bluuebunny/crossref_metadata_2025_split huggingface dataset:
A novel salp swarm clustering algorithm for prediction of the heart diseases
Authors: Sureja Nitesh , Chawda Bharat , Vasant Avani 
Published: January 2022

Heart <span>diseases have a severe impact on human life and health. Cardiovascular deaths and diseases have increased at a fast rate worldwide. The early prediction of these diseases is necessary to prevent deaths. Now a day; a considerable amount of medical information is available and collected as databases. An efficient technique is required to analyse this data and predict the disease. Clustering can help medical practitioners in diagnosis by classifying the patient’s data collected for a disease. Clustering techniques can analyse such data based on each patient-generated and predict disease. A new prediction model based on salp swarm algorithm and support vector machine is proposed in this research for predicting heart diseases. Salp swarm algorithm is used to select the useful features from the database. Support vector machine classifier is used to predict heart diseases. Results obtained are compared with the other algorithms available in the literature. It is observed that the proposed approach produces better results with accuracy 98.75% and 98.46% with the dataset 1 and 2, respectively. In addition to this, the algorithm converges in significantly less time in comparison to other algorithms. This algorithm might become a perfect supporting tool for medical </span>practitioners.
Overexpression of Gα Gene Increases Growth and Hyposaline Tolerance in Kappaphycus alvarezii Transgenic Plantlets
Authors: Sulistiani Erina 
Published: January 2022

ABSTRACT
G proteins are membrane proteins that play roles in signal transduction in living organisms. They consist of α, β and γ subunits. The G protein α subunit (Gα) plays a role in plant resistance toward biotic and abiotic environmental stresses. Transgenic plantlets of Kappaphycus alvarezii carrying the Gα gene (derived from soybean) have been successfully obtained through Agrobacterium tumefaciens-mediated transformation. The present study aimed to: 1. compare the growth of non-transgenic and transgenic plantlets of K. alvarezii in vitro using Provasoli enriched seawater (PES) medium with normal salinity and hyposalinity and 2. analyze the expression level of the Gα gene in transgenic plantlets using quantitative Polymerase Chain Reaction (qPCR). The results showed that all transgenic plantlets (six clones) had significantly higher daily growth rate (DGR, % / d) than that of non-transgenic under the condition of normal salinity (30 ppt) and hyposalinity (15 and 20 ppt) for 5 weeks of observation. At 15 ppt, transgenic plantlets were more tolerant than non-transgenic ones, as most thalli of transgenic plantlets remained brown in color, whereas most thalli of non-transgenic plantlets were bleached. The results of the qPCR analysis showed that the expression of the Gα gene in transgenic plantlets increased by 6.43 - 8.03 times compared with that of non-transgenic plantlets. The result of Pearson correlation analysis showed that relative expression of Gα gene had a strong correlation, both with DGRs in normal salinity and hyposalinity of transgenic plantlets (correlation coefficient > 0.7). The correlation was linearly positive, where increased expression of the Gα gene was strongly associated with an increase in DGRs.

Keywords: Gα gene overexpression, hyposaline tolerance, Kappaphycus alvarezii, transgenic plantlet
Unique Associations of DNA Methylation Regions With 24-Hour Blood Pressure Phenotypes in Black Participants
Authors: Roberts Michelle L. , Kotchen Theodore A. , Pan Xiaoqing , Li Yingchuan , Yang Chun , Liu Pengyuan , Wang Tao , Laud Purushottam W. , Chelius Thomas H. , Munyura Yannick , Mattson David L. , Liu Yong , Cowley Allen W. , Kidambi Srividya , Liang Mingyu 
Published: January 2022

Background:
Epigenetic marks (eg, DNA methylation) may capture the effect of gene-environment interactions. DNA methylation is involved in blood pressure (BP) regulation and hypertension development; however, no studies have evaluated its relationship with 24-hour BP phenotypes (daytime, nighttime, and 24-hour average BPs).

Methods:
We examined the association of whole blood DNA methylation with 24-hour BP phenotypes and clinic BPs in a discovery cohort of 281 Black participants using reduced representation bisulfite sequencing. We developed a deep and region-specific methylation sequencing method, Bisulfite ULtrapLEx Targeted Sequencing and utilized it to validate our findings in a separate validation cohort (n=117).

Results:
Analysis of 38 215 DNA methylation regions (MRs), derived from 1 549 368 CpG sites across the genome, identified up to 72 regions that were significantly associated with 24-hour BP phenotypes. No MR was significantly associated with clinic BP. Two to 3 MRs were significantly associated with various 24-hour BP phenotypes after adjustment for age, sex, and body mass index. Together, these MRs explained up to 16.5% of the variance of 24-hour average BP, while age, sex, and BMI explained up to 11.0% of the variance. Analysis of one of the MRs in an independent cohort using Bisulfite ULtrapLEx Targeted Sequencing confirmed its association with 24-hour average BP phenotype.

Conclusions:
We identified several MRs that explain a substantial portion of variances in 24-hour BP phenotypes, which might be excellent markers of cumulative effect of factors influencing 24-hour BP levels. The Bisulfite ULtrapLEx Targeted Sequencing workflow has potential to be suitable for clinical testing and population screenings on a large scale.
Culture or Context: a Qualitative Approach Investigating the Relationship of Scheduling Styles and Situational Context in Uganda and Germany
Authors: Kosak Ferdinand , Kugler Lisa , Hilbert Sven , Rettinger Steffi , Bloom Nils 
Published: January 2022

Abstract
Previous literature suggested that different countries and regions are associated with different temporal cultures resulting in according scheduling styles: people in anglo-european countries supposedly plan and structure their life predominantly according to the clock (clock time orientation) while people in some other parts of the world are more prone to live their lives in disregard of clock time but follow inner needs and/or the structure given by the events that happen in their lives (event time orientation). However, recent research shows that scheduling styles are also adaptive responses to situational demands and event and clock timing are associated with different experiences of control. Transferring these findings to a cross-cultural setting, we investigated whether situational context is the predominant factor explaining the application of different scheduling styles. To this end, we used a mixed-methods approach with semi-structured interviews exploring whether participants from Uganda and Germany (employees with fixed working hours) differ in the level to which they structure their narratives of daily routines of time associated with work primarily in reference to the clock while recounting free time predominantly in reference to events and/or inner needs. Our data, processed using qualitative content analysis, show this pattern for the participants from both countries. Overall interviewees from Germany do not refer to the clock more often than their Ugandan counterparts. This suggests that individuals’ scheduling styles reflect intersituational adaptations to a given demand for synchronization rather than being kind of a strong cultural imprint on individuals.
Intellectual Property Ownership in a University Setting
Authors: Davis Lizhu Y. , Forsythe Lynn M. , Mueller John M. 
Published: January 2022

Drilling through hard rock to explore for underground oil and gas is especially complicated in geographic areas where the sub-layer is full of dense and impenetrable rock. Charlie Scent, an Engineering Professor working at a university, undertook research to solve this dilemma and developed a solution after approximately 20 years of effort. To commercialize the technology, Scent collaborated with one of his PhD students and formed a company. Through the commercialization process, friction developed among the participants—Scent, the graduate student, and the university. This discord brought to light several important questions regarding intellectual property that is created in a university setting. This case is about who owns intellectual property and decreasing the probability that there will be friction between the individuals who are at the heart of an invention.
Geriatric assessment predicts nonfatal toxicities and survival for intensively treated older adults with AML
Authors: Min Gi-June , Cho Byung-Sik , Park Sung-Soo , Park Silvia , Jeon Young-Woo , Shin Seung-Hwan , Yahng Seung-Ah , Yoon Jae-Ho , Lee Sung-Eun , Eom Ki-Seong , Kim Yoo-Jin , Lee Seok , Min Chang-Ki , Cho Seok-Goo , Kim Dong-Wook , Lee Jong Wook , Hee-Je Kim 
Published: January 2022

Abstract
Given that there are only a few prospective studies with conflicting results, we investigated the prognostic value of multiparameter geriatric assessment (GA) domains on tolerance and outcomes after intensive chemotherapy in older adults with acute myeloid leukemia (AML). In all, 105 newly diagnosed patients with AML who were older than age 60 years and who received intensive chemotherapy consisting of cytarabine and idarubicin were enrolled prospectively. Pretreatment GA included evaluations for social and nutritional support, cognition, depression, distress, and physical function. The median age was 64 years (range, 60-75 years), and 93% had an Eastern Cooperative Oncology Group performance score &lt;2. Between 32.4% and 69.5% of patients met the criteria for impairment for each domain of GA. Physical impairment by the Short Physical Performance Battery (SPPB) and cognitive dysfunction by the Mini-Mental State Examination in the Korean version of the Consortium to Establish a Registry for Alzheimer’s Disease (CERAD) Assessment Packet (MMSE-KC) were significantly associated with nonfatal toxicities, including grade 3 to 4 infections (SPPB, P = .024; MMSE-KC, P = .044), acute renal failure (SPPB, P = .013), and/or prolonged hospitalization (≥40 days) during induction chemotherapy (MMSE-KC, P = .005). Reduced physical function by SPPB and depressive symptoms by the Korean version of the short form of geriatric depression scales (SGDS-K) were significantly associated with inferior survival (SPPB, P = .027; SGDS-K, P = .048). Gait speed and sit-and-stand speed were the most powerful measurements for predicting survival outcomes. Notably, the addition of SPPB and SGDS-K, gait speed and SGDS-K, or sit-and-stand speed and SGDS-K significantly improved the power of existing survival prediction models. In conclusion, GA improved risk stratification for treatment decisions and may inform interventions to improve outcomes for older adults with AML. This study was registered at the Clinical Research Information Service as #KCT0002172.
Effective identification of varieties by nucleotide polymorphisms and its application for essentially derived variety identification in rice
Authors: Yuan Xiong , Li Zirong , Xiong Liwen , Song Sufeng , Zheng Xingfei , Tang Zhonghai , Yuan Zheming , Li Lanzhi 
Published: January 2022

AbstractBackgroundPlant variety identification is the one most important of agricultural systems. Development of DNA marker profiles of released varieties to compare with candidate variety or future variety is required. However, strictly speaking, scientists did not use most existing variety identification techniques for “identification” but for “distinction of a limited number of cultivars,” of which generalization ability always not be well estimated. Because many varieties have similar genetic backgrounds, even some essentially derived varieties (EDVs) are involved, which brings difficulties for identification and breeding progress. A fast, accurate variety identification method, which also has good performance on EDV determination, needs to be developed.ResultsIn this study, with the strategy of “Divide and Conquer,” a variety identification method Conditional Random Selection (CRS) method based on SNP of the whole genome of 3024 rice varieties was developed and be applied in essentially derived variety (EDV) identification of rice. CRS is a fast, efficient, and automated variety identification method. Meanwhile, in practical, with the optimal threshold of identity score searched in this study, the set of SNP (including 390 SNPs) showed optimal performance on EDV and non-EDV identification in two independent testing datasets.ConclusionThis approach first selected a minimal set of SNPs to discriminate non-EDVs in the 3000 Rice Genome Project, then united several simplified SNP sets to improve its generalization ability for EDV and non-EDV identification in testing datasets. The results suggested that the CRS method outperformed traditional feature selection methods. Furthermore, it provides a new way to screen out core SNP loci from the whole genome for DNA fingerprinting of crop varieties and be useful for crop breeding.
Comprehensive analysis of expression profile and prognostic significance of interferon regulatory factors in pancreatic cancer
Authors: Zhang Ke , Xu Pan-Ling , Li Yu-Jie , Dong Shu , Gao Hui-Feng , Chen Lian-Yu , Chen Hao , Chen Zhen 
Published: January 2022

Abstract
Background
Pancreatic cancer (PC) is a highly lethal disease and an increasing cause of cancer-associated mortality worldwide. Interferon regulatory factors (IRFs) play vital roles in immune response and tumor cellular biological processes. However, the specific functions of IRFs in PC and tumor immune response are far from systematically clarified. This study aimed to explorer the expression profile, prognostic significance, and biological function of IRFs in PC.

Results
We observed that the levels of IRF2, 6, 7, 8, and 9 were elevated in tumor compared to normal tissues in PC. IRF7 expression was significantly associated with patients’ pathology stage in PC. PC patients with high IRF2, low IRF3, and high IRF6 levels had significantly poorer overall survival. High mRNA expression, amplification and, deep deletion were the three most common types of genetic alterations of IRFs in PC. Low expression of IRF2, 4, 5, and 8 was resistant to most of the drugs or small molecules from Genomics of Drug Sensitivity in Cancer. Moreover, IRFs were positively correlated with the abundance of tumor infiltrating immune cells in PC, including B cells, CD8+ T cells, CD4+ T cells, macrophages, Neutrophil, and Dendritic cells. Functional analysis indicated that IRFs were involved in T cell receptor signaling pathway, immune response, and Toll-like receptor signaling pathway.

Conclusions
Our results indicated that certain IRFs could serve as potential therapeutic targets and prognostic biomarkers for PC patients. Further basic and clinical studies are needed to validate our findings and generalize the clinical application of IRFs in PC.
Transcriptome shifts triggered by vitamin A and SCD genotype interaction in Duroc pigs
Authors: Solé Emma , González-Prendes Rayner , Oliinychenko Yelyzaveta , Tor Marc , Ros-Freixedes Roger , Estany Joan , Pena Ramona N. 
Published: January 2022

Abstract
Background
The composition of intramuscular fat depends on genetic and environmental factors, including the diet. In pigs, we identified a haplotype of three SNP mutations in the stearoyl-coA desaturase (SCD) gene promoter associated with higher content of monounsaturated fatty acids in intramuscular fat. The second of these three SNPs (rs80912566, C > T) affected a putative retinol response element in the SCD promoter. The effect of dietary vitamin A restriction over intramuscular fat content is controversial as it depends on the pig genetic line and the duration of the restriction. This study aims to investigate changes in the muscle transcriptome in SCD rs80912566 TT and CC pigs fed with and without a vitamin A supplement during the fattening period.

Results
Vitamin A did not affect carcass traits or intramuscular fat content and fatty acid composition, but we observed an interaction between vitamin A and SCD genotype on the desaturation of fatty acids in muscle. As reported before, the SCD-TT pigs had more monounsaturated fat than the SCD-CC animals. The diet lacking the vitamin A supplement enlarged fatty acid compositional differences between SCD genotypes, partly because vitamin A had a bigger effect on fatty acid desaturation in SCD-CC pigs (positive) than in SCD-TT and SCD-TC animals (negative). The interaction between diet and genotype was also evident at the transcriptome level; the highest number of differentially expressed genes were detected between SCD-TT pigs fed with the two diets. The genes modulated by the diet with the vitamin A supplement belonged to metabolic and signalling pathways related to immunity and inflammation, transport through membrane-bounded vesicles, fat metabolism and transport, reflecting the impact of retinol on a wide range of metabolic processes.

Conclusions
Restricting dietary vitamin A during the fattening period did not improve intramuscular fat content despite relevant changes in muscle gene expression, both in coding and non-coding genes. Vitamin A activated general pathways of retinol response in a SCD genotype-dependant manner, which affected the monounsaturated fatty acid content, particularly in SCD-CC pigs.
Long read sequencing reveals novel isoforms and insights into splicing regulation during cell state changes
Authors: Wright David J. , Hall Nicola A. L. , Irish Naomi , Man Angela L. , Glynn Will , Mould Arne , Angeles Alejandro De Los , Angiolini Emily , Swarbreck David , Gharbi Karim , Tunbridge Elizabeth M. , Haerty Wilfried 
Published: January 2022

Abstract
Background
Alternative splicing is a key mechanism underlying cellular differentiation and a driver of complexity in mammalian neuronal tissues. However, understanding of which isoforms are differentially used or expressed and how this affects cellular differentiation remains unclear. Long read sequencing allows full-length transcript recovery and quantification, enabling transcript-level analysis of alternative splicing processes and how these change with cell state. Here, we utilise Oxford Nanopore Technologies sequencing to produce a custom annotation of a well-studied human neuroblastoma cell line SH-SY5Y, and to characterise isoform expression and usage across differentiation.

Results
We identify many previously unannotated features, including a novel transcript of the voltage-gated calcium channel subunit gene, CACNA2D2. We show differential expression and usage of transcripts during differentiation identifying candidates for future research into state change regulation.

Conclusions
Our work highlights the potential of long read sequencing to uncover previously unknown transcript diversity and mechanisms influencing alternative splicing.
Explanatory role of sociodemographic, clinical, behavioral, and social factors on cognitive decline in older adults with diabetes
Authors: O’Toole Sean M. , Walker Rebekah J. , Garacci Emma , Dawson Aprill Z. , Campbell Jennifer A. , Egede Leonard E. 
Published: January 2022

Abstract
Background
The aim of the study was to examine the explanatory role of sociodemographic, clinical, behavioral, and social factors on racial/ethnic differences in cognitive decline among adults with diabetes.

Methods
Adults aged 50+ years with diabetes from the Health and Retirement Survey were assessed for cognitive function (normal, mild cognitive impairment [MCI], and dementia). Generalized estimating equation (GEE) logistic regression models were used to account for repeating measures over time. Models were adjusted for sociodemographic (gender, age, education, household income and assets), behavioral (smoking), clinical (ie. comorbidities, body mass index), and social (social support, loneliness, social participation, perceived constraints and perceived mastery on personal control) factors.

Results
Unadjusted models showed non-Hispanic Blacks (NHB) and Hispanics were significantly more likely to progress from normal cognition to dementia (NHB OR: 2.99, 95%CI 2.35–3.81; Hispanic OR: 3.55, 95%CI 2.77–4.56), and normal cognition to MCI (NHB OR = 2.45, 95%CI 2.14–2.82; Hispanic OR = 2.49, 95%CI 2.13–2.90) compared to non-Hispanic Whites (NHW). Unadjusted models for the transition from mild cognitive decline to dementia showed Hispanics were more likely than NHW to progress (OR = 1.43, 95%CI 1.11–1.84).
After adjusting for sociodemographic, clinical/behavioral, and social measures, NHB were 3.75 times more likely (95%CI 2.52–5.56) than NHW to reach dementia from normal cognition. NHB were 2.87 times more likely (95%CI 2.37–3.48) than NHW to reach MCI from normal. Hispanics were 1.72 times more likely (95%CI 1.17–2.52) than NHW to reach dementia from MCI.

Conclusion
Clinical/behavioral and social factors did not explain racial/ethnic disparities. Racial/ethnic disparities are less evident from MCI to dementia, emphasizing preventative measures/interventions before cognitive impairment onset are important.
SARS-CoV-2 antibody seroprevalence in Lebanon: findings from the first nationwide serosurvey
Authors: Hoballah Abbas , El Haidari Rana , Siblany Ghina , Abdel Sater Fadi , Mansour Samir , Hassan Hamad , Abou-Abbas Linda 
Published: January 2022

Abstract
Background
Lebanon, a small country in the Middle East, remains severely affected by the COVID-19 pandemic. Seroprevalence surveys of anti-SARS-CoV-2 antibodies provide accurate estimates of SARS-CoV-2 infection and hence evaluate the extent of the pandemic. The present study aimed to evaluate the prevalence of SARS-CoV-2 antibodies in Lebanon and to compare the estimated cumulative number of COVID-19 cases with the officially registered number of laboratory-confirmed cases up to January 15, 2021.

Methods
A nationwide population-based serosurvey study was conducted in Lebanon between December 7, 2020, and January 15, 2021, before the initiation of the national vaccination program. The nCOVID-19 IgG & IgM point-of-care (POCT) rapid test was used to detect the presence of anti-SARS-COV-2 immunoglobulin G (IgG) in the blood. Seroprevalence was estimated after weighting for sex, age, and area of residence and adjusting for the test performance.

Results
Of the 2058 participants, 329 were positive for IgG SARS-COV-2, resulting in a crude seroprevalence of 16.0% (95% CI 14.4–17.6). The weighed seroprevalence was 15.9% (95% CI of 14.4 and 17.4). After adjusting for test performance, the population weight-adjusted seroprevalence was 18.5% (95% CI 16.8–20.2). This estimate implies that 895,770 individuals of the general population were previously infected by COVID-19 up to January 15, 2021 in Lebanon. The overall estimated number of subjects with previous SARS-CoV-2 infection was three times higher than the officially reported cumulative number of confirmed cases. Seroprevalence was similar across age groups and sexes (p-value > 0.05). However, significant differences were revealed across governorates.

Conclusions
Our results suggest that the Lebanese population is still susceptible to SARS-CoV-2 infection and far from achieving herd immunity. These findings represent an important contribution to the surveillance of the COVID-19 pandemic in Lebanon and to the understanding of how this virus spreads. Continued surveillance for COVID-19 cases and maintaining effective preventive measures are recommended to control the epidemic spread in conjunction with a national vaccination campaign to achieve the desired level of herd immunity against COVID-19.