bluuebunny/crossref_metadata_2025_split huggingface dataset:
A novel MTP and MCMR approach for predicting early lung cancer using Longitudinal CT imaging
Authors: Xiao Ning , Han Jiahao , Qiang Yan , Lian Jianhong 
Published: October 2022

Abstract
The prediction of pulmonary nodules being canceration is of vital importance to the diagnosis and treatment of early lung adenocar-cinoma. However, most traditional research paradigms only focus on image data at a single point in time, which makes it easy to ignore the correlation of lung computer tomography (CT) images at multiple points in time. Based on the the correlation between longitudinal images and medical characteristics of patients with pulmonary nodules, a novel multimodal feature analysis framework is proposed in this paper. Firstly, we collect 925 patients with pulmonary nodules from cooperative hospitals, utilize a Convolutional Long Short Term Memory (ConvLSTM) to extract the deep features of pulmonary nod-ules at dierent time points, and radiomics tool kits to extract their radiomics features. After that, the deep features, radiomics features, and risk factor are fused by Multimodal Trilinear Pooling (MTP), and the optimal feature is obtained using the Maximum Correlation and Minimum Redundancy (MCMR) selection. In the end, a total of 260-dimensional features were selected. The validity of the extracted features was veried by the leave-one-out cross-validation method on the data set. The experiment shows that the accuracy of nodule cancera-tion prediction reached 89.15%, which proved the eectiveness of the method proposed in this study. The multimodal nodule feature analysis framework can provide reference values for nodule canceration prediction.
Gestational diabetes mellitus changes the DNA methylation profile in cord blood and leads to neonatal immune dysregulation
Authors: Wang Jiawei , Chen Qiuling , Zhang Yunfan , Yan Feng , Wu Le , Huang Shulan , Hu Xiang , You Changqiao , He Jun 
Published: October 2022

Abstract
Background
Gestational diabetes mellitus (GDM) affects the immune balance of pregnant women and their offspring. However, most studies on cord blood have not yielded satisfactory results. Most studies in the field of epigenetics have problems such as small data size, unqualified sampling, cannot be repeated verification, the results are not significant, and usually, there is no multi-omics analysis. Therefore, it is difficult to systematically reveal the critical factors of epigenetic changes in GDM on the immune function of the offspring of GDM pregnant women.
Results
We randomly recruited 30 pregnant women, including 20 pregnant women with GDM (experimental group) and 10 pregnant women without GDM (control group). 9327 genes in hyper-methylated DMPs, 10908 genes in hypo-methylated DMPs, 42 genes in hyper-methylated DMRs, and 209 genes in hypo-methylated DMRs were identified. Through integration analysis with multiple datasets in the GEO public database, it was found that the genes obtained by DMPs were more accurate than those obtained by DMRs. Through data analysis, we got two groups of gene sets, and functional analysis found that they were related to human immune function. After immune infiltration analysis, it was found that CD4T cells were significantly reduced in the cord blood of pregnant GDM women. To further verify the effect of GDM on cord blood immune function, the integration analysis of the two gene sets identified HIST1H1B and PRTN3 genes. Among them, the cg24587427 and cg00700007 sites of the HIST1H1B gene were significantly correlated with the amount of CD4T cells in the cord blood.
Conclusions
In this study, we broke the previous lack of practical results from cord blood in terms of epigenetics and confirmed that the changes in the intrauterine environment of pregnant women with GDM affect the immune function of newborns.
Toward Fact-aware Abstractive Summarization Method Using Joint Learning
Authors: Mao Xingjing , Chen Li , Ju Shenggen , Wan Xia , Liu Yuezhong 
Published: October 2022

Abstract
Abstractive summarization obtains text semantic embedding based on the content of the source corpus to generate summaries, helping users quickly extract valid information from massive amounts of text data. The existing model suffers from poor ability to perceive the correctness of sentence formulation, resulting in the generation of summaries with distorted factual content and representations that do not match the information in the original text, i.e. factual inconsistencies. To address this issue, in this paper, the textual implication task is learned jointly with the summary task, starting from the original text and guided by template sentences. The knowledge of implicit reasoning is incorporated into the encoder model of the summary through parameter sharing to improve the model's ability to perceive facts. First, to enhance the factual consistency of the generated content, this paper uses the extractive summary algorithm Lead-3 to extract partial sentences from the original text as template sentences. Second, we construct a weakly supervised textual implication discriminator dataset on the CNN/Daily Mail. By sharing the same BERT-based text encoder, the text-implication task is jointly trained with the text-summarization task to make the encoder text-implication aware. Finally, experiments were conducted on CNN/Daily Mail to verify the accuracy and factual consistency of the generated summaries by using ROUGE metrics and BERTScore metrics. The results demonstrate that the fact-aware abstractive summarization model proposed in this paper can generate high-quality and factually consistent summaries.
WITHDRAWN: Learning and Semi-automatic Intention Labeling for Classification Models: ACOVID-19 Study for Chatbots
Authors: Júnior Valmir Oliveira dos Santos , de Oliveira Marcos Antonio , Cruz Lívia Almada , Silva Ticiana L. Coelho da 
Published: October 2022

Abstract

It is increasingly common to use chatbots as an interface to services. Making this experience more humanized requires the chatbot to understand natural language and express itself using it. One of the main components of a chatbot is Natural Language Understanding (NLU) model, which is responsible for interpreting the text and extracting the intent and entities present in that text. It's possible to focus only on one of these tasks of NLU, such as Intent classification. To train an NLU intent classification model, it's generally necessary to use a considerable amount of annotated data, where each sentence of the dataset receives a label indicating an intent.Performing manually labeling data is an arduous and impracticable process depending on the data volume. Thus, an unsupervised machine learning technique, such as data clustering, could be applied to find patterns in the data and label them. For this task, it is essential to have an effective vector embedding representation of texts that depicts the semantic information and helps the machine understand the context, intent, and other nuances of the entire text. In this paper, we perform an extensive evaluation of different text embedding models for clustering and labeling, we also apply some operations to improve the quality of the dataset, such as removing sentences establishing different strategies for distance thresholds in terms of (cosine similarity) for the clusters' centroids. Then we trained some Intent Classification Models with two different architectures, one built with the Rasa framework and the other with a Neural Network (NN) using the text of attendance from the Coronavirus Platform Service of Ceará, Brazil. We also manually annotated a dataset to be used as validation data. We found that semi-automatic labeling through clustering and visual inspection added some biases to the intent classification models. However, we still achieved competitive results in terms of accuracy for the trained models.
A step forward in introducing registered reports to the vision science community
Authors: Vera Jesus , Barrett Brendan T , Jimenez Raimundo , Redondo Beatriz 
Published: October 2022

Abstract

Several questionable research practices have been detected by the scientific community, with some of them being associated with the actual format of scientific publication. The field of ophthalmology, optometry and vision sciences is not exempt of this problematic. This article has been written to describe the Registered Reports format of scientific publication, which in our opinion, could help to minimize questionable research practices in our field of knowledge. Complementarily, we have collected the opinion of some editors in-chief from journals in the JCR category of Ophthalmology about the presence of questionable research practices and the potential benefits of implementing the Registered Reports format. Overall, most responders (87.5%) agreed that publication bias, cherry picking, p-hacking and HARKing are a considerable problem in the field of ophthalmology, optometry and vision sciences, and it could be (partially) solved by the adoption of the Registered Reports format. Nevertheless, most journals did not have plans to include this publication format in the near future. In our opinion, and as demonstrated in other fields, the adoption of the Registered Reports format may be an effective alternative to minimize questionable research practices and enhance the quality and rigor of the scientific work in the field of ophthalmology, optometry and vision sciences.
Effects of temporary raised water levels on grassland soil characteristics for a soil foraging wader in nature oriented farmland
Authors: oosterveld ernst , mettrop ivan , sikkema marten 
Published: October 2022

Abstract

Farmland birds are declining across Europe and especially grassland breeding waders. A potentially most effective conservation measure of nature oriented agriculture is increasing wet conditions, to counter the growing risk of food scarcity for waders because of desiccation of the topsoil. We tested the effects of locally and temporary raised water levels during the breeding season, distinguishing between three high water types according to current agri-environmental schemes in nature oriented farmland. We measured soil characteristics that determine foraging conditions of waders in three transects at 3, 10 and 50 m from experimental high water ditches and along low water reference ditches. Additionally, foraging behaviour of Black-tailed Godwits was measured along the ditches within reach of the three transects. We found that raising of water levels, regardless of high water type, increased groundwater level by on average 20 cm, increased soil moisture content by 25% and reduced soil penetration resistance by 27% in the adjacent fields. The effect on reduction of the penetration resistance was most pronounced later in the spring (May, June). This effect was greatest directly along the ditches, but reached at least 50 m from the high water ditch into the adjacent field. Raised water levels generally led to increased rates and a higher percentage of succesful probings by foraging adult Black-tailed Godwits. The godwits had a higher intake rate upon area-wide high water levels and foot drains than at single high water ditches. Only at the high water locations soil penetration resistance was low enough for Black-tailed Godwits to forage successfully.
Effect of Clearance on the Soil Fungi Community in Chaco Dry Forest
Authors: Merlos Cristina S , Silvestro Luciana B , Pelizza Sebastián A , Moreno María Virginia 
Published: October 2022

Abstract

Purpose
The Seasonally dry forests of South America are known as the Gran Chaco are areas vulnerable in the world, the highest percentage of protected areas is found in South America. Anthropogenic processes as clearing of native forests makes ecosystems more fragile to changes, due to agricultural frontier expansion. We purpose study as the soil fungal community has been modified due to land use changes caused by clearing and agricultural activities.
Methods
We observed the response of the soil fungal community due to anthropogenic actions through to use phenotypic and genotypic tools to detecting changes in the diversity, at three study sites under different land uses in Chaco dry forest in Argentina. Soil samples were obtained from relicts of native forests of Schinopsis spp., cleared soils that are used later for agricultural activities and soil of soybean monoculture.
Results
The results provided a signal of consequences of human activity on soil fungal communities. This was visualized by the grouping of different soils by species fungi abundance, the presence of detector species in both sampling years and in the ordering of sampling sites through analysis with traditional and molecular tools such as PCR-DGGE. Soil organic carbon and phosphorous parameters were significantly modified by the interactions of sampling sites and years.
Conclusion
The present study emphasizes the different land use change between fungal communities of native soils and soils for agricultural purposes, being replaced by others with different soil roles.
Evaluation of the efficacy and safety of golimumab in patients with rheumatoid arthritis: A descriptive study
Authors: Kassem Hasan , Qudsi Maysoun , Al-Manasfi Anas 
Published: October 2022

Abstract

Background:
Rheumatoid arthritis is an autoimmune disease affecting the small joints in particular, leading to deformities which affects the quality of patient's life(1,2),so the treatment" goal is to achieve a state of clinical remission or, at least, low disease activity to prevent the progression of joint damage(3,4)
Golimumab is an anti-TNF-alpha monoclonal antibody shows clinical efficacy in RA patients alone as a therapy, or with MTX, or after MTX failure, or after failure of at least one anti-TNF-alpha (8,10) and inhibition of the radiological progression of joint damage (11).
Design:
A Cross-Sectional Study conducted in Syria.
Patients and methods:
Subcutaneous golimumab 50mg once a month during 6 months was injected to Rheumatoid arthritis patients. The primary endpoint was the percentage of individuals with a good or moderate EULAR DAS28-ESR response after 6 months of treatment.
Results:
A total of 42 patients were included. Of these, 78.1% had very active disease (DAS28-ESR >5.4). 81.2% were taking methotrexate, 39.0% other DMARDs in monotherapy or combined, and 64.9% received corticosteroids (7, 5-15 mg/day).
After 6 months, 82.7% of the patients showed a good or moderate EULAR response, 41.4% had low disease activity, and 29.1% were in remission. The percentage of responders one month after the first dose was 70.0%. The efficacy was similar in patients treated with methotrexate or other DMARDs, with different methotrexate doses, with or without corticosteroids, or in subjects who had failed one or more DMARDs. The response to golimumab was observed from the first dose. Golimumab was well tolerated and its safety profile was consistent with the findings of previous studies. Serious adverse events were reported in 3 patients (7.1%).
Conclusion:
RA patients treated with subcutaneous golimumab 50mg once a month to different DMARDs had achieved a moderate or good response after 6 months in 82.2% of the cases. The response was observed early, from the start of the second month, after a single dose of golimumab.
Novel DNA Promoter Hypermethylation in Nasal Epithelium of Asthma
Authors: Zeng Zhimin , Liang Yuxia , Xu Changyi , Tan Weiping , Du Lijuan , Liu Yangli , Chen Fengjia , Guo Yubiao 
Published: October 2022

Background:
Abnormal epigenetic alterations influenced by external factors and affecting DNA expression contribute to the development of asthma. However, the role of nasal epithelium in airway inflammation remains unknown.

Objective:
The objective of this study is to identify novel DNA promoter hypermethylation, which completely suppresses mRNA expression in nasal epithelial of asthma.

Methods:
Microarray datasets were downloaded from the Gene Expression Omnibus [GEO] database. Gene expression and DNA promoter methylation sites in key correlated modules between asthma and normal were identified by weighted gene co-expression network analysis [WGCNA]. Gene Ontology and KEGG were conducted to analyse the function of genes. Further validation was performed in human BEAS-2B cells challenged by IL-4 or IL-13.

Results:
Lightcyan, lightgreen, midnightblue, cyan and tan modules in mRNA expression dataset showed a close relationship with asthma, in which genes were enriched in TNF, IL-17, ErbB, MAPK and Estrogen signalling pathways. Blue and turquoise modules in methylation profiling dataset were associated with asthma. 49 lowly expressed genes were identified to be correlated with aberrant DNA hypermethylation of promoters. Among these genes, the mRNA levels of BCL10, GADD45B, LSR and SQSTM1 were downregulated in BEAS-2B cells challenged with IL-4 or IL-13.

Conclusion:
Four potential genes in nasal epithelium, by hypermethylating their own DNA promoter, might mediate the inflammatory response in the pathogenesis of asthma. Analyzing epigenomic data by integrated bioinformatics helps to understand the role of DNA methylation in asthma, with the goal of providing new perspectives for diagnosis and therapy.
Benzotriazole Substituted 2-Phenylquinazolines as Anticancer Agents:
Synthesis, Screening, Antiproliferative and Tubulin Polymerization Inhibition
Activity
Authors: Prasad Amit , Kumar Vinod , Dwivedi Ashish Ranjan , Rawat Suraj Singh , Kumar Vijay , Kumar Naveen , Kumar Vinay , Yadav Ravi Prakash , Baranwal Somesh 
Published: October 2022

Aims:
Development of anticancer agents targeting tubulin protein.

Background:
Tubulin protein is being explored as an important target for anticancer drug
development. Ligands binding to the colchicine binding site of the tubulin protein act as tubulin
polymerization inhibitors and arrest the cell cycle in the G2/M phase.

Objective:
Synthesis and screening of benzotriazole-substituted 2-phenyl quinazolines as potential
anticancer agents.

Methods:
A series of benzotriazole-substituted quinazoline derivatives have been synthesized and
evaluated against human MCF-7 (breast), HeLa (cervical) and HT-29 (colon) cancer cell lines using
standard MTT assays.

Result:
ARV-2 with IC50 values of 3.16 μM, 5.31 μM, 10.6 μM against MCF-7, HELA and HT29 cell
lines, respectively displayed the most potent antiproliferative activities in the series while all the
compounds were found non-toxic against HEK293 (normal cells). In the mechanistic studies involving
cell cycle analysis, apoptosis assay and JC-1 studies, ARV-2 and ARV-3 were found to induce
mitochondria-mediated apoptosis.

Conclusion:
The benzotriazole-substituted 2-phenyl quinazolines have the potential to be developed as
potent anticancer agents.
Sex Differences in Serum Prolactin Levels in Children and Adolescents on
Antipsychotics: A Systematic Review and Meta-Analysis
Authors: Ilzarbe Lidia , Ilzarbe Daniel , Gutiérrez-Arango Felipe , Baeza Inmaculada 
Published: October 2022

Background:
Serum prolactin levels are influenced by sex, physical development and medications
among other factors. Antipsychotics usually increase serum prolactin levels in both adults and
younger patients, but no study has reviewed the potential association between sex and vulnerability for
developing hyperprolactinemia among children and adolescents.

Objective:
Systematic review and meta-analysis of serum prolactin levels in children and adolescents
on antipsychotic treatment for any psychiatric diagnosis to determine the effect of sex.

Methods:
A systematic search was performed in MEDLINE/PubMed/Web of Science and Cochrane
databases for randomized controlled trials of antipsychotics in children and adolescents reporting serum
prolactin levels by sex.

Results:
Of 1278 identified records, seven studies were included, comparing different single antipsychotics
to placebo (risperidone N=4; lurasidone N=1; olanzapine N=1; queriapine N=1). Both male
and female children and adolescents on antipsychotics presented a significant increase in prolactin levels
relative to subjects receiving a placebo. (Male: 16.53 with 95% CI: 6.15-26.92; Female: 26.97 with
95% CI: 9.18-44.75). The four studies using risperidone had similar findings (Male: 26.49 with 95%
CI: 17.55-35.43; Female: 37.72 with 95% CI: 9.41-66.03). In the direct comparison between sexes,
females showed greater increases in prolactin, but the differences were not statistically significant.

Conclusion:
Serum prolactin levels are increased in children and adolescents of both sexes on antipsychotics,
with females showing a slightly greater increase than males. Further research is needed to
clarify the influence of sex and pubertal status on prolactin levels in children and adolescents taking
antipsychotics.
Identification of a New HIV-1 Circulating Recombinant Form
CRF112_01B Strain in Baoding City, Hebei Province, China
Authors: Shi Penghui , Wang Hao , Zhao Xuanhe , Su Miaomiao , Meng Juan , Fan Weiguang 
Published: October 2022

Background:
A large number of HIV-1 recombinants that originated from CRF01_AE
and B strains are constantly emerging in men who have sex with men populations in China and deserve
more attention and further monitoring.

Objective:
To analyze the near-full-length genome structure and recombination characteristics of a
new HIV-1 strain (BD226AJ) detected in Baoding City and determine its subtype.

Case Representation:
Viral RNA was extracted from a blood sample collected from an infected
individual and reverse transcribed to cDNA. Two overlapping segments of the HIV-1 genome were
amplified using a near-endpoint dilution method and sequenced. Recombinant breakpoints were
determined using RIP, jpHMM, and SimPlot 3.5.1 software. MEGA v6.0 was used to construct a
neighbor-joining phylogenetic tree to determine the homology relationships of this strain.

Results and Discussion:
We obtained 8830 nucleotides (nt) of the HIV-1 genome sequence by amplification
and sequencing, and four recombinant fragments were identified by recombination analysis,
namely CRF01_AE (HXB2, 823–4224 nt), subtype B (HXB2, 4225–5991 nt), CRF01_AE
(HXB2, 5992–9295 nt), and subtype B (HXB2, 9296–9406 nt). The BLAST results showed that
96% of the sequence was similar to CRF112_01B. The jpHMM results confirmed that BD226AJ
was the CRF112_01B strain.

Conclusion:
Our results confirm the first epidemic of CRF112_01B in Hebei Province. This finding
suggests that HIV-1 CRF112_01B may have been introduced into Hebei by men who have sex with
men and indicates that the epidemic trend of this strain should be closely monitored.