bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of Cross-Cancer Biomarkers: COMP mRNA and CARMN/GSEC lncRNAs Shared in Breast, Gastric, and Colorectal Cancers via Integrated Systems Biology and Experimental Validation
Authors: Askari Mohammadjavad , Hodaeian Ali , Hesami Saba , Mohammadipour Bita , Rahimi Mohammad Amin , Zamani Mehran , Izadi Fatemeh , Rezaei Mohammad , Shirdeli Sayedeh Zahra , Azadeh Mansoureh 
Published: February 2025

Abstract

Background
Advances in high-throughput genomic technologies have illuminated the significant role of non-coding RNAs (ncRNAs), which constitute 98% of the genome. Among these, long non-coding RNAs (lncRNAs) play crucial roles in gene regulation and cancer progression. COMP, a cartilage oligomeric matrix protein, and lncRNAs CARMN and GSEC are implicated in breast, gastric, and colorectal cancers. These molecules influence tumor progression through extracellular matrix (ECM) remodeling and key signaling pathways such as Notch3/Jagged1, PI3K/AKT, TGF-β, and ECM organization signaling. Despite advancements in cancer therapies, diagnostic and prognostic challenges persist, necessitating the identification of robust biomarkers.
Materials and Methods
Gene expression data from GEO and TCGA datasets were analyzed to identify differentially expressed genes. Functional enrichment and pathway analyses highlighted key roles in ECM organization and associated signaling pathways. Protein-protein interaction (PPI) and competing endogenous RNA (ceRNA) networks were constructed to elucidate molecular interactions. Experimental validation included RNA extraction and qRT-PCR of 120 matched cancerous and normal tissues, followed by statistical evaluations, including ROC-AUC and survival analyses.
Results
COMP and GSEC were significantly up-regulated, while CARMN was down-regulated in breast and gastric cancer tissues and up-regulated in colorectal cancer. Functional enrichment revealed their involvement in ECM organization and tumor-promoting pathways. COMP exhibited excellent diagnostic potential with ROC-AUC values exceeding 0.9. Survival analysis associated CARMN expression with improved outcomes in gastric and colorectal cancers. Correlation analyses highlighted regulatory interactions among the biomarkers and their involvement in cancer-related signaling cascades.
Conclusion
COMP, CARMN, and GSEC are promising biomarkers for diagnosing and predicting outcomes in breast, gastric, and colorectal cancers. Their roles in ECM remodeling and signaling pathways underscore their potential as therapeutic targets and diagnostic tools, warranting further exploration of their molecular mechanisms.
Assessing the restoration criteria for an urban ‘canal daylighting’: the context of Begunbari Canal, Dhaka, Bangladesh
Authors: Fatemi Md. Nawrose , Rahman Tahmina , Shawpnil S. M. Ehsan Ul Haque , Ahmed Iftekhar Uddin 
Published: February 2025

ABSTRACT
Due to the rapid urbanization and expansion of cities, many urban waters, such as canals and streams, have disappeared from the surface in metropolitan areas like Dhaka. Identifying the potential socioeconomic and ecological value of these long-lost urban waters, particularly to ensure urban resilience, efforts to restore these streams are being emphasized as a prevalent practice in green-blue infrastructure design. The Begunbari Canal was strategically interconnected to the eastern fringe, central, and western parts of Dhaka and served as a crucial outlet for drainage and stormwater, making it geographically and environmentally vital for the city. This study intends to restore the Begunbari Canal of Central Dhaka by de-culverting it and to assess the restoration criteria for this particular ‘canal daylighting’ initiative. It has been conducted as a mixed-method research approach through historical and contextual analysis, map regression, thematic analysis, experts' opinions, transect walks, and photographic documentation to explore the criteria and possibilities for resurfacing the Begunbari Canal. Findings reveal the possibilities of resurrecting the forgotten presence of this buried canal, indicating a set of guidelines for its resurfacing. These insights will benefit policymakers, urban planners, urban designers, and local citizens to regenerate a green-blue network for interconnectivity and communication.
Multi-tiered strategy for large-scale wastewater detection of SARS-CoV-2 in low-case settings provides confidence for public health actions
Authors: Jex Aaron , John Nijoy , McCarthy David , Myers Steven , Begue Natacha , Schang Christelle , Usher Shane P. , Baker Louise , Kaucner Christine , Monis Paul , Hartman Leon M. , Flynn Brianna , Merrett James E. , Lister David , Herold Marco , Kueh Andrew , Cheng Ngai Ning , Nolan Jackson , Caly Leon , Druce Julian , Thorley Bruce , Scales Peter J. , Schmidt Jonathan , Sarkis Suzie , Crosbie Nicholas D. , Poon Rachael , Nolan Monica 
Published: February 2025

ABSTRACT

Wastewater surveillance has played a pivotal role in monitoring SARS-CoV-2 transmission worldwide. However, developing and implementing the methods underpinning these programmes in regions with prolonged periods of low community transmission has proven challenging. In Victoria, Australia, wastewater surveillance provided early warning of unknown community infections and informed timely public health decisions to limit their spread when case numbers were low. To achieve this, we developed a methodological approach sensitive to extremely low viral loads and could readily identify false positives within short turnaround times. Here, we describe the successful development, implementation, and evaluation of analytic methods using Reverse Transcriptase Quantitative Polymerase Chain Reaction (RT-qPCR) and amplicon sequencing in tandem with CRISPR DETECTR in an ongoing, large-scale surveillance programme to detect SARS-CoV-2 in wastewater in Victoria, Australia. Our study covers ten months, from July 2020 to April 2021, and includes all state-wide health districts and prolonged periods with no known, active community cases among the ∼6.7 million population.
Z-scheme heterojunction BiOBr/MIL-100(Fe) visible photocatalytic-permonosulfate degradation of AO7
Authors: Liu Xin , Cheng Xianxiong , Lian Junfeng , Tang Jiahua , Wang Rui 
Published: February 2025

ABSTRACT

Metal–organic frameworks (MOFs) have garnered significant interest in the field of photocatalysis. In this study, Z-scheme heterojunction BM-x composites consisting of bismuth bromide oxide (BiOBr) and iron-based metal–organic backbone (MIL-100(Fe)) were successfully synthesized using ethylene glycol as a solvent. The composites were characterized using various techniques. BM-x exhibit abundant functional groups, large specific surface areas, and narrow band gap energy, thus provide numerous active sites for catalytic reactions and respond well to visible light. Notably, BM-7 displays remarkable catalytic activity in a visible light-activated permonosulfate (PMS) system and achieves a degradation rate of 99.02% over 100 mg/L gold orange II (AO7) within 60 min. The effects of BM-7 and PMS addition, initial AO7 concentration, initial pH, inorganic anions, and humic acid on the degradation system were investigated. The proposed mechanism of the Z-scheme heterojunction in the BM-7 photocatalyst demonstrates effective photoelectron transfer from the BiOBr conduction band to the MIL-100(Fe) valence band, resulting in excellent catalytic activity. Radical burst experiments identified 1O2, h+, and ·O2− as the main active substances. BM-7 has high stability and reusability, with a degradation rate reduction of only 14.48% after three recycles. These findings provide valuable insights into using persulfate combined with visible light.
An Untold Story of Ionic Liquid for the Isatin Derivative Synthesis
Authors: Sharma Shubham , Vaishali  , Pandey Aaysha , Rani Swati , Sharma Pooja , Mishra Kaushiki , Kumar Akash , Kumar Himansh , Dhyani Archana 
Published: February 2025

Abstract:
Due of its unique features and environmental benefits, green synthesis is attracting researchers
worldwide. To expand the uses of ionic liquids (ILs) in green chemistry, particularly as environmentally friendly
solvents and catalysts, researchers are investigating novel methods to ILs and improving their characteristics.
Due to its exceptional properties, ILs have been widely utilized as a green catalyst and solvent system in the
synthesis of valuable heterocyclic compounds. Aza-heterocycle isatin derivatives are regarded for their versatility
in drug development and medicinal research. Organic chemists have developed isatin-based frameworks
employing ILs as solvents and catalysts aligning with one of the main goals of green synthesis, maximize synthetic
efficiency while reducing environmental effects. This review provides a comprehensive summarization of
reports related to the IL-assisted isatin derivative synthesis.
Study on the Mechanism of the Leaves of Dimocarpus longan Lour. in the Management of Type 2 Diabetes based on Metabolomics
Authors: Liang Jie , zheng Piaoxue , Hu Jue , Liu Xianfu , Chen Kuikui , Cao Yupin , Liang Yanli , Lu Chunlian , Xie Jingjing , Ma Yuming , Peng Jiawen , Qin Zujie 
Published: February 2025

Background:
Diabetes mellitus (DM) is a chronic metabolic disease. The leaves of
Dimocarpus longan Lour. (LYY), a well-known traditional Chinese medicine (TCM) with
Guangxi national characteristics often used in simple recipes to treat DM has attracted increasing
attention. In this study, we investigated the therapeutic effects of LYY in diabetic rats from a
metabolomic perspective.

Methods:
The type 2 diabetes (T2DM) rat model was induced by a high-sugar and high-fat diet
(HSFD) combined with 40 mg/kg streptozotocin (STZ). After oral administration of LYY (10.7
g/kg) for 28 d, their weight, fasted blood glucose (FBG), blood lipid levels, and inflammatory
factors were assessed. The feces, urine, and serum samples of the rats were collected, and proton
nuclear magnetic resonance (1H-NMR) technology was used to explore the changes in the sample's
metabolism spectrum and analyze the relevant targeted metabolic pathways.

Results:
Compared with the diabetes group, LYY rats significantly delayed the reduction of body
weight and decreased the FBG level (P <0.01); the levels of total cholesterol (TC), triglycerides
(TG), and low-density lipoprotein-cholesterol (LDL-C), IL-6, and TNF-α in serum significantly reduced
(P < 0.05, 0.01), and the level of high-density lipoprotein-cholesterol (HDL-C) significantly
increased (P < 0.01). 2 candidate biomarkers were identified from feces samples, and 4 associated
metabolic pathways were discovered. 13 potential biomarkers were screened from urine samples,
leading to the identification of 16 related metabolic pathways. Similarly, 5 potential biomarkers
were screened from serum samples, and 11 related metabolic pathways were found.

Conclusion:
LYY can regulate the metabolic disorder caused by T2DM by regulating amino acid
metabolism, amino acid synthesis, and tricarboxylic acid cycle, which provides a specific reference
for the clinical treatment of T2DM.
Visualization Analysis of Tau Protein in the Brain of Alzheimer’s Disease: A Scoping Literature Review
Authors: Zhang Dan-qi , Yang Xu , Niu Han-bin , Sun Xu-chen , Cao Dan-na , Li Ang , Yue Jin-huan , Li Xiao-ling , Zhang Qin-hong 
Published: February 2025

Introduction:
This study analyzed the current status, hotspots, and development trends
of tau protein research in Alzheimer’s disease (AD) and to provide a reference for future research
in this field. CiteSpace software was used to scientifically measure and visualize the relevant articles
in the field of tau protein in AD brain from the Web of Science Core Collection database
from 1991 to 2022.

Methods:
A total of 568 articles were included, with an exponential growth in the number of articles
published from 1991 to 2022, with an average of 17.8 articles per year. The United States is
the most productive country in this field, accounting for 46.83% of the total literature. The New
York State Institute for Basic Research is the most productive organization, followed by MRC
Laboratory Molecular Biology in the UK. The most influential are Kings College London, University
of California, San Francisco, and others. Iqbal K is the most productive author.

Results:
The most productive journal is the Journal of Biological Chemistry, and the journal with
the highest impact factor is Acta Neuropathologica. The journal with the highest cumulative impact
factor is Nature. The research hotspots mainly focus on the formation and degradation mechanisms
of tau protein paired helical filaments and abnormal phosphorylation, AD neurofibrillary
tangles and degenerative changes, and model research, mainly involving tau protein abnormal
phosphorylation, phosphorylation sites, dephosphorylation, aggregate helical filaments, neurofibrillary
tangles mouse models.

Conclusion:
The research frontier trends mainly focus on the study of pathological changes in tau
protein, intervention mechanisms, and the development and practice of clinical therapeutic drugs.
Artificial Intelligence in the Heart of Medicine: Transforming Arrhythmia Care with Intelligent Systems
Authors: Hamad Adel Khalifa Sultan , Haji Jassim 
Published: February 2025

Background:
At a critical juncture in the ongoing fight against cardiovascular disease
(CVD), healthcare professionals are striving for more informed and expedited decisionmaking.
Artificial Intelligence (AI) promises to be a guiding light in this endeavor. The diagnosis
of coronary artery disease has now become non-invasive and convenient, while wearable
devices excel at promptly detecting life-threatening arrhythmias and treatments for heart failure.

Objective:
This study aimed to highlight the applications of AI in cardiology with a particular
focus on arrhythmias and its potential impact on healthcare for all through careful implementation
and constant research efforts.

Methods:
An extensive search strategy was implemented. The search was conducted in renowned
electronic medical databases, including Medline, PubMed, Cochrane Library, and
Google Scholar. Artificial Intelligence, cardiovascular diseases, arrhythmias, machine learning,
and convolutional neural networks in cardiology were used as keywords for the search strategy.

Results:
A total of 6876 records were retrieved from different electronic databases. Duplicates
(N = 1356) were removed, resulting in 5520 records for screening. Based on predefined inclusion
and exclusion criteria, 4683 articles were excluded. Following the full-text screening of the
remaining 837 articles, a further 637 were excluded. Ultimately, 200 studies were included in
this review.

Conclusion:
AI represents not just a development but a cutting-edge force propelling the next
evolution of cardiology. With its capacity to make precise predictions, facilitate non-invasive
diagnosis, and personalize therapies, AI holds the potential to save lives and enhance healthcare
quality on a global scale.
Design, Synthesis, and Molecular Docking Studies of Indolo[3,2-c]Quinolines as Topoisomerase Inhibitors
Authors: Badr Mohamed , Elmongy Elshaymaa I. , Sayed Ibrahim El Tantawy El , Moemen Yasmine S. , Khalil Ashraf , Elkhateeb Doaa , Binsuwaidan Reem , Ali Hadeer 
Published: February 2025

Background:
The tetracyclic indoloquinoline ring system has attracted considerable interest in the
recent past due to its broad spectrum of biological activities and its binding to various types of nucleic acids.

Objective:
This study aims to elucidate their interactions with DNA and their effects on topoisomerases (TOPO) I
and II.

Methods:
Several compounds derived from 6-amino-11H-indolo[3,2-c]quinoline with diverse groups on the
quinoline ring have been successfully synthesized according to a previously established protocol where all the
synthesized indolo[3,2-c]quinoline derivatives were evaluated in vitro against A549, HCT-116, BALB/3T3, and
MV4-11 cell lines using MTT (3-[4,5- dimethylthiazol-2-yl]-2,5-diphenyl- tetrazolium bromide) assay. These
derivatives were then screened for their topo I and II inhibitory activities.

Results:
The tested compounds were more effective at killing MV4-11 leukemia cells than the standard cancer
drug cisplatin, as shown by the fact that their IC50 values were less than 0.9 μM. On the other hand, cisplatin
revealed an IC50 value of 2.36 μM. Moreover, they exhibited inhibitory activity against both Topoisomerase
(Topo) I and II. The most potent compound, 5g, demonstrated a suppressive impact on topoisomerase I, with an
IC50 value of 2.9 μM compared to the positive control Camptothecin (IC50 1.64 μM) and compound 8 displayed
remarkable topoisomerase II inhibitory activity with an IC50 of 6.82 μM compared to the positive control Doxorubicin
(IC50 6.49 μM). The cell cycle study for compounds 5g and 8 revealed that cell cycle arrest occurred at the
G1/S and S phases, respectively. Compounds 5g and 8 showed a high selectivity index, which suggests that they
could be used to develop low-toxicity chemotherapeutic agents.

Conclusion:
The results of this study demonstrate that compounds 5g and 8 can be considered promising candidates
for further anti-cancer drug development, which might be related to inhibiting TOPO I and TOPO II activities.
Variation in Rates of Neonatal Opioid Withdrawal Syndrome and Opioid-related Hospitalizations in New York State, 2018
Authors: Goldberg Benjamin , Hahn Phillip D. , Ozonoff Al , Milliren Carly E. 
Published: February 2025

Background and Objective
Rates of neonatal opioid withdrawal syndrome (NOWS) among infants and opioid-related hospitalizations among adults have increased in recent decades. We examined rates of NOWS births and opioid-related hospitalizations among adult females of childbearing age overall and by sociodemographic and geographic factors using hospitalization data.

Methods
We used data from the New York State Inpatient Database for 2018 from the Healthcare Cost and Utilization Project. We identified infants with NOWS and opioid-related hospitalizations using diagnosis codes and calculated rates of NOWS per 1,000 live births and opioid-related hospitalizations per 1,000 hospitalizations among females of childbearing age. We compared rates by geographic and sociodemographic factors and examined the correlation between county-level rates.

Results
The NOWS rate was 4.66 per 1,000 live births, while the rate of opioid-related hospitalizations was 36.6 per 1,000 hospitalizations. There was variation by county and sociodemographic factors including urban-rural classification, race and ethnicity, insurance payer, and median income. We found the highest rates for both NOWS and opioid-related hospitalizations in non-metropolitan areas, among patients with public insurance, and among non-Hispanic White or Native American populations. There was a significant linear correlation (r=0.28; p=0.03) between county-level rates; however, only 32% of counties were concordant in quartiles for both measures.

Conclusion
Our findings indicate variation in rates of NOWS and opioid-related hospitalizations by geographic and sociodemographic factors, with only moderate concordance in county-level rates. These findings may provide a nuanced interpretation by examining measures impacting both women and infants and have important implications in prioritizing treatment access.
Evaluation of Health Awareness and Perceived Health Status among Men in Limpopo Province, South Africa
Authors: Chavalala Lazarros , Makhado Lufuno , Lebese Rachel Tsakani 
Published: February 2025

Background
Men's health has emerged as an important public health concern requiring new healthcare interventions and increased resources. Knowledge about one’s own health influences engagement in preventive behaviours including health-seeking behaviour in men.

Objective
This study assessed health awareness and perceived health status among men in the Limpopo Province of South Africa.

Methods
A quantitative cross-sectional design was used to administer a self-administered questionnaire on 387 men conveniently available in randomly selected communities. The data were analysed using a Statistical Package for Social Science (SPSS) version 29.0. for windows. Descriptive statistics and inferential statistics were used. The significance level was set at 0.05, and all tests were two-tailed. Ethical approval was granted by the University of Venda Research ethics committee with reference number FHS/21/PH/26/1215, and permission was also obtained from community leaders.

Results
The majority (68%) of men knew that smoking poses a risk of developing lung cancer, and more than half (51%) knew it was not normal to experience pain when urinating. Health care workers were the main source of health formation, with about 75% of men receiving health care from these practitioners. More than half (54%) of men perceived their health status to be in good condition six (6) months before the study.

Conclusion
However, they lacked knowledge that too much alcohol was harmful to their health. The majority of men received health information from healthcare workers and perceived their health status to be in good condition six months before the study. There is a need for education about the impact of too much intake of alcohol on health.
The Relationship Between Inflammatory Bowel Disease Activity and Sleep Efficiency in Adult Patients: A Systematic Review
Authors: Salem Joseph , Khan Inayat , Cooney Joseph , Yemparala Swarna , Pollok Richard 
Published: February 2025

Background and Objectives:
Patients with Inflammatory Bowel Disease frequently report
disturbances in sleep. Few studies have utilized objective investigations like wrist actigraphy
or polysomnography to explore sleep patterns in patients with IBD. To address this, we conducted a
systematic review and meta-analysis to determine how disease activity impacts sleep efficiency
among IBD patients.

Methods:
We conducted a search of Medline, the Cochrane Library, the National Library of Medicine
Clinical Trial Database, and EMBASE for relevant studies from the date of establishment to
July 2023. Sleep efficiency data in active and quiescent Crohn’s disease was summarised using a
fixed-effects model.

Results:
Of the 780 articles identified in the initial search, 7 eligible studies were selected. Separate
data regarding UC was lacking. There were 5 suitable studies eligible for meta-analysis, comprising
219 participants (107 and 112 patients with active and quiescent Crohn’s Disease, respectively). In
this meta-analysis, the 95% CI of four out of five studies included unity, but the pooled analysis
revealed greater sleep efficiency in those with remission Crohn’s disease in comparison to active
Crohn’s (pooled mean difference [MD], -3.64; 95% Confidence Interval [CI], -5.56, -1.73, p=
0.0002). The degree of heterogeneity between studies was minimal (I2 = 0%, p = 0.59).

Conclusion:
We have demonstrated that worse sleep efficiency is associated with active CD compared
to quiescent disease, but there is insufficient data regarding UC. Additional research, applying
objective measures to evaluate sleep efficiency is necessary for a better understanding of the relationship
between sleep quality and disease activity in IBD.