were carried out at a temperature of 200 °C. XRD results revealed that all the prepared thin films have polycrystalline structures and cubic systems with average crystalline sizes of 34, 42, 54, and 57 nm for 400, 500, 600, and 700 mJ, respectively. We observed that the optical energy gap of CdTe thin films decreases with the increase of laser energy (1.87–1.58 eV). The topography of the surfaces of CdTe thin films deposited on glass substrates was studied by the AFM technique, and it was shown that the average diameter of all CdTe films increases with increasing laser energies. The mentioned properties were studied for the application of this thin film as the absorber layer in constructing a solar cell.
Green human resource management and job pursuit intention: mediating role of corporate social responsibility and organizational reputation
Authors: Wang Qiuhong , Gazi Md. Abu Issa , Sobhani Farid Ahammad , Masud Abdullah Al , Islam Md Aminul , Akter Tahmina 
Published: May 2023

Abstract
This study aimed to evaluate whether green human resource management practice encourages prospective candidates to join environmentally responsible enterprises through organizational reputation and corporate social responsibility. The sample was gathered from 402 students from various universities in Bangladesh using a pre-structured questionnaire. The link between the latent components has been explained by analyzing the obtained data using the Partial Least Squares Method (PLSM) of Structural equation Modeling (SEM). The findings indicated that green human resources management has a positive relationship with job pursuit intention and organizational reputation and that corporate social responsibility plays a significant mediating role in this relationship. Students studying in universities in Bangladesh reported having higher job pursuit intentions towards organizations that practice environmental responsibility. The results also show that green human resource management is a source for luring graduated students to pursue careers in green firms and will enable practitioners to combine green human resource management with their conventional human resource practices to employ qualified applicants. The results provide valuable insights into the nature of green human resource management and how the top management is committed to green initiatives in an emerging economy like Bangladesh. Also, the results will help the top management understand how to use green human resource management projects to create corporate social responsibility initiatives and an excellent corporate reputation and attract highly qualified, socially responsible employees to improve environmental performance in organizations. The national policymakers may also get input in designing a green human resource management policy for the economy. Bangladesh is a climate-vulnerable country with a minimal practice of green human resource management in the economy, so the empirical findings of this study will attract researchers, academicians, and practitioners of human resource management to carry out further research in the economy of this area. Finally, this study contributes to the body of knowledge in the still-emerging subject of green human resource management by empirically showing worthy outcomes.
The Relationship between Diurnal Measures of Tonic Alertness and Self-Reported Fatigue in Persons with Multiple Sclerosis—A Retrospective Data Analysis
Authors: Weinrich Jonas O , Saliger Jochen , Eschweiler Mareike , Karbe Hans , Kalbe Elke , Nielsen Jörn 
Published: May 2023

Abstract

Objective
Fatigue in multiple sclerosis (MS) is common, burdensome, and usually assessed by self-report measures. This retrospective data analysis of the twice-daily Alertness test (Test battery of Attentional Performance) examined the extent to which this assessment procedure is associated with MS-related fatigue.

Method
Two-hundred and thirteen German inpatients (136 women) aged 18–69 years with predominantly relapsing MS (72.8%) were included. Based on reaction time (RT) differences between morning tonic alertness (8:30–11:00 a.m.) and afternoon tonic alertness (3:00–4:30 p.m.), patients were divided into an “improver,” “maintainer,” or “decliner” group. Multinomial logistic regression (MLR) was calculated to predict the likelihood of belonging to one of these performance groups, taking into account cognitive fatigue (Fatigue Scale of Motor and Cognition, FSMCcog), disease severity (Expanded Disability Status Scale, EDSS), depression (Center for Epidemiologic Studies Depression Scale, CES-D), gender, and tonic alertness (a.m.).

Results
The final MLR model (R2 = .30) included tonic alertness (a.m.) (&lt;.001), FSMCcog (.008), EDSS (.038), CES-D (.161), and gender (.057). Using this model, correct assignment to alertness performance groups was 56.8%. Tonic alertness (p.m.) demonstrated the greatest potential for differentiation among the three performance groups (&lt;.001).

Conclusions
These results show a relationship between subjective fatigue and tonic alertness. However, other variables also contribute to this association, suggesting that the RT differences between twice-daily measures of tonic alertness is not related to increased subjective fatigue in a substantial number of pwMS, which diminishes the diagnostic value. Further studies including relevant variables such as sleepiness are urgently needed.
Integrating functional scoring and regulatory data to predict the effect of non-coding SNPs in a complex neurological disease
Authors: Felício Daniela , Alves-Ferreira Miguel , Santos Mariana , Quintas Marlene , Lopes Alexandra M , Lemos Carolina , Pinto Nádia , Martins Sandra 
Published: May 2023

Abstract
Most SNPs associated with complex diseases seem to lie in non-coding regions of the genome; however, their contribution to gene expression and disease phenotype remains poorly understood. Here, we established a workflow to provide assistance in prioritising the functional relevance of non-coding SNPs of candidate genes as susceptibility loci in polygenic neurological disorders. To illustrate the applicability of our workflow, we considered the multifactorial disorder migraine as a model to follow our step-by-step approach. We annotated the overlap of selected SNPs with regulatory elements and assessed their potential impact on gene expression based on publicly available prediction algorithms and functional genomics information.
Some migraine risk loci have been hypothesised to reside in non-coding regions and to be implicated in the neurotransmission pathway. In this study, we used a set of 22 non-coding SNPs from neurotransmission and synaptic machinery-related genes previously suggested to be involved in migraine susceptibility based on our candidate gene association studies. After prioritising these SNPs, we focused on non-reported ones that demonstrated high regulatory potential: (1) VAMP2_rs1150 (3′ UTR) was predicted as a target of hsa-mir-5010-3p miRNA, possibly disrupting its own gene expression; (2) STX1A_rs6951030 (proximal enhancer) may affect the binding affinity of zinc-finger transcription factors (namely ZNF423) and disturb TBL2 gene expression; and (3) SNAP25_rs2327264 (distal enhancer) expected to be in a binding site of ONECUT2 transcription factor.
This study demonstrated the applicability of our practical workflow to facilitate the prioritisation of potentially relevant non-coding SNPs and predict their functional impact in multifactorial neurological diseases.
Spatially aware self-representation learning for tissue structure characterization and spatial functional genes identification
Authors: Zhang Chuanchao , Li Xinxing , Huang Wendong , Wang Lequn , Shi Qianqian 
Published: May 2023

Abstract
Spatially resolved transcriptomics (SRT) enable the comprehensive characterization of transcriptomic profiles in the context of tissue microenvironments. Unveiling spatial transcriptional heterogeneity needs to effectively incorporate spatial information accounting for the substantial spatial correlation of expression measurements. Here, we develop a computational method, SpaSRL (spatially aware self-representation learning), which flexibly enhances and decodes spatial transcriptional signals to simultaneously achieve spatial domain detection and spatial functional genes identification. This novel tunable spatially aware strategy of SpaSRL not only balances spatial and transcriptional coherence for the two tasks, but also can transfer spatial correlation constraint between them based on a unified model. In addition, this joint analysis by SpaSRL deciphers accurate and fine-grained tissue structures and ensures the effective extraction of biologically informative genes underlying spatial architecture. We verified the superiority of SpaSRL on spatial domain detection, spatial functional genes identification and data denoising using multiple SRT datasets obtained by different platforms and tissue sections. Our results illustrate SpaSRL’s utility in flexible integration of spatial information and novel discovery of biological insights from spatial transcriptomic datasets.
DataCurator.jl: efficient, portable and reproducible validation, curation and transformation of large heterogeneous datasets using human-readable recipes compiled into machine-verifiable templates
Authors: Cardoen Ben , Ben Yedder Hanene , Lee Sieun , Nabi Ivan Robert , Hamarneh Ghassan 
Published: May 2023

Summary
Large-scale processing of heterogeneous datasets in interdisciplinary research often requires time-consuming manual data curation. Ambiguity in the data layout and preprocessing conventions can easily compromise reproducibility and scientific discovery, and even when detected, it requires time and effort to be corrected by domain experts. Poor data curation can also interrupt processing jobs on large computing clusters, causing frustration and delays. We introduce DataCurator, a portable software package that verifies arbitrarily complex datasets of mixed formats, working equally well on clusters as on local systems. Human-readable TOML recipes are converted into executable, machine-verifiable templates, enabling users to easily verify datasets using custom rules without writing code. Recipes can be used to transform and validate data, for pre- or post-processing, selection of data subsets, sampling and aggregation, such as summary statistics. Processing pipelines no longer need to be burdened by laborious data validation, with data curation and validation replaced by human and machine-verifiable recipes specifying rules and actions. Multithreaded execution ensures scalability on clusters, and existing Julia, R and Python libraries can be reused. DataCurator enables efficient remote workflows, offering integration with Slack and the ability to transfer curated data to clusters using OwnCloud and SCP. Code available at: https://github.com/bencardoen/DataCurator.jl.
Cellenium—a scalable and interactive visual analytics app for exploring multimodal single-cell data
Authors: Jahn Carsten , Ibrahim Mahmoud , Busch Jannis , Lin Qiong , Manchanda Himanshu , Mohr Hagen , Plischke Dan , Roider Helge G , Steffen Andreas 
Published: May 2023

Abstract

Summary
Multimodal single-cell sequencing data provide detailed views into the molecular biology of cells. To allow for interactive analyses of such rich data and to readily derive insights from it, new analysis solutions are required. In this work, we present Cellenium, our new scalable visual analytics web application that enables users to semantically integrate and organize all their single-cell RNA-, ATAC-, and CITE-sequencing studies. Users can then find relevant studies and analyze single-cell data within and across studies. An interactive cell annotation feature allows for adding user-defined cell types.

Availability and implementation
Source code and documentation are freely available under an MIT license and are available on GitHub (https://github.com/Bayer-Group/cellenium). The server backend is implemented in PostgreSQL, Python 3, and GraphQL, the frontend is written in ReactJS, TypeScript, and Mantine css, and plots are generated using plotlyjs, seaborn, vega-lite, and nivo.rocks. The application is dockerized and can be deployed and orchestrated on a standard workstation via docker-compose.
MRGCN: cancer subtyping with multi-reconstruction graph convolutional network using full and partial multi-omics dataset
Authors: Yang Bo , Yang Yan , Wang Meng , Su Xueping 
Published: May 2023

AbstractMotivationCancer is a molecular complex and heterogeneous disease. Each type of cancer is usually composed of several subtypes with different treatment responses and clinical outcomes. Therefore, subtyping is a crucial step in cancer diagnosis and therapy. The rapid advances in high-throughput sequencing technologies provide an increasing amount of multi-omics data, which benefits our understanding of cancer genetic architecture, and yet poses new challenges in multi-omics data integration.ResultsWe propose a graph convolutional network model, called MRGCN for multi-omics data integrative representation. MRGCN simultaneously encodes and reconstructs multiple omics expression and similarity relationships into a shared latent embedding space. In addition, MRGCN adopts an indicator matrix to denote the situation of missing values in partial omics, so that the full and partial multi-omics processing procedures are combined in a unified framework. Experimental results on 11 multi-omics datasets show that cancer subtypes obtained by MRGCN with superior enriched clinical parameters and log-rank test P-values in survival analysis over many typical integrative methods.Availability and implementationhttps://github.com/Polytech-bioinf/MRGCN.git https://figshare.com/articles/software/MRGCN/23058503.
Microchromosome fusions underpin convergent evolution of chameleon karyotypes
Authors: Mezzasalma Marcello , Streicher Jeffrey W , Guarino Fabio M , Jones Marc E H , Loader Simon P , Odierna Gaetano , Cooper Natalie 
Published: May 2023

Abstract
Evolutionary shifts in chromosome compositions (karyotypes) are major drivers of lineage and genomic diversification. Fusion of ancestral chromosomes is one hypothesized mechanism for the evolutionary reduction of the total chromosome number, a frequently implied karyotypic shift. Empirical tests of this hypothesis require model systems with variable karyotypes, known chromosome features, and a robust phylogeny. Here we used chameleons, diverse lizards with exceptionally variable karyotypes ($2n=20\text{-}62$), to test whether chromosomal fusions explain the repeated evolution of karyotypes with fewer chromosomes than ancestral karyotypes. Using a multidisciplinary approach including cytogenetic analyses and phylogenetic comparative methods, we found that a model of constant loss through time best explained chromosome evolution across the chameleon phylogeny. Next, we tested whether fusions of microchromosomes into macrochromosomes explained these evolutionary losses using generalized linear models. Multiple comparisons supported microchromosome fusions as the predominant agent of evolutionary loss. We further compared our results to various natural history traits and found no correlations. As such, we infer that the tendency of microchromosomes to fuse was a quality of the ancestral chameleon genome and that the genomic predisposition of ancestors is a more substantive predictor of chromosome change than the ecological, physiological, and biogeographical factors involved in their diversification.
A thiamine transporter is required for biofilm formation by Rhizobium sp. IRBG74
Authors: Ketelboeter Laura M , Mitra Shubhajit , Gyaneshwar Prasad 
Published: May 2023

Abstract
Rhizobium sp. IRBG74 is a nitrogen-fixing symbiont of Sesbania cannabina and a growth-promoting endophyte of rice, thus making it a good model to compare rhizobial interactions with legumes and cereals. In this report, we show that Rhizobium sp. IRBG74 forms biofilms on the roots of S. cannabina and rice. A mutant defective in biofilm formation was identified by screening a transposon mutant library. The transposon insertion was in thiQ, part of the thiBPQ operon that encodes the components of a thiamine/thiamine pyrophosphate ABC transporter. Complementation with thiBPQ partially restored biofilm formation. Addition of thiamine in growth media led to repression of thiC expression in the wild-type strain but not in the thiQ mutant. These results suggest that thiBPQ is involved in thiamine/TPP transport in Rhizobium sp. IRBG74. Using a GUS reporter, we show that the expression of thiC is significantly higher in biofilm as compared to cells in planktonic growth. Based on these results, we propose that Rhizobium sp. IRBG74 is thiamine-limited and requires thiamine transport for efficient biofilm formation and plant colonization. Thiamine synthesis in aerobic bacteria such as Rhizobium requires O2 and thus could be inhibited in the microaerobic/anaerobic conditions in biofilms.
Sequence-based mutation patterns at 41 Y chromosomal STRs in 2 548 father–son pairs
Authors: Liu Ze , Long Guannan , Lang Yubo , Liu Dahua , Zhang Biao , Yu Shaobo , Guo Fei 
Published: May 2023

Abstract

A total of 2 548 unrelated healthy father–son pairs from a Northern Han Chinese population were genotyped at 41 Y chromosomal short tandem repeat (Y-STRs) including DYS19, DYS388, DYS389I, DYS389II, DYS390, DYS391, DYS392, DYS393, DYS437, DYS438, DYS439, DYS444, DYS447, DYS448, DYS449, DYS456, DYS458, DYS460, DYS481, DYS518, DYS522, DYS549, DYS533, DYS557, DYS570, DYS576, DYS593, DYS596, DYS627, DYS635, DYS643, DYS645, Y-GATA-H4, DYF387S1a/b, DYF404S1a/b, DYS385a/b, and DYS527a/b. In 2 548 father samples, 2 387 unique haplotypes were detected with the haplotype diversity and discrimination capacity values of 0.999 956 608 and 0.96 741 007. The average gene diversity (GD) value was 0.6934 with a range from 0.1051 at DYS645 to 0.9657 at DYS385a/b. When comparing alleles at 24 overlapped Y-STRs between the ForenSeq™ deoxyribonucleic acid (DNA) Signature Prep Kit on the MiSeq FGx® Forensic Genomics System and the Goldeneye® DNA ID Y Plus Kit on the Applied Biosystems™ 3730 DNA Analyzer from 308 father samples in mutational pairs, 258 alleles were detected by massively parallel sequencing (MPS) typing including 156 length-based alleles that could be obtained by capillary electrophoresis (CE) typing, 95 repeat region (RR) variant alleles and seven flanking region variant alleles. Hereof, we found 16 novel RR variant alleles and firstly identified two SNPs (rs2016239814 at DYS19 and rs2089968964 at DYS448) and one 4-bp deletion (rs2053269960 at DYS439) that had been validated by the Database of Short Genetic Variation. Sanger sequencing or MPS was employed to confirm 356 mutations from 104 468 allele transfers generated from CE, where 96.63% resulted in one-step mutations, 2.25% in two-step, and 1.12% in multi-step, and the overall ratio of repeat gains versus losses was balanced (173 gains vs. 183 losses). In 308 father–son pairs, 268 pairs occurred mutations at a single locus, 33 pairs at two loci, six pairs at three loci, and one pair at four loci. The average Y-STR mutation rate at 41 Y-STRs was ⁓3.4 × 10−3 (95% confidence intervals: 3.1 × 10−3–3.8 × 10−3). The mutation rates at DYS576 and DYS627 were higher than 1 × 10−2 in Northern Han Chinese, whilst the mutation rates at DYF387S1a/b, DYF404S1a/b, DYS449, DYS518, and DYS570 were lower than initially defined. In this study, the classical molecular factors (the longer STR region, the more complex motif and the order father) were confirmed to drive Y-STR mutation rates increased, but the length of repeat unit did not conform to the convention. Lastly, the interactive graphical and installable StatsY was developed to facilitate forensic scientists to automatically calculate allele and haplotype frequencies, forensic parameters, and mutation rates at Y-STRs.

Key points