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Research on Prediction Methods of Prevalence Perception under Information Exposure

Computers, Materials & Continua 2020年第12期65卷 2263-2275页

作者： Weijin Jiang Fang Ye Wei Liu Xiaoliang Liu Guo Liang Yuhui Xu Lina Tan School of Computer and Information Engineering Hunan University of Technology and BusinessChangsha410205China Key Laboratory of Hunan Province for New Retail Virtual Reality Technology Hunan University of Technology and BusinessChangsha410205China Institute of Big Data and Internet Innovation Mobile E-Business Collaborative Innovation Center of Hunan ProvinceHunan University of Technology and BusinessChangsha410205China School of Computer Science and Technology Wuhan University of TechnologyWuhan430073China School of Bioinformatics University of MinnesotaTwin CitiesUSA

With the rapid development of information technology,the explosive growth of data information has become a common challenge and *** network services represented by WeChat,Weibo and Twitter,drive a large amount of information due to the continuous spread,evolution and emergence of users through these *** dynamic modeling,analysis,and network information prediction,has very important research and application value,and plays a very important role in the discovery of popular events,personalized information recommendation,and early warning of bad *** these reasons,this paper proposes an adaptive prediction algorithm for network information transmission.A popularity prediction algorithm is designed to control the transmission trend based on the gray Verhulst model to analyze the law of development and capture popular *** simulations show that the proposed perceptual prediction model in this paper has a better fitting effect than the existing models.

关键词： Social network situational awareness adaptive prediction prediction of popularity

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data Mining for Predicting Customer Satisfaction Using Clustering Techniques

Data Mining for Predicting Customer Satisfaction Using Clust...

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International Conference on Information Management and Technology (ICIMTech)

作者： Kartika Purwandari Join W. C. Sigalingging Muhammad Fhadli Shinta Nur Arizky Bens Pardamean Bioinformatics & Data Science Research Center Bina Nusantara University Jakarta Indonesia National Central University Taoyuan Taiwan BINUS Graduate Program – Master of Computer Science Bina Nusantara University Jakarta Indonesia

ISBN: (数字)9781728170718

ISBN: (纸本)9781728170725

Managing customer satisfaction has become an important business trend, including restaurants business. This study aims to determine the application of the K-means, Spectral Clustering (SC), and Agglomerative Clustering (AC) method for measuring customer satisfaction on a family restaurant in Taiwan. We contribute the data collection process and application of data mining in a family restaurant. The clustering analysis based on agglomerative clustering approach performs as well as the K-means approach to cluster the same characteristics of the customers. At last, this study shows the measurement result of customer satisfaction and provides improvement suggestion to the restaurant concerned.

关键词： data mining Customer satisfaction Principal component analysis Computer science Reliability data visualization

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Corrigendum to "Transit functions and pyramid-like binary clustering systems" [Discrete Appl. Math. 357 (2024) 365–384, (S0166218X24002786), (10.1016/***.2024.06.032)]

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Discrete Applied Mathematics 2025年 371卷 280-280页

作者： Changat, Manoj Shanavas, Ameera Vaheeda Stadler, Peter F. Department of Futures Studies University of Kerala TrivandrumIN 695 581 India Bioinformatics Group Department of Computer Science Härtelstraße 16-18 LeipzigD-04107 Germany Halle-Jena-Leipzig & Competence Center for Scalable Data Services and Solutions Dresden-Leipzig & Centre for Biotechnology and Biomedicine at Leipzig University Leipzig Germany Max Planck Institute for Mathematics in the Sciences Inselstraße 22 LeipzigD-04103 Germany Institute for Theoretical Chemistry University of Vienna Währingerstrasse 17 WienA-1090 Austria Facultad de Ciencias Universidad National de Colombia Bogotá Colombia Santa Fe Institute 1399 Hyde Park Rd. Santa Fe NM87501 United States

In [1], axiom (P3), p. 378, and its transit-function counterpart (p3), was designed to rule out Tucker's third forbidden configuration. However, (P3) does not achieve this goal completely, see [2] for a counterexample. This mistake does not affect the correctness of any of the following results. However, it requires a modification in the proof of Theorem 8.6, the main result of [1]. There, the statement "Axioms (p2) and (p3) imply that [Formula presented] satisfies (P2) and (P3), which by construction exclude the second and third forbidden configuration, respectively" must be replaced by the following short argument: (P2) by construction excludes the second forbidden configuration, while (P3) rules out the third forbidden configuration in all cases where the sets [Formula presented], then the sets [Formula presented]. The remainder of the proof and all subsequent results in [1] remain unchanged. © 2025 The Author(s)

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Phased,chromosome-scale genome assemblies of tetraploid potato reveal a complex genome,transcriptome,and predicted proteome landscape underpinning genetic diversity

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Molecular Plant 2022年第3期15卷 520-536页

作者： Genevieve Hoopes Xiaoxi Meng John P.Hamilton Sai Reddy Achakkagari Fernanda de Alves Freitas Guesdes Marie E.Bolger Joseph J.Coombs Danny Esselink Natalie R.Kaiser Linda Kodde Maria Kyriakidou Brian Lavrijssen Natascha van Lieshout Rachel Shereda Heather K.Tuttle Brieanne Vaillancourt Joshua C.Wood Jan Mde Boer Nolan Bornowski Peter Bourke David Douches Herman Jvan Eck Dave Ellis Max J.Feldman Kyle M.Gardner Johannes C.P.Hopman Jiming Jiang Walter S.De Jong Joseph C.Kuhl Richard G.Novy Stan Oome Vidyasagar Sathuvalli Ek Han Tan Remco A.Ursum M.Isabel Vales Kelly Vining Richard G.F.Visser Jack Vossen G.Craig Yencho Noelle L.Anglin Christian W.B.Bachem Jeffrey B.Endelman Laura M.Shannon Martina V.Stromvik Helen H.Tai Bjorn Usadel C.Robin Buell Richard Finkers Department of Plant Biology Michigan State UniversityEast LansingMI 48824USA Department of Horticultural Science University of MinnesotaSt.PaulMN 55108USA Department of Plant Science McGill UniversitySainte-Anne-de-BellevueQC H9X 3V9Canada Plant Breeding Wageningen University&ResearchPlant Breeding6708 PB Wageningenthe Netherlands IBG-4 Bioinformatics Forschungszentrum JülichWilhelm Johnen Str52428 JülichGermany Department of Plant Soiland Microbial SciencesMichigan State UniversityEast LansingMI 48824USA Bayer Crop Science WoodlandCA 95695USA Averis Seeds B.V. 9640 AA Veendamthe Netherlands International Potato Center 1895 Avenida La MolinaLimaPeru USDA-ARS ProsserWA 99350USA Agriculture and Agri-Food Canada Fredericton Research and Development Centre FrederictonNB E3B 4Z7Canada School of Integrative Plant Science Cornell UniversityIthacaNY 14853-1901USA Department of Plant Sciences University of IdahoMoscowID 83844USA USDA-ARS Small Grains and Potato Germplasm ResearchAberdeenID 83210USA HZPC Research B.V. Edisonweg 58501 XG Jourethe Netherlands Department of Crop and Soil Science Oregon State UniversityHermistonOR 97838USA School of Biology and Ecology University of Maine5735 Hitchner Hall OronoME 04469USA Department of Horticultural Sciences Texas A&M UniversityCollege StationTX 77843-2133USA Department of Horticulture Oregon State UniversityCorvallisOR 97331USA Department of Horticultural Science North Carolina State UniversityRaleighNC 27695-7609USA Department of Horticulture University of Wisconsin-MadisonMadisonWI 53706USA Department of Horticulture Michigan State UniversityEast LansingMI 48824USA Institute for Biological Data Science Heinrich Heine UniversityDusseldorf40225 DusseldorfGermany Plant Resilience Institute Michigan State UniversityEast LansingMI 48824USA Present address:GenNovation B.V. Wageningenthe Netherlands

Cultivated potato is a clonally propagated autotetraploid species with a highly heterogeneous *** assemblies of six cultivars including two chromosome-scale phased genome assemblies revealed extensive allelic diversity,including altered coding and transcript sequences,preferential allele expression,and structural variation that collectively result in a highly complex transcriptome and predicted proteome,which are distributed across the homologous *** species contribute to the extensive allelic diversity in tetraploid cultivars,demonstrating ancestral introgressions predating modern breeding *** a clonally propagated autotetraploid that undergoes limited meiosis,dysfunctional and deleterious alleles are not purged in tetraploid *** a quarter of the loci bore mutations are predicted to have a high negative impact on protein function,complicating breeder’s efforts to reduce genetic *** StCDF1 locus controls maturity,and analysis of six tetraploid genomes revealed that 12 allelic variants of StCDF1 are correlated with maturity in a dosage-dependent *** of the complexity of the tetraploid potato genome with its rampant structural variation and embedded deleterious and dysfunctional alleles will be key not only to implementing precision breeding of tetraploid cultivars but also to the construction of homozygous,diploid potato germplasm containing favorable alleles to capitalize on heterosis in F1 hybrids.

关键词： potato allele diversity phased assembly polyploid pan-genome wild introgressions

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Killer cell immunoglobulin receptor diversity and its relevance in the human host’s response to HIV infection in African populations

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Translational Medicine Communications 2023年第1期8卷 1-9页

作者： John Mukisa Marion Amujal Obondo J. Sande Moses L. Joloba David P. Kateete Daudi Jjingo Graeme Mardon Neil Hanchard Mogomotsi Matshaba Jill A. Hollenbach Department of Immunology and Molecular Biology College of Health Sciences Makerere University P.O.BOX 7072 Kampala Uganda College of Computing and Information Sciences Makerere University Kampala Uganda African Center of Excellence in Bioinformatics and Data Science Infectious Diseases Institute (IDI) Makerere University Kampala Uganda Department of Molecular and Human Genetics and Department of Pathology and Immunology Baylor College of Medicine Houston TX USA National Human Genome Research Institute Bethesda MD USA Botswana-Baylor Children’s Clinical Centre of Excellence P/Bag BR 129 Gaborone Botswana Department of Neurology and Department of Epidemiology and Biostatistics University of California San Francisco San Francisco California 94158 USA

Host response to the human immune deficiency virus (HIV) involves both the innate and adaptive immune systems. As part of the innate immune system, the killer cell immunoglobulin-like receptors (KIRs) found on natural killer cells and some T-lymphocytes are genetically diverse and play key functions in the host response against viral pathogens. In the last decade, there has been substantial growth in sequencing technologies and bioinformatics capacity to understand human host genetics, including KIR. However, there is limited literature on how the KIR diversity informs the perspectives on HIV disease states in understudied African settings. A better understanding of the effects of KIRs on the host’s immune response to HIV in African settings is essential to inform strategies to develop more effective therapies and vaccines to improve health among people living with HIV (PLWH). In this paper, we review KIR diversity, the role of KIR immunogenetic variation in the human host response to HIV, discuss current perspectives on the studies to assess the relationship between KIR diversity and the HIV disease continuum, and suggest future research prospects.

关键词： Killer cell immunoglobulin-like receptors ( ) Diversity Human immune deficiency virus (HIV) bioinformatics

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Comparative assessment of the Sikun 2000 sequencing platform for whole genome sequencing

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Scientific reports 2025年第1期15卷 19070页

作者： Keya Cai Sibin Li Meng Pan Hui Lu Liang Wang Shengquan Fang Lingzhi Gou Jiang Tang Yan Kong Li Zhao Yongyong Ren Sikun Life Science Company Limited ZhengZhou 450016 China. Institute of Bioinformatics Shanghai Academy of Experimental Medicine Shanghai 201203 China. SJTU-Yale Joint Center for Biostatistics and Data Science Technical Center for Digital Medicine National Center for Translational Medicine Shanghai Jiao Tong University Shanghai 200240 China. Department of Bioinformatics and Biostatistics School of Life Sciences and Biotechnology Shanghai Jiao Tong University Shanghai 200240 China. Department of Gastroenterology Yueyang Hospital of Integrated Traditional Chinese and Western Medicine Shanghai University of Traditional Chinese Medicine Shanghai 200437 China. Sikun Life Science Company Limited ZhengZhou 450016 China. zhaoli@***. SJTU-Yale Joint Center for Biostatistics and Data Science Technical Center for Digital Medicine National Center for Translational Medicine Shanghai Jiao Tong University Shanghai 200240 China. yongyong.ren@***. Institute of Bioinformatics Shanghai Academy of Experimental Medicine Shanghai 201203 China. yongyong.ren@***.

DNA sequencing technology has significantly advanced over the past five decades, particularly with the introduction of next-generation sequencing (NGS) platforms like Illumina's NovaSeq. In October 2023, Sikun introduced the Sikun 2000, a desktop NGS platform designed for rapid, cost-effective sequencing with up to 200 Gb of data per run. This study is the first to evaluate the performance of the Sikun 2000 in whole genome sequencing (WGS) and compares it with the Illumina NovaSeq 6000 and NovaSeq X platforms using five well-characterized human Genomes in a Bottle dataset. Results show that the Sikun 2000 performs competitively in variant detection, particularly excelling in single nucleotide variant accuracy. It also demonstrated a higher sequencing depth and lower proportion of low-quality reads than the NovaSeq platforms. However, its performance in insertion-deletion (Indel) detection was slightly lower than that of NovaSeq platforms. Overall, the Sikun 2000 is a qualified sequencing platform for WGS, and further evaluation in clinical and research applications is required as data continues to accumulate.

关键词： Sikun 2000 Variation detection Whole genome sequencing

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U1 snRNP regulates alternative promoter activity by inhibiting premature polyadenylation

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Molecular Cell 2025年第10期85卷 1968-1981.e7页

作者： Kim, GyeungYun Carroll, Christine L. Wakefield, Zachary Peters Tuncay, Mustafa Fiszbein, Ana Biology Department Boston University Boston 02215 United States Graduate Program in Molecular Biology Cell Biology & Biochemistry Boston University Boston 02215 United States Graduate Program in Cell and Molecular Biology Boston University Boston 02215 United States Bioinformatics Program Faculty of Computing and Data Science Boston University Boston 02215 United States Center for Computing & Data Sciences Boston University Boston 02215 United States

Emerging evidence indicates that splicing factors mediate the close link between transcription and splicing. However, the mechanisms underlying this coupling remain unclear. U1 small nuclear ribonucleoprotein particle (U1 snRNP) not only initiates splicing but also plays a crucial role in preventing premature cleavage and polyadenylation, facilitating long-distance transcriptional elongation. Here, we show that U1 snRNP regulates alternative promoter activity in human cells by inhibiting premature polyadenylation. In genes carrying premature polyadenylation sites between two promoters, U1 snRNP inhibition with antisense oligonucleotides leads to a significant decrease in downstream promoter activity. Conversely, restoring U1 snRNP activity or inhibiting premature polyadenylation rescues downstream promoter activity. Mechanistically, U1 snRNP inhibition correlates with reduced chromatin accessibility, decreased RNA polymerase II serine 5 phosphorylation, and increased promoter-proximal pause at downstream promoters. Our findings support a model in which U1 snRNP favors productive elongation from upstream promoters, triggering downstream promoter activation by destabilizing nucleosomes and promoting promoter escape. © 2025 The Author(s)

关键词： alternative promoters dowsntream promoters promoter-proximal pause splicing factors splicing transcription transcription cooperativity transcription initiation transcription interfierence transcription start sites U1 snRNP

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Graph AI in Medicine

arXiv

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arXiv 2023年

作者： Johnson, Ruth Li, Michelle M. Noori, Ayush Queen, Owen Zitnik, Marinka Department of Biomedical Informatics Harvard Medical School BostonMA02115 United States Berkowitz Family Living Laboratory Harvard Medical School BostonMA02115 United States Bioinformatics and Integrative Genomics Program Harvard Medical School BostonMA02115 United States Harvard College CambridgeMA02138 United States Broad Institute of MIT and Harvard CambridgeMA02142 United States Harvard Data Science Initiative CambridgeMA02138 United States Kempner Institute for the Study of Natural and Artificial Intelligence Harvard University AllstonMA United States

In clinical artificial intelligence (AI), graph representation learning, mainly through graph neural networks and graph transformer architectures, stands out for its capability to capture intricate relationships and structures within clinical datasets. With diverse data-from patient records to imaging-graph AI models process data holistically by viewing modalities and entities within them as nodes interconnected by their relationships. Graph AI facilitates model transfer across clinical tasks, enabling models to generalize across patient populations without additional parameters or minimal to no re-training. However, the importance of human-centered design and model interpretability in clinical decision-making cannot be overstated. Since graph AI models capture information through localized neural transformations defined on relational datasets, they offer both an opportunity and a challenge in elucidating model rationale. Knowledge graphs can enhance interpretability by aligning model-driven insights with medical knowledge. Emerging graph AI models integrate diverse data modalities through pre-training, facilitate interactive feedback loops, and foster human-AI collaboration, paving the way to clinically meaningful predictions. © 2023, CC BY.

关键词： Knowledge graph

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Reply to Žárský and Eliáš

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Current biology : CB 2025年第5期35卷 R173-R174页

作者： Maaike J Bierenbroodspot Tatyana Darienko Sophie de Vries Thomas Pröschold Iker Irisarri Jan de Vries University of Goettingen Institute for Microbiology and Genetics Department of Applied Bioinformatics Goettingen Germany. University of Goettingen Institute for Microbiology and Genetics Department of Applied Bioinformatics Goettingen Germany University of Goettingen Albrecht-von-Haller-Institute for Plant Sciences Department of Experimental Phycology and Culture Collection of Algae Goettingen Germany. Research Department for Limnology University of Innsbruck Mondsee Austria. Department of Biodiversity and Evolutionary Biology Museo Nacional de Ciencias Naturales Madrid Spain Campus Institute Data Science University of Goettingen Goettingen Germany. Electronic address: Iker.Irisarri@mncn.csic.es. Campus Institute Data Science University of Goettingen Goettingen Germany Goettingen Center for Molecular Biosciences (GZMB) Department of Applied Bioinformatics University of Goettingen Goettingen Germany. Electronic address: devries.jan@uni-goettingen.de.

The more we learn about the algal relatives of embryophytes (land plants), the more complex and fascinating the evolution of key streptophyte traits becomes. With the sequencing of the Klebsormidium nitens genome, a range of molecular traits shared with land plants were found - despite ca. 800 million years of divergence. A few years ago, Streptofilum was described, superficially resembling members of Klebsormidiophyceae but showing divergence in traits. In our recent study, we reconstructed a phylogenomic backbone for Klebsormidiophyceae, and Streptofilum was nested within, although we pointed out the difficulties in placing Streptofilum. Now, Žárský and Eliáš have commented on this placement, building on a different approach to analyze the data.

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Antioxidant activity, physico-chemical properties, and bioactive compounds of Nigella sativa seeds and oil impacted by microwave processing technique

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Heliyon 2024年第18期10卷 e37603页

作者： Oubannin, Samira Jadouali, Si Mohamed Atifi, Hajar Bijla, Laila Ibourki, Mohamed Gagour, Jamila Bouzid, Hasna Ait Aabd, Naima Ait Bouyahya, Abdelhakim Harhar, Hicham Goh, Khang Wen Ming, Long Chiau Razi, Pakhrur Gharby, Saïd Biotechnology Analytical Sciences and Quality Control Laboratory Polydisciplinary Faculty of Taroudant University Ibn Zohr Agadir 80000 Morocco Laboratory of Biotechnology Bioanalysis and Bioinformatics SST Khenifra Sultan Moulay Sliman University Morocco National Institute of Agronomic Research Agadir 80000 Morocco Laboratory of Human Pathologies Biology Faculty of Sciences Mohammed V University Raba 10100 Morocco Laboratory of Materials Nanotechnology and Environment LMNE Faculty of Science University Mohamed V University Rabat 10100 Morocco Faculty of Data Science and Information Technology INTI International University Nilai Malaysia School of Medical and Life Sciences Sunway University Sunway City 47500 Malaysia Center of Disaster Monitoring and Earth Observation Universitas Negeri Padang Padang Indonesia

Strongly anti-oxidant and medicinal, Nigella sativa L (NS) is utilized in conventional medicine to address a range of illnesses, including gastrointestinal, inflammatory and rheumatic illnesses. This study was carried out to investigate the effects of microwave processing on the physico-chemical properties of Moroccan-grown Nigella sativa seeds and oils, as well as to investigate the antioxidant qualities of black cumin oils under conditions of accelerated oxidation. The study's specific goal was to ascertain the effects of varying microwave power levels (500 and 750 W) and roasting times (5, 10, and 15 min) on the black cumin oils' quality indices, fatty acid and sterol content, carotenoid and chlorophyll levels, mineral profile, tocopherol amount, and overall antioxidant activity. To this end, the seeds of black cumin were roasted at two power levels (500 and 750 W) and for three different periods (5, 10, and 15 min) in a microwave oven. The obtained results show that the duration and the processing power did not significantly influence the amount of sterols and fatty acids. In contrast, the quality indices, physico-chemical properties, carotenoid and chlorophyll contents, mineral profile, and tocopherol amount were influenced by the microwave processing. A significant decline in the antioxidant activity was recorded from 45.01 ± 0.81 % (unroasted cumin seeds) to 4.32 ± 0.91 % (750 W/5 min). Based on these findings, the black cumin oil preparations should be handled carefully and the oil must be protected once extracted. The stability and preservation of antioxidants are crucial steps against pro-oxidant and inflammatory conditions that could favour cellular senescence and accelerate aging processes. © 2024 The Author(s)

关键词： Agricultural production Black cumin Fatty acids Food production Healthy lifestyle Oxidative stability Quality indices Sustainable food consumption

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