bluuebunny/crossref_metadata_2025_split huggingface dataset:
Multiple epigenetic factors co-localize with HMGN proteins in A-compartment chromatin
Authors: He Bing , Zhu Iris , Postnikov Yuri , Furusawa Takashi , Jenkins Lisa , Nanduri Ravikanth , Bustin Michael , Landsman David 
Published: June 2022

Abstract
Background
Nucleosomal binding proteins, HMGN, is a family of chromatin architectural proteins that are expressed in all vertebrate nuclei. Although previous studies have discovered that HMGN proteins have important roles in gene regulation and chromatin accessibility, whether and how HMGN proteins affect higher order chromatin status remains unknown.

Results
We examined the roles that HMGN1 and HMGN2 proteins play in higher order chromatin structures in three different cell types. We interrogated data generated in situ, using several techniques, including Hi–C, Promoter Capture Hi–C, ChIP-seq, and ChIP–MS. Our results show that HMGN proteins occupy the A compartment in the 3D nucleus space. In particular, HMGN proteins occupy genomic regions involved in cell-type-specific long-range promoter–enhancer interactions. Interestingly, depletion of HMGN proteins in the three different cell types does not cause structural changes in higher order chromatin, i.e., in topologically associated domains (TADs) and in A/B compartment scores. Using ChIP-seq combined with mass spectrometry, we discovered protein partners that are directly associated with or neighbors of HMGNs on nucleosomes.

Conclusions
We determined how HMGN chromatin architectural proteins are positioned within a 3D nucleus space, including the identification of their binding partners in mononucleosomes. Our research indicates that HMGN proteins localize to active chromatin compartments but do not have major effects on 3D higher order chromatin structure and that their binding to chromatin is not dependent on specific protein partners.
Targeting ferroptosis with miR-144-3p to attenuate pancreatic β cells dysfunction via regulating USP22/SIRT1 in type 2 diabetes
Authors: Zhang Shanshan , Liu Xiao , Wang Jihong , Yuan Fengjuan , Liu Yali 
Published: June 2022

Abstract
Background
Recently, ferroptosis has been implicated in the pathologic process of several diseases including type 2 diabetes mellitus (T2DM). However, molecular mechanisms underlying ferroptosis in T2DM remain obscure.

Methods
Twenty four mice were included in this study. T2DM model mice were established by a high-fat diet combined with streptozotocin injection. INS-1 cells were stimulated with high glucose (HG). Cell viability was detected by CCK-8 kit. The levels of GSH, MDA, iron, and lipid ROS, and SOD activity, were detected by the corresponding kits. The interaction between miR-144-3p and USP22 was validated by dual-luciferase reporter assay. The relationship between USP22 and its substrate was verified using Co-IP and ubiquitination assays. The mRNA and protein expressions were examined by RT-qPCR and western blot, respectively. The functions of β cells in vitro and in vivo were evaluated glucose-stimulated insulin secretion test and HOMA-β, respectively.

Results
Ferroptosis occurred in the pancreas of T2DM mice and HG-induced INS-1 cells. Silencing miR-144-3p blocked the effect of HG on the cell viability and accumulation of lipid peroxides, thereby improving the insulin secretion in INS-1 cells. Mechanistically, USP22 is a direct target of miR-144-3p, which could stabilize SIRT1 expression, thereby suppressing ferroptosis. Overexpressing USP22 attenuated deleterious roles of HG in INS-1 cells; but its roles were reversed by up-regulating miR-144-3p. In vivo study demonstrated that miR-144-3p antagomir exerted an anti-hyperglycemic effect and regulated the ferroptosis-related proteins in the pancreas.

Conclusion
The up-regulation of miR-144-3p suppressed USP22/SIRT1 to induce ferroptosis, which causes pancreatic β cells dysfunction, thereby promoting T2DM development.
Income disparities in driving distance to health care infrastructure in the United States: a geographic information systems analysis
Authors: Guo Jingchuan , Hernandez Inmaculada , Dickson Sean , Tang Shangbin , Essien Utibe R. , Mair Christina , Berenbrok Lucas A. 
Published: June 2022

Abstract
Objective
Inequities in access to health care contribute to persisting disparities in health care outcomes. We constructed a geographic information systems analysis to test the association between income and access to the existing health care infrastructure in a nationally representative sample of US residents. Using income and household size data, we calculated the odds ratio of having a distance > 10 miles in nonmetropolitan counties or > 1 mile in metropolitan counties to the closest facility for low-income residents (i.e., < 200% Federal Poverty Level), compared to non-low-income residents.

Results
We identified that in 954 counties (207 metropolitan counties and 747 nonmetropolitan counties) representing over 14% of the US population, low-income residents have poorer access to health care facilities. Our analyses demonstrate the high prevalence of structural disparities in health care access across the entire US, which contribute to the perpetuation of disparities in health care outcomes.
Kimura disease with Allergic Bronchopulmonary Aspergillosis: a case report
Authors: Fan Ruiyun , Xu Guopeng , Chen Ying , Lv Jinghuan , Zhang Zhongwei 
Published: June 2022

Abstract
Background
Kimura disease (KD) is a rare chronic idiopathic condition of unknown etiology that is prevalent in Asian males. It often causes subcutaneous lumps and enlarged lymph nodes, especially in head and neck region. But KD is also a systemic disease that can involve multiple organs, such as the kidneys and skin.

Case presentation
We report a 62-year-old Chinese man who presented with paroxysmal cough, enlarged inguinal lymph nodes, recurrent skin itching, and elevated IgE antibodies specific to A. fumigatus. After a comprehensive review, the final diagnosis for this patient was KD with Allergic Bronchopulmonary Aspergillosis (ABPA).

Conclusions
The age of onset and the location of the lump involved were not characteristic for the illness. This case report described the patient’s diagnosis and treatment process. This case report serves to arouse the attention of multidisciplinary team to explore the potential relationship between KD and ABPA. It will contribute to preventing the misdiagnosis and missed diagnosis of KD.
Prognostic impact of an integrative analysis of [18F]FDG PET parameters and infiltrating immune cell scores in lung adenocarcinoma
Authors: Choi Jinyeong , Sarker Azmal , Choi Hongyoon , Lee Dong Soo , Im Hyung-Jun 
Published: June 2022

Abstract
Background
High levels of 18F-fluorodeoxyglucose (18F-FDG) tumor uptake are associated with worse prognosis in patients with non-small cell lung cancer (NSCLC). Meanwhile, high levels of immune cell infiltration in primary tumor have been linked to better prognosis in NSCLC. We conducted this study for precisely stratified prognosis of the lung adenocarcinoma patients using the integration of 18F-FDG positron emission tomography (PET) parameters and infiltrating immune cell scores as assessed by a genomic analysis.

Results
Using an RNA sequencing dataset, the patients were divided into three subtype groups. Additionally, 24 different immune cell scores and cytolytic scores (CYT) were obtained. In 18F-FDG PET scans, PET parameters of the primary tumors were obtained. An ANOVA test, a Chi-square test and a correlation analysis were also conducted. A Kaplan–Meier survival analysis with the log-rank test and multivariable Cox regression test was performed to evaluate prognostic values of the parameters. The terminal respiratory unit (TRU) group demonstrated lower 18F-FDG PET parameters, more females, and lower stages than the other groups. Meanwhile, the proximal inflammatory (PI) group showed a significantly higher CYT score compared to the other groups (P = .001). Also, CYT showed a positive correlation with tumor-to-liver maximum standardized uptake value ratio (TLR) in the PI group (P = .027). A high TLR (P = .01) score of 18F-FDG PET parameters and a high T follicular helper cell (TFH) score (P = .005) of immune cell scores were associated with prognosis with opposite tendencies. Furthermore, TLR and TFH were predictive of overall survival even after adjusting for clinicopathologic features and others (P = .024 and .047).

Conclusions
A high TLR score was found to be associated with worse prognosis, while high CD8 T cell and TFH scores predicted better prognosis in lung adenocarcinoma. Furthermore, TLR and TFH can be used to predict prognosis independently in patients with lung adenocarcinoma.
Bacterial community structure and bacterial isolates having antimicrobial potential in shrimp pond aquaculture
Authors: Ali Sardar , Xie Jianmin , Zada Sahib , Hu Zhong , Zhang Yueling , Cai Runlin , Wang Hui 
Published: June 2022

AbstractDiseases outbreaks in pond aquaculture have resulted in huge losses to the aquaculture industry. The emergence of non-antimicrobial and environment friendly agents (probiotics) is the potential consideration for the healthy shrimp aquaculture. The present study was aimed to compare the bacterial community compositions in shrimp ponds and surrounding seawater, as well as isolate probiotic bacteria from the shrimp ponds. Based on the high-throughput of 16S rRNA gene sequencing, all sequences were assigned to 3584 unique operational taxonomic units (OTUs) at 97% similarity levels, which were affiliated with 24 phyla, 54 classes, 235 families, and 367 genera. The 10 most abundant phyla were Bacteroidota, Proteobacteria, Actinobacteriota, Planctomycetota, Cyanobacteria, Chloroflexi, Firmicutes, Desulfobacterota, Patescibacteria and Verrucomicrobiota. Notably, the alpha diversity (Shannon diversity) of shrimp ponds was significantly differences (P < 0.05) with that of surrounding seawater. There were 2498 and 791 unique OTUs in shrimp ponds and surrounding seawater, respectively. A total of 15 isolates were obtained in the culturable bacterial diversity, and the antibacterial activities were recorded for potential probiotic bacterial isolates against different tested bacterial isolates including pathogenic bacteria. An isolate Hallobacillusmarinus HMALI004 showed strong inhibitory effects against three pathogenic bacteria, Vibrio cholerae CECT 514, non AHPND V. parahaemolyticus BCRC12959 and AHPND V. parahaemolyticus PD-2. The isolates Algophigussanaruensis AGALI005, Algoriphagus taiwanensis ATALI009 and Bacillusaequororis BAALI008 were also identified as potential probiotics strains.
Hybrid intrusion detection system using blockchain framework
Authors: Khonde S. R. , Ulagamuthalvi V. 
Published: June 2022

AbstractData security and confidentiality are major goals now days due to the extensive use of the internet for data sharing. In modern era, most of the networks are compromised by intruders to grab access to private, confidential, and highly secured data. An intrusion detection system (IDS) is widely used to secure the network from getting compromised by intruders. Most of the IDS share the signatures of the novel attacks detected by anomaly approach for improving the detection rate and processing time. Security of signature shared by nodes is becoming a considerable problem. This paper presents a novel framework blockchain based hybrid intrusion detection system (BC-HyIDS), which uses the blockchain framework for exchanging signatures from one node to the other in distributed IDS. BC-HyIDS works in three phases where it uses both detection methods and blockchain in the third phase to provide security to data transferred through the network. This system makes use of a cryptosystem to encrypt the data stored in blocks to improve security one level higher. Hyperledger fabric v2.0 and Hyperledger sawtooth is used to implement system. Blockchain framework is created as a prototype using distributed ledger technology which helps in securing signature exchange. Performance of BC-HyIDS is evaluated in terms of accuracy, detection rate, and false alarm rate. From results, it is observed that a 2.8% increase in accuracy, 4.3% increase in detection rate, and a reduction of 2.6% in FAR is achieved. Blockchain performance is evaluated using Hyperledger fabric v2.0 and Hyperledger sawtooth on throughput, processing time, and average latency. BC-HyIDS shows improved performance when used with blockchain.
Targeting metabolic reprogramming in chronic lymphocytic leukemia
Authors: Nie Yu , Yun Xiaoya , Zhang Ya , Wang Xin 
Published: June 2022

AbstractMetabolic reprogramming, fundamentally pivotal in carcinogenesis and progression of cancer, is considered as a promising therapeutic target against tumors. In chronic lymphocytic leukemia (CLL) cells, metabolic abnormalities mediate alternations in proliferation and survival compared with normal B cells. However, the role of metabolic reprogramming is still under investigation in CLL. In this review, the critical metabolic processes of CLL were summarized, particularly glycolysis, lipid metabolism and oxidative phosphorylation. The effects of T cells and stromal cells in the microenvironment on metabolism of CLL were also elucidated. Besides, the metabolic alternation is regulated by some oncogenes and tumor suppressor regulators, especially TP53, MYC and ATM. Thus, the agents targeting metabolic enzymes or signal pathways may impede the progression of CLL. Both the inhibitor of 3-hydroxy-3-methylglutaryl coenzyme A reductase (HMGCR) statins and the lipoprotein lipase inhibitor orlistat induce the apoptosis of CLL cells. In addition, a series of oxidative phosphorylation inhibitors play important roles in decreasing the proliferation of CLL cells. We epitomized recent advancements in metabolic reprogramming in CLL and discussed their clinical potentiality for innovative therapy options. Metabolic reprogramming plays a vital role in the initiation and progression of CLL. Therapeutic approaches targeting metabolism have their advantages in improving the survival of CLL patients. This review may shed novel light on the metabolism of CLL, leading to the development of targeted agents based on the reshaping metabolism of CLL cells.
Anti-bacterial and anti-inflammatory activities of lactic acid bacteria-bioconversioned indica rice (Oryza sativa L.) extract
Authors: Kwon Hyuk-Ju , Ahn Hyunwoo , Kim Bong Sun , Kang Seok-Seong , Lee Kwang-Geun 
Published: June 2022

Abstract
Background
In this study, indica rice (Oryza sativa L.) was bioconversioned using Lactobacillus plantarum ATCC14917 and Lactobacillus rhamnosus GG KCTC5033.

Results
Compared to the control treatment (RE), rice extract fermented with Lactobacillus plantarum ATCC14917 (LP-RE) and Lactobacillus rhamnosus GG KCTC5033 (LR-RE) inhibited the growth of pathogenic bacteria significantly except for E. coli O157:H7 (p < 0.05). The LR-RE treatment had the strongest inhibitory effect on Staphylococcus aureus biofilm formation (10.81 ± 1.98%). Additionally, real-time PCR analyses confirmed that LP-RE inhibited S. aureus-induced IL-8 expression in Caco-2 cells by 60%. HPLC-orbitrap analysis indicated that this treatment increased the levels of key metabolites with therapeutic properties such as acetophenone, 9-oxo-10(E), 12(E)-octadecadienoic acid, nicotinic acid, and indol-3-lactic acid.

Conclusions
This study demonstrated that the secondary metabolites were linked to antibacterial and anti-inflammatory effects, suggesting that bioconversion is a promising means to produce dietary supplements with therapeutic properties.

Graphical Abstract
Efficient emotion recognition using hyperdimensional computing with combinatorial channel encoding and cellular automata
Authors: Menon Alisha , Natarajan Anirudh , Agashe Reva , Sun Daniel , Aristio Melvin , Liew Harrison , Shao Yakun Sophia , Rabaey Jan M. 
Published: June 2022

AbstractIn this paper, a hardware-optimized approach to emotion recognition based on the efficient brain-inspired hyperdimensional computing (HDC) paradigm is proposed. Emotion recognition provides valuable information for human–computer interactions; however, the large number of input channels (> 200) and modalities (> 3 ) involved in emotion recognition are significantly expensive from a memory perspective. To address this, methods for memory reduction and optimization are proposed, including a novel approach that takes advantage of the combinatorial nature of the encoding process, and an elementary cellular automaton. HDC with early sensor fusion is implemented alongside the proposed techniques achieving two-class multi-modal classification accuracies of > 76% for valence and > 73% for arousal on the multi-modal AMIGOS and DEAP data sets, almost always better than state of the art. The required vector storage is seamlessly reduced by 98% and the frequency of vector requests by at least 1/5. The results demonstrate the potential of efficient hyperdimensional computing for low-power, multi-channeled emotion recognition tasks.
How sign language expertise can influence the effects of face masks on non-linguistic characteristics
Authors: Lau Wee Kiat , Chalupny Jana , Grote Klaudia , Huckauf Anke 
Published: June 2022

AbstractFace masks occlude parts of the face which hinders social communication and emotion recognition. Since sign language users are known to process facial information not only perceptually but also linguistically, examining face processing in deaf signers may reveal how linguistic aspects add to perceptual information. In general, signers could be born deaf or acquire hearing loss later in life. For this study, we focused on signers who were born deaf. Specifically, we analyzed data from a sample of 59 signers who were born deaf and investigated the impacts of face masks on non-linguistic characteristics of the face. Signers rated still-image faces with and without face masks for the following characteristics: arousal and valence of three facial expressions (happy, neutral, sad), invariant characteristics (DV:sex, age), and trait-like characteristics (attractiveness, trustworthiness, approachability). Results indicated that, when compared to masked faces, signers rated no-masked faces with stronger valence intensity across all expressions. Masked faces also appeared older, albeit a tendency to look more approachable. This experiment was a repeat of a previous study conducted on hearing participants, and a post hoc comparison was performed to assess rating differences between signers and hearing people. From this comparison, signers exhibited a larger tendency to rate facial expressions more intensely than hearing people. This suggests that deaf people perceive more intense information from facial expressions and face masks are more inhibiting for deaf people than hearing people. We speculate that deaf people found face masks more approachable due to societal norms when interacting with people wearing masks. Other factors like age and face database’s legitimacy are discussed.
The development, paradigm and academic values of enterprise anthropology—the “fourth revolution” of anthropology
Authors: Wang Zhuo 
Published: June 2022

AbstractAs an emerging interdisciplinary field in anthropology, enterprise anthropology (EA) has experienced five historical stages of development since its inception in the 1930s. 2008 marked the first year of internationalized enterprise anthropology, thus prompting the “fourth revolution” of anthropology. Since then, the sub-discipline of enterprise anthropology has entered its fifth stage of development. This stage of enterprise anthropology has witnessed new research subjects, concepts, and theories. Breakthroughs have been made in theoretical research and methodological innovation, and a unique paradigm has been established. In terms of discipline and era, the fifth stage is characterized by: innovative transformation and creative development, integration of Chinese and Western channels for anthropology research, building of international academic networks, and the practice of “people-centered” research. As a result, this stage of enterprise anthropology holds profound theoretical and practical significance for interdisciplinary and academic equity, new ideas and methods for studying the transformation of Chinese society, and establishment of an internationalized research paradigm for the Chinese academic community.
Computational evaluation of bioactive compounds from Vitis vinifera as a novel β-catenin inhibitor for cancer treatment
Authors: Adebesin Ayomide Oluwadarasimi , Ayodele Abigail Oluwakemi , Omotoso Olabode , Akinnusi Precious Ayorinde , Olubode Samuel Olawale 
Published: June 2022

Abstract
Background
β-catenin is an important unit of the Wnt/β-catenin signaling pathway, a conserved process involving several physiological activities, encompassing differentiation and cell proliferation, etc. The dysfunction or mutation in β-catenin causing the initiation and advancement of various neoplasm types, including colorectal cancer, breast cancer, etc., has been reported. Therefore, β-catenin is a therapeutic target. Hence, designing new inhibitors targeted against β-catenin will prevent cancerous cells’ involvement and eliminate the diseases. Studies showed that Vitis vinifera, a well-known grape species, contains different phytochemical substances, including aromatic acids, flavonoids, phenolic compounds, proanthocyanins, etc. V.vinifera exerts different anticancer properties such as apoptosis, cell proliferation, cell cycle arrest, and inhibition in cancerous cells. Structural bioinformatics methods, including molecular docking, molecular mechanics generalized Born surface area (MM/GBSA), absorption, distribution, metabolism, excretion studies (ADMET), and pharmacophore modeling approach, were used to determine the potential β-catenin inhibitors from V.vinifera bioactive compounds.

Result
Cis-astringin, rutin, caftaric acid, trans-caftaric acid, procyanidin B3, cis-Miyabenol C, and ampelopsin H are shown to be suitable inhibitors against β-catenin due to their binding affinity and interaction with the amino acids residues at the binding sites of β-catenin compared to Food and Drug Administration (FDA) approved drugs leucovorin Calcium and Xeloda prescribed to cure colorectal cancer.

Conclusions
This study suggests that V. vinifera could be a good plant source for compounds that might treat cancer by inhibiting the Wnt/β-catenin signaling pathway.