bluuebunny/crossref_metadata_2025_split huggingface dataset:
Linking sea and land systems through food web models and value chains: a portrait of the Ebro Delta (NW Mediterranean Sea)
Authors: Ortega Miquel , Lloret-Lloret Elena , Coll Marta 
Published: June 2024

Abstract

In various parts of the world, the fisheries sector is undergoing a rapid transition due to a combination of ecological and economic stressors. In this context, there is a growing interest in employing integrated ecological-economic tools that facilitate the adoption of ecosystem-based fisheries practices within a value chain perspective. These tools aim to contribute to find management options that decrease ecological impacts while increasing socioeconomic benefits. Our study integrates a food-web model with a value-chain model for an area of the Mediterranean Sea. This case study may provide valuable insights for decision-makers: 1) it allows the calculation of indicators that go beyond species evaluation and fisheries incomes, which are relevant for assessing fisheries management; 2) it offers a more comprehensive perspective on what should be considered priority fisheries species and their key characteristics; and 3) it supports the identification of key actors of the fisheries value chain and generates pertinent information to use in vertically integrated decision-making initiatives.
Analytical performance of OncoPrism-HNSCC, an RNA-based assay to inform immune checkpoint inhibitor treatment decisions for recurrent/metastatic head and neck squamous cell carcinoma
Authors: Hiken Jeffrey , Earls Jon , Flanagan Kevin C. , Wellinghoff Rachel L. , Ponder Michelle , Messina David N. , Glasscock Jarret I. , Duncavage Eric J. 
Published: June 2024

Abstract

Background
While immune checkpoint inhibitor (ICI) therapies can significantly improve outcomes for patients with recurrent/metastatic head and neck squamous cell carcinoma (RM-HNSCC), only about 15–20% benefit from such treatments. Clinical tests that guide the use of ICIs are therefore critically needed. OncoPrism-HNSCC was developed to address this need. The assay combines next generation RNA sequencing-based immunomodulatory gene expression signatures with machine learning algorithms to generate an OncoPrism Score that classifies patients as having low, medium, or high likelihood of disease control in response to ICI treatment. Also, OncoPrism-HNSCC leverages the same FFPE patient tumor RNA used for ICI response prediction to identify rare cases where oncogenic rearrangements in NTRK1/2/3 or ALK genes, which may indicate the use of potentially highly effective targeted therapies. The clinical performance of OncoPrism-HNSCC has been validated. Here, we report its analytical performance in the presence of potentially confounding sources of variation.
Methods
The assay’s analytical sensitivity was assessed by varying RNA input quantity and quality, observing the effect on ICI response prediction scores. Analytical specificity was tested by spiking increasing percentages of genomic DNA into input RNA. Intra-assay and inter-assay precision were evaluated, and the analytical sensitivity, specificity, and precision of gene fusion detection were assessed. Concordance with orthogonal methods of gene fusion detection was tested on 67 FFPE clinical samples.
Results
Varying RNA inputs as low as four-fold below the nominal input amount had little effect on ICI response prediction scores. RNA quality levels below the test threshold had no significant effect. Genomic DNA spike-ins up to 30% had only a small effect on scores. The pooled standard deviation for multiple operators, reagent lots, batches, and sequencers yielded an overall variance represented by just 0.87% of the score range of the test (0–100). NTRK and ALK gene fusion detection was 100% concordant with orthogonal methods.
Conclusions
Robust and reliable analytical performance of the OncoPrism-HNSCC assay supports its clinical use, even in the presence of variation typically encountered in the laboratory setting.
An explainable machine learning approach to the prediction of pipe failure using minimum night flow
Authors: Hayslep Matthew , Keedwell Edward , Farmani Raziyeh , Pocock Josh 
Published: June 2024

ABSTRACT

Both minimum night flow (MNF) and pipe failures are common ways of understanding leakage within water distribution networks (WDNs). This article takes a data-driven approach and applies linear models, random forests, and neural networks to MNF and pipe failure prediction. First, models are trained to estimate the historic average MNF for over 800 real-world DMAs from the UK. Features for this problem are constructed from pipe records which detail the length, diameter, volume, age, material, and number of customer connections of each pipe. The results show that 65% of the variation in historic average MNF can be explained using these factors alone. Second, a novel method is proposed to deconstruct the models' predictions into a leakage contribution score (LCS), estimating how each individual pipe in a DMA has contributed to the MNF. In order to validate this novel approach, the LCS values are used to classify pipes based on historic pipe failure and are compared against models directly trained for this. The results show that the LCS performs well at this task, achieving an AUC of 0.71. In addition, it is shown that both LCS and directly trained models agree in many cases on an example real-world DMA.
Evaluating storage conditions and enhancement strategies on viral biomarker recovery for WBE applications
Authors: Subroyen Sueyanka , Pillay Leanne , Bux Faizal , Kumari Sheena 
Published: June 2024

ABSTRACT

Wastewater-based epidemiology (WBE) is a valuable disease surveillance tool. However, little is known on how factors such as transportation, storage, and wastewater characteristics influence the accuracy of the quantification methods. Hence, this study investigated the impact of storage temperatures and physicochemical characteristics of wastewater on SARS-CoV-2 and influenza A stability using droplet digital PCR. Additionally, strategies to enhance viral recovery were explored. Municipal influent wastewater stored between ±25 and −80 °C was assessed for a period of 84 days to determine viral degradation. Degradation up to 94.1% of influenza A and SARS-CoV-2 was observed in all samples with the highest at ±25 °C. Viral degradation was correlated to the changes in wastewater physicochemical characteristics. The low degradation observed of SARS-CoV-2 in the spiked pellets were indicative of viral adhesion to wastewater solids, which correlated with changes in pH. Ultrasonication frequencies ranging from 4 to 16 kHz, increased SARS-CoV-2 concentrations in the supernatant between 3.30 and 35.65%, indicating viral RNA attachment to wastewater solids. These results highlight the importance of additional pretreatment methods for maximizing RNA recovery from wastewater samples. Based on these findings, it was deduced that wastewater preservation studies are essential, and pretreatment should be included in the WBE methodology.
Nickel and Oxo-Vanadium Complexes of Adenine on Modified Mesoporous MCM-41 as Chemoselective, Efficient, and Reusable Catalysts in the Oxidation of Sulfides and Oxidative Coupling of Thiols
Authors: khanmoradi maryam , Sayadian Masoumeh , Nikoorazm Mohsen 
Published: June 2024

Background:
A highly efficient superior catalyst of Ni (II) and VO (IV) metal complexes
supported on MCM-41 has been synthesized and developed for chemoselective oxidation
of sulfides to sulfoxides and oxidative coupling of thiols to their corresponding disulfides
using H2O2 as a green and efficient procedure. All sulfoxides and disulfides were obtained in
short reaction times with excellent yields. The over-oxidation of sulfides or thiols was not observed
and all products were synthesized in high purity. These catalysts could be recovered and
reused several times without any significant loss in their catalytic activity. Compared to the old
catalysts in the literature, these catalysts showed better activity and selectivity for the synthesis
of sulfoxide and disulfide derivatives, which shows the novelty of this work.

Methods:
At first, the mesoporous MCM-41 was synthesized, and further, its surface was modified
by (3-chloropropyl)-triethoxysilane (CPTES). Then, the modified MCM-41 (nPrCl-MCM-
41) was functionalized by adenine. In the next step, the functionalized MCM-41 (6AP-MCM-
41) was used as support for the immobilization of nickel and oxo-vanadium as final catalysts
(Ni-6AP-MCM-41 or VO-6AP-MCM-41). The structure and properties of these catalysts have
been identified by XRD, SEM, TGA, FT-IR, and AAS spectral analyses. These catalysts were
used in the chemoselective oxidation of sulfides and oxidative coupling of thiols.

objective:
Nickel and oxovanadium complexes supported on MCM-41 mesoporous and their application in catalytic selective sulfide and thiol oxidation

Results:
These complexes catalyzed all reactions well at room temperature. According to the
results obtained, the hydroxyl groups of some derivatives, including 2-(methylthio) ethanol or
2,2-(phenylthio) ethanol, remained unchanged during the reaction.

Conclusion:
The method has been found to possess the advantages of low cost, high efficiency,
high yields, recovery, and reusability for several runs without significant loss in the catalytic activity.
Comparison of Efficacy and Safety between Immune Checkpoint Inhibitors and Targeted Drugs in Unresectable Hepatocellular Carcinoma: A Systematic Review and Meta-Analysis
Authors: Su Chenguang , Liao Zheng , Wang Zixiang , Pei Yinxuan , Li Weiwei , Liu Jinlong 
Published: June 2024

Background:
Immune Checkpoint Inhibitors (ICIs) are becoming a new treatment
approach for patients with unresectable hepatocellular carcinoma (uHCC). However, the results
regarding its efficacy compared with the standard regimen of targeted therapy are not consistent.

Aims:
Our aim was to conduct a meta-analysis of existing studies to reveal the differences in the
efficacy and safety of the two systems of treatment.

Methods:
The related studies were searched in PubMed, Web of Science, the Cochrane Library,
and Embase from inception to June 30th, 2022. Data on overall survival (OS), progression-free
survival (PFS), objective response rate (ORR), disease control rate (DCR), and rate of treatment-
related adverse events (TrAEs) with their 95% confidence intervals (CI) were pooled and
analyzed by Stata 12.0 software.

Results:
A total of ten high-quality controlled clinical studies with 5,539 patients with uHCC
were included. The hazard ratio (HR) of the OS and PFS were 0.80 (95% CI, 0.74-0.86) and
0.72 (95% CI, 0.58-0.89), respectively. In addition, the odds ratio (OR) of the ORR and DCR
were 3.39 (95% CI, 2.75-4.17) and 1.20 (95% CI, 0.84-1.73), respectively. The ORR of ICIs
monotherapy, ICIs plus anti-vascular endothelial growth factor (VEGF) and ICIs plus ICIs were
16% (95% CI, 0.13-0.18), 17% (95% CI, 0.10-0.27), and 20% (95% CI, 0.16-0.24), respectively.
For all included studies, the OR of the overall TrAEs was 0.51(95% CI, 0.22-1.18), and
grade ≥ 3 TrAEs was 0.78 (95% CI, 0.53-1.14).

Conclusion:
ICIs were more effective than targeted drugs concerning survival periods and ORR
in patients with uHCC while maintaining a stable safety profile.
Efficiency of Glucosamine in Treating Temporomandibular Joint Osteoarthritis: A Systematic Review
Authors: Sivakumar Sasidharan , Kumar P. Prem , Prasanna P. Lakshmi , Sivakumar Gowardhan , Balasamy Sesuraj , Sundramoorthy Ashok K. 
Published: June 2024

Background:
Temporomandibular joint osteoarthritis (TMJ OA) is a chronic disease
that is a consequence of undue occlusal forces and is characterized by irreversible damage to the
articular surfaces. Symptomatic slow-acting so-called nutraceutical drugs have been proposed as a
treatment for osteoarthritis in comparison to non-steroidal anti-inflammatory drugs (NSAIDs).
Oral glucosamine and chondroitin, slow-acting drugs, have been found to reduce pain and increase
mouth opening in patients with TMJ OA. However, there is limited scientific evidence to
confirm their clinical effectiveness.

Aim:
This systematic review was conducted to bolster the evidence supporting the assessment of
the efficacy of glucosamine in the context of temporomandibular joint osteoarthritis (TMJ OA).

Methodology:
This review identified four review articles from databases like Medline (via
PubMed), Web of Science, Scopus, and EMBASE till September 2023 after screening at the title,
abstract, and full-text level. They were assessed for risk of bias with the JBI risk of bias assessment
tool.

Result:
This review with meta-analysis focused on pooled estimate mean differences, revealing
non-significant but discernible effects of glucosamine on maximum mouth opening (SMD =
0.288, p = 0.15) and pain reduction (SMD = 0.217, p = 0.476) in TMJ-related disorders.

Conclusion:
Compared to control groups with ibuprofen and tramadol, glucosamine showed
slightly more favourable outcomes. However, the variability in methodology and study characteristics
warrants further longitudinal studies to confirm its efficacy.
Diagnostic performance of sex hormone binding globulin (SHBG) expression in predicting prostate cancer (PCa)
Authors: Lubis Anggiat Pratama , Danarto H R , Indrawarman  
Published: June 2024

Globally, 1.3 million new cases of prostate cancer (PCa) and 359,000 deaths were reported in 2018. Due to rapid population growth and increasing rates of aging worldwide, the PCa has become the 5th leading cause of death in men. Sex hormone binding globulin (SHBG) presents in both men and women and its expression is often associated with the development of PCa and breast cancers. This study was conducted to assess the diagnostic performance of SHBG expression in predicting PCa. A total of 31 patients with PCa and 14 patients with BPH as a control were involved in this study. The SHBG expression of formalin-fixed paraffin-embedded (FFPE) prostate tissue was examined by the quantitative reverse transcriptase polymerase chain reaction (RT-PCR). Receiver operator characteristic (ROC) curves were produced and the area under the curve (AUC) was calculated to evaluate the diagnostic performance of the SHBG expression in predicting the PCa. The AUC of SHBG expression was 0.868 (95% CI 0.764-0.971; p<0.001) which indicated good diagnostic performance. The cutoff value was 6.731 which corresponded to 80% accuracy, 71% sensitivity, and 100% specificity. In conclusion, SHBG expression in bladder cancer tissues could be a molecular marker in PCa diagnosis.

ABSTRACT

Secara global terdapat 1,3 juta kasus baru kanker prostat (prostate cancer/PCa) dan 359.000 kematian dilaporkan pada tahun 2018. Karena pertumbuhan populasi yang cepat dan meningkatnya angka usia lanjut di seluruh dunia, PCa telah menjadi penyebab kematian utama ke-5 pada pria. Sex hormone binding globulin (SHBG) terdapat pada pria dan wanita dan ekspresinya sering dikaitkan dengan perkembangan PCa dan kanker payudara. Penelitian ini dilakukan untuk menilai potensi SHBG sebagai penanda molekuler dalam diagnosis PCa. Sebanyak 31 pasien PCa dan 14 pasien BPH sebagai kontrol dilibatkan dalam penelitian ini. Ekspresi SHBG dari jaringan prostat formalin-fixed paraffin-embedded (FFPE) diperiksa dengan the quantitative reverse transcriptase polymerase chain reaction (RT-PCR). Receiver operator characteristic (ROC) dihasilkan dan the area under the curve (AUC) dihitung untuk mengevaluasi kinerja diskriminatif ekspresi SHBG dalam diagnosis PCa. AUC ekspresi SHBG adalah 0,868 (95% CI 0,764-0,971; p<0,001) yang menunjukkan kinerja diskriminatif yang baik. Nilai cutoff adalah 6,731 yang berhubungan dengan akurasi 80%, sensitivitas 71% dan spesifisitas 100%. Kesimpulannya, ekspresi SHBG pada jaringan kanker kandung kemih dapat menjadi penanda molekuler dalam diagnosis PCa
Toxoplasmosis in cats from a dairy-producing region in Hidalgo, Mexico
Authors: Ramirez-Perez Lizbeth , Rico Torres Claudia Patricia , Valenzuela Moreno Luis Fernando , Cedillo-Pelaez Carlos , Caballero-Ortega Heriberto , Acosta-Salinas Rosalinda , Villalobos Nelly , Martínez Maya José Juan 
Published: June 2024

Considering that the ingestion of cat feces containing Toxoplasma gondii oocysts is a major transmission route for toxoplasmosis, this work is aimed to assess the presence of T. gondii in cats dwelling in dairy production facilities at the Tizayuca Agro-Industrial Complex (CAIT, by its acronym in Spanish) in Hidalgo, Mexico. Blood samples from stray and owned cats were assayed by indirect ELISA, and samples from various tissues were collected at post-mortem examination of positive cats for DNA extraction, PCR, histopathologic studies, and immunohistochemistry. A questionnaire was applied in each dairy production unit to estimate cat ownership. From 70 animals studied (22 stray and 48 owned), 12 (17.1 %) were seropositive (7 stray and 5 owned). No differences were found for age or sex according to the questionnaires, but ingesting raw food was a risk factor (P < 0.01). Of the 12 positive cats, 5 were euthanized; of these, five tissue samples from 4 cats were positive for the B1 and 529 bp repetitive sequences by qPCR and conventional PCR. No macro- or microscopic lesions suggestive of T. gondii infection were found in cats.
Development of Novel Tools for Dissection of Central Versus Peripheral Dopamine D2-Like Receptor Signaling in Dysglycemia
Authors: Bonifazi Alessandro , Ellenberger Michael , Farino Zachary J. , Aslanoglou Despoina , Rais Rana , Pereira Sandra , Mantilla-Rivas José O. , Boateng Comfort A. , Eshleman Amy J. , Janowsky Aaron , Hahn Margaret K. , Schwartz Gary J. , Slusher Barbara S. , Newman Amy Hauck , Freyberg Zachary 
Published: June 2024

Dopamine (DA) D2-like receptors in both the central nervous system (CNS) and the periphery are key modulators of metabolism. Moreover, disruption of D2-like receptor signaling is implicated in dysglycemia. Yet, the respective metabolic contributions of CNS versus peripheral D2-like receptors, including D2 (D2R) and D3 (D3R) receptors, remain poorly understood. To address this, we developed new pharmacological tools, D2-like receptor agonists with diminished and delayed blood-brain barrier capability, to selectively manipulate D2R/D3R signaling in the periphery. We designated bromocriptine methiodide (BrMeI), a quaternary methiodide analog of D2R/D3R agonist and diabetes drug bromocriptine, as our lead compound based on preservation of D2R/D3R binding and functional efficacy. We then used BrMeI and unmodified bromocriptine to dissect relative contributions of CNS versus peripheral D2R/D3R signaling in treating dysglycemia. Systemic administration of bromocriptine, with unrestricted access to CNS and peripheral targets, significantly improved both insulin sensitivity and glucose tolerance in obese, dysglycemic mice in vivo. In contrast, metabolic improvements were attenuated when access to bromocriptine was restricted either to the CNS through intracerebroventricular administration or delayed access to the CNS via BrMeI. Our findings demonstrate that the coordinated actions of both CNS and peripheral D2-like receptors are required for correcting dysglycemia. Ultimately, the development of a first-generation of drugs designed to selectively target the periphery provides a blueprint for dissecting mechanisms of central versus peripheral DA signaling and paves the way for novel strategies to treat dysglycemia.

Article Highlights
STUDY OF THE PARTICIPIAL FORMS OF THE ARMENIAN LANGUAGE IN THE SYSTEM OF THE THEORY OF THE VERB A. ABRAHAMYAN (According to the monograph "The Verb in Modern Armenian")
Authors: AVAGYAN ANI 
Published: June 2024

The article briefly analyzes the participle forms of Modern Armenian in the theory of A. A. Abrahamyan in his monograph "The Verb in Modern Armenian". We show that Abrahamyan distinguishes the category of grammatical state, which differs, for example, from the Russian corresponding category (category of state).
Further, we give the following semantic grouping made by the venerable linguist: 1) brief, vague, weak manifestation, 2) expressive but not expressing a temporal state, 3) expressing a general temporal state, without omitting the attention of other researchers - M. Abeghyan, H. Acharyan, E. Aghayan, G. Jahukyan and G. Sevak.
А. Abrahamyan singles out a new type of participle form (i.e. ընթացակցական դերբայ [ǝntcakccakan derbay] "accompanying participle form"), clarifies some other similar forms, especially on the basis of their function.
The theoretical analysis and distinctions are substantiated by the textual examples given, taken not only from Modern Literary Armenian, but also from its dialects.
It should also be noted that such classification, repeatedly take place in the researches of specialists of Modern Literary Armenian.
STYLISTIC IMPLICATIONS OF USING FOREIGN WORDS IN STORY “THE LOST DOVE” BY NAR-DOS
Authors: HOVHANNISYAN ZHENYA 
Published: June 2024

This article presents a linguistic study of foreign words used in Nar-Dos’s story “The Killed Dove”, using relevant examples. Foreign words that were transferred from Russian and other languages to Armenian and the reasons for their use were mentioned. Foreign language quotes, words that have only a stylistic connotation, as well as words that do not have Armenian equivalents in the new period of the history of the Armenian language were presented. The study also talks about the significant similarity of foreign languages.
Considering the difference between foreign words and borrowings in the Armenian language to be a priority problem, we also noted the boundaries of words of this order, since at present, in the course of the development of the literary language, there is some confusion in resolving the issue of distinguishing between foreign and borrowed words.
In the story, some truly Armenian and foreign words are used in parallel (խելացի – ինտելիգենտ, սովորական - պրոզայիկ, etc.), due to the tendency of the stylistic coloring of the author's speech.
There are also many cases when the corresponding phraseological units are used to give the speech a satirical tone and make fun of one of the characters. similar shades of speech are clearly expressed in the story under discussion (prosecutor, amateur, intellectual, etc.).
We also highlighted frequently used foreign words in the mentioned story by Nar-Dos and thereby came to the conclusion that the author’s language is not free from unnecessary use of such words and word forms.