bluuebunny/crossref_metadata_2025_split huggingface dataset:
Development of Warp Knitted-Based Filtration Media
Authors: Lenfeldová Irena , Ryvolová Martina , Kdýrová Adéla 
Published: November 2023

Abstract
Biological wastewater treatment based on the removal of various nitrogen forms using activated sludge is a highly efficient and economical method with environmental benefits. The activated sludge comprises bacteria that form colonies on solid carriers (e.g., the most commonly used carrier, AnoxKaldnes). The initial concept behind designing a warp knitted fabric structure (i.e., spacer fabric) with holes is based on the appearance similarity of a three-dimensional fabric and a solid carrier, focusing on potential industrial production. In this study, the longitudinal textile properties of multi- and monofilament materials are measured. A structural analysis is conducted to produce samples unraveled and separated by mono and multifilaments. Density, weight, loop length, filament consumption, specific surface area, and effective area are calculated. Through a basic experiment in a laboratory nitrification reactor, a biofilm is formed on the carriers. The analysis results of the O2 consumption rate of individual design variants reveals minimal differences after 6 and 14 weeks. The efficient carrier area on the outer and inner front and back sides of four developed carrier variants is measured after cutting the monofilaments with the image analysis support. This study might be helpful in designing other textile-based carriers. The warp knitted carrier presented herein demonstrates the capture and presence of an active biofilm evidenced by a higher oxygen consumption rate of up to 8 mg/L/h in 6 weeks. It also shows the benefit of commercially available warp knitted carrier manufacturing.
Palynomorphological study of Azerbaijanian Rubus species in comparison with the morphology of pollen of the whole genus
Authors: Asilbeyova Terlan , Gavrilova Olga , Krasovskaya Liudmila , Pozhidaev Andrey 
Published: November 2023

Abstract
We investigated pollen morphology of Rubus species from Azerbaijan. Pollen of 24 specimens from 15 species of all three Rubus subgenera has been studied using light, confocal laser scanning and scanning electron microscopes to estimate pollen characteristic variability and to describe pollen polymorphism and taxonomic value. Pollen grains are small or medium-sized, mainly three-colporate and spheroidal; composed apertures include meridional directed, long, narrow colpi and clear ori on the equator. Exine is thin, tectate and columellate, ornamentation is striate or striate-perforate with thin mainly long striae and perporations from zero to numerous between striae. Pollen of Azeri Rubus species are similar to European ones and it is difficult to distinguish from each other. Intraspecific and individual variability is manifested in size, shape, number and location of apertures, and patterns of ornamentation. The ordered structure of the individual variability of the characteristic shape (number and location of apertures) of pollen grains in the genus Rubus is described. An abundance of deviant forms was noted in the subgenus Rubus. An analysis of pollen morphology of investigated Rubus taxa around the world demonstrated that diagnostic feature into genus is ornamentation which can be divided into three groups: typical striate; non-typical striate and non-striate. The subgenus Rubus is uniform in exine pattern. Typical striate pollen is found throughout the world; however, variations of non-typical striate and non-striate pollen is revealed in Southeast Asia. Pollen data indicate a geographical center of species diversity in Southeast Asia.
Machine Learning Analysis of Gene Expression Reveals TP53 Mutant-like AML With Wild Type TP53 And Poor Prognosis
Authors: Sachs Zohar , Lee Yoonkyu , Baughn Linda , Myers Chad 
Published: November 2023

Abstract
Acute myeloid leukemia (AML) with TP53 mutations (TP53Mut) has poor clinical outcomes. We investigated whether this AML subtype harbors a distinct gene expression profile (GEP) and whether this GEP is prognostic in TP53 wild type (TP53WT) AML.
We applied a supervised machine-learning approach to detect the TP53Mut GEP. We divided the samples in the Beat-AML dataset into training and testing datasets. The TCGA LAML dataset was used as a validation dataset. We trained a ridge regression machine learning model to classify TP53Mut and TP53WT cases. This model was highly accurate in distinguishing TP53Mut versus TP53WT cases in both the test and validation datasets. Additionally, we identified TP53WT samples with high ridge regression scores. These high-scoring TP53WT samples also have poor overall survival, suggesting they share clinical and GEP features with TP53Mut AML. We defined these TP53WT samples as TP53Mut-like. Using drug sensitivity data in the Beat AML dataset, we found TP53Mut-like AMLs have distinct drug sensitivity patterns that phenocopy TP53Mut cases. Finally, we identified a 25-gene signature that can identify TP53Mut-like AML. This signature could be used clinically to identify this novel subset of poor-prognosis AML.
Adverse Event Management in Patients with Platinum-Resistant Ovarian Cancer Treated with Niraparib and Anlotinib: Updates from the Phase II, Multi-Center ANNIE Study
Authors: Deng Ting , Yan Lei , Li Jing , Liu Guochen , Yin Aijun , Feng Yanling , Zheng Min , Zhang Chuyao , Huang He , Huang Qidan , Lin An , Jiang Jie , Kong Beihua , Liu Jihong 
Published: November 2023

Abstract
Background: The primary analysis of the ANNIE study demonstrated promising anti-tumor activity of the niraparib-anlotinib combination in platinum-resistant recurrent ovarian cancer (PROC). We report updated overall survival (OS) and safety data and the management of key treatment-emergent adverse event (TEAE) from the ANNIE study.
Methods: In the multi-center, single-arm, phase 2 ANNIE study, enrolled patients received oral niraparib 200 mg or 300 mg (baseline bodyweight-directed) once daily and anlotinib 10 mg (12 mg before protocol amendment) once daily on days 1–14 of each 21-day cycle. Safety management involved a multidisciplinary team comprising specialist physicians, who performed monitoring and intervention for key comorbidities and TEAEs.
Results: Forty patients were enrolled. After a median follow-up of 19.0 months, the updated median OS was 18.2 months (95% confidence interval: 12.1–not evaluable). The most common TEAEs were hypertension (n=22, 55%), leukopenia (n=18, 45%), hand-foot syndrome (n=17, 43%), thrombocytopenia (n=15, 38%), neutropenia (n=14, 35%), and hypertriglyceridemia (n=12, 30%). Hypertension and cardiovascular events were mostly managed by early interventions using beta-blockers. Hypertriglyceridemia was mostly managed using atorvastatin and simvastatin. Hematological toxicities were consistent with prior studies and no severe hematologic events occurred. Protocol amendment was implemented to reduce the incidence of hand-foot syndrome, while topical glucocorticoids and non-steroidal anti-inflammatory drugs were used in patients with apparent symptoms.
Conclusions: The updated OS analysis showed sustained long-term efficacy of niraparib-anlotinib in PROC patients. The safety data reflected satisfactory tolerability and adverse event management, supporting the involvement of a multidisciplinary disease management team in ovarian cancer care.
Clinical trial registration: NCT04376073
The T1-dark-rim: A novel imaging sign for detecting smoldering inflammation in multiple sclerosis
Authors: Naval-Baudin Pablo , Pons-Escoda Albert , Castillo-Pinar Albert , Martínez-Zalacaín Ignacio , Arroyo-Pereiro Pablo , Flores-Casaperalta Susanie , Garay-Buitron Francis , Calvo Nahum , Martínez-Yélamos Antonio , Cos Mònica , Martínez-Yélamos Sergio , Majós Carles 
Published: November 2023

Abstract
Objectives:
Paramagnetic rim lesions (PRLs), usually identified in susceptibility-weighted imaging (SWI), are a promising prognostic biomarker of disability progression in multiple sclerosis (MS). However, SWI is not always available in clinical practice. The objective of this study is to define a novel imaging sign, the T1-dark rim, identifiable in a standard 3DT1 gradient-echo sequence, such as 3D T1 turbo field echo (3DT1FE) and explore its performance as a SWI surrogate to define PRLs.
Materials & Methods:
This observational cross-sectional study analyzed MS patients who underwent 3T magnetic resonance imaging (MRI) including 3DT1TFE and SWI. Rim lesions were evaluated in 3DT1TFE, processed SWI, and SWI phase and categorized as true positive, false positive, or false negative based on the value of the T1-dark rim in predicting SWI phase PRLs. Sensitivity and positive predictive values of the T1-dark rim for detecting PRLs were calculated.
Results:
Overall, 80 rim lesions were identified in 63 patients (60 in the SWI phase and 78 in 3DT1TFE; 58 true positives, 20 false positives, and two false negatives). The T1-dark rim demonstrated 97% sensitivity and 74% PPV for detecting PRLs. More PRLs were detected in the SWI phase than in processed SWI (60 and 57, respectively).
Conclusion:
The T1-dark rim sign is a promising and accessible novel imaging marker to detect PRLs whose high sensitivity may enable earlier detection of smoldering inflammation to guide MS treatment escalation. The relevance of T1-dark rim lesions that are negative on SWI opens up a new field for analysis.
Unravelling the Three-Dimensional Structure-Function Relationships of Interstitial Cells of Cajal Networks: A Graph Theoretical Approach to Neurogastroenterology
Authors: Mah Sue Ann , Avci Recep , Vanderwinden Jean-Marie , Du Peng 
Published: November 2023

Abstract

Specific structural traits such as deficient or altered networks of interstitical cells of Cajal (ICC) are often observed in gastroparesis, constipation, chronic intestinal pseudo-obstruction, and Hirschsprung disease based on qualitative histopathological findings, serve as key factors in inferring the health of gastrointestinal (GI) motility function. However, the assessment of ICC at present is limited by the lack of readily available 3D quantitative metrics. Although confocal microscopy can image and quantify the spatial distribution of ICC networks, current techniques to evaluate ICC in histological studies are limited to nuclei counts, or simply by objective visual grading. Although a suite of numerical metrics for the quantitative assessment of the structural features of ICC networks has previously been developed. However, the analysis has been limited to the analysis of ICC structure in 2D images. A 3D framework for quantifying and visualising these ICC networks could provide a valuable tool to elucidate the pathophysiology of GI motility disorders.
In our analysis, 3D visualization techniques namely, 3D structure tensor analysis, 3D Fourier analysis, 3D Graph Network, capable of providing whole-mount gastric antrum tissue imaging representations of proximal and distal regional descriptors based on fluorescence data acquisition have been developed.
Using the murine stomach as a model, the methods outlined in this paper allowed us to analyse and interrogate the gastrointestinal ICC networks structural variations and orientation distribution and better infer and delineate the underlying structural network in unprecedented detail.
Appraisal of irrigation land suitability of semi-arid climatic zone of Rajasthan, India
Authors: Mishra Leena Rani , Singh P. K. , Kothari Mahesh , Bhakar S. R. , Yadav K. K. , Meena S. S. 
Published: November 2023

Abstract

Planning how to use the land resources that are available for irrigation is crucial for reducing the problem of food security. Analytical hierarchy process methodologies were used to undertake an analysis of the appropriateness of land using the GIS approach. Each parameter's weight was assessed using a 6 × 6 pairwise comparison matrix because six parameters, including slope, distance to the nearest road, land use land cover, population density, soil texture and rainfall deficit, are taken into account. After all, the weighted overlay approach of the GIS application was used to create the ultimate land suitability map for irrigation. Using the natural break classification approach, the final map was divided into land suitability classes. Of the entire region, 12.9% fell into the highly suitable (S1) class, 85.14% fell into the moderately suitable (S2) class, and 2.57% fell into the least suitable (S3) class. The finding of the study will play a significant role in performing irrigation taking into account the input parameters and ultimately defining suitable land classes and lands that may be used in accordance with current irrigation technology.
Crystal Structure Determination of Nucleotide-sugar Binding Domain of
Human UDP-glucuronosyltransferases 2B10
Authors: Yin Xinli , Lu Xi , Qi Xudan , Tu Yuxi , Zhang Na , Yang Yuan , Chen Xiabin , Tong Junsen 
Published: November 2023

Background:
UDP-glucuronosyltransferases (UGTs) play a crucial role in maintaining
endobiotic homeostasis and metabolizing xenobiotic compounds, particularly clinical drugs. However,
the detailed catalytic mechanism of UGTs has not been fully elucidated due to the limited
availability of reliable protein structures. Determining the catalytic domain of human UGTs has
proven to be a significant challenge, primarily due to the difficulty in purifying and crystallizing
the full-length protein.

Objective:
This study focused on the human UGT2B10 C-terminal cofactor binding domain, aiming
to provide structural insights into the fundamental catalytic mechanisms.

Method:
In this study, the C-terminal sugar-donor binding domain of human UGT2B10 was purified
and crystallized using the vapor-diffusion method. The resulting UGT2B10 CTD crystals displayed
high-quality diffraction patterns, allowing for data collection at an impressive resolution of
1.53 Å using synchrotron radiation. Subsequently, the structure of the UGT2B10 CTD was determined
using the molecule replacement method with a homologous structure.

Results:
The crystals were monoclinic, belonging to the space C2 with unit-cell parameters a =
85.90 Å, b = 58.39 Å, c = 68.87 Å, α = γ = 90°, and β = 98.138°. The Matthews coefficient VM
was determined to be 2.24 Å3 Da-1 (solvent content 46.43%) with two molecules in the asymmetric
unit.

Conclusion:
The crystal structure of UGT2B10 CTD was solved at a high resolution of 1.53 Å, revealing
a conserved cofactor binding pocket. This is the first study determining the C-terminal cofactor
binding domain of human UGT2B10, which plays a key role in additive drug metabolism.
Inflammation and Mental Health Disorders: Immunomodulation as a Potential
Therapy for Psychiatric Conditions
Authors: Safari Hanieh , Mashayekhan Shohreh 
Published: November 2023

Abstract::
Mood disorders are the leading cause of disability worldwide and their incidence has significantly
increased after the COVID-19 pandemic. Despite the continuous surge in the number of people diagnosed
with psychiatric disorders, the treatment methods for these conditions remain limited. A significant number of
people either do not respond to therapy or discontinue the drugs due to their severe side effects. Therefore, alternative
therapeutic interventions are needed. Previous studies have shown a correlation between immunological
alterations and the occurrence of mental health disorders, yet immunomodulatory therapies have been barely
investigated for combating psychiatric conditions. In this article, we have reviewed the immunological alterations
that occur during the onset of mental health disorders, including microglial activation, an increased number
of circulating innate immune cells, reduced activity of natural killer cells, altered T cell morphology and
functionality, and an increased secretion of pro-inflammatory cytokines. This article also examines key studies
that demonstrate the therapeutic efficacy of anti-inflammatory medications in mental health disorders. These
studies suggest that immunomodulation can potentially be used as a complementary therapy for controlling
psychiatric conditions after careful screening of candidate drugs and consideration of their efficacy and side effects
in clinical trials.
Role of Cerium Oxide Nanoparticles and Doxorubicin in Improving Cancer
Management: A Mini Review
Authors: Girigoswami Agnishwar , Adhikesavan Harini , Mudenkattil Shurfa , Devi Sobita , Girigoswami Koyeli 
Published: November 2023

abstract:
Cancer is one of the significant issues with public health and the second leading cause of death
worldwide. The three most lethal cancers in the general population are stomach, lung, and liver cancers, in
which lung and breast cancers cause the majority of cancer-associated deaths among men and women, respectively.
CeO2 nanoparticles have a cytoprotectant effect in normal cells and a cytotoxic effect in cancer cells
that enables them to induce the reactive oxygen species (ROS) production within cancer cells, which in turn develops
reactive nitrogen species (RNS) that interfere with intracellular activities, and this property makes them
an excellent anticancer agent. Because of its biofilm suppression, free radical scavenging ability, redox activity,
and other unique properties, attention has been bestowed on cerium oxide nanoparticles as a potential alternative
to solve many biomedical issues in the future. This review mainly focuses on the combinatorial effect
of cerium dioxide nanoparticles and Doxorubicin in cancer management.
A Comprehensive Review on Phytochemistry and Pharmacology ofRosaSpecies (Rosaceae)
Authors: Fayaz Faheem , Singh Kanwaljeet , Gairola Sumeet , Ahmed Zabeer , Shah Bhahwal Ali 
Published: November 2023

Abstract::The Rosa L. genus is a significant plant family in the Rosaceae group, consisting of around 200 species, primarily shrubs. In India, it has 37 species, most located in the Western Himalayan region of Jammu and Kashmir and Himachal Pradesh. Roses are highly regarded for their beauty and growth and are popular worldwide for their nutritional, therapeutic, ornamental, and cosmetic value. The rose hips are utilized in creating various food and drink items, such as jams, jellies, teas, and alcoholic beverages. The Rosa species has various pharmacological activities, including anti-inflammatory, antidiabetic, hepatoprotective, antimicrobial, anti-proliferative/anticancer, anti-arthritic, neurological, and anti-obesity activity. This review aims to provide an in- -depth overview of the phytochemistry and pharmacology of the Rosa species in India, focusing on Rosa indica L., which has significant potential for future chemical and biological research.
Clinical Applicability of Autologous Chondrocyte Implantation for the
Treatment of Osteochondral Defects: A Meta-analysis
Authors: Almohaileb Faisal I. , Rasheed Zafar 
Published: November 2023

Purpose:
Osteoarthritis and other joint disorders are the leading cause of disability in
the elderly and the treatment of joint lesions is challenging. Autologous chondrocyte implantation
(ACI) has been reported with variable effects for the treatment of osteochondral and other joint lesions.
In this study, we performed a meta-analysis of the recent literature to determine the clinical
applicability of ACI for osteochondral defects.

Methods:
A meta-analysis was performed on the recent literature showing the effects of ACI on
osteochondral defects. The PUBMED, ScienceDirect and Google Scholar databases were used to
identify eligible studies from Jan 2010 to Sep 2022. Both fixed and random models of meta-analysis
were applied with all reported scoring systems to quantify the effectiveness of ACI on osteochondral
defects.

Results:
The pool data of 965 patients as a case series after ACI from a fixed model showed a significant
improvement in the osteochondral defects (odds ratio = 8.75, 95%CI = 7.127 to 10.743, p
= 0.000). These results were further verified by a random model of meta-analysis. The data also
showed a substantial heterogeneity among the studies used in the meta-analysis (Q-value =
160.41, I-squared = 87.53, p = 0.000). Furthermore, this meta-analysis also compared different
ACI procedures with different scoring systems but the overall outcome remains the same as ACI
was found to be useful for the healing of the osteochondral defects.

Conclusion:
This meta-analysis of 965 case series revealed that the ACI markedly improved the
damage osteochondral defects scores but the optimal treatment is still controversial, therefore further
studies are needed to validate these findings in a clinical setting.
Benign Multicystic Peritoneal Mesothelioma: Two Rare Cases and Review of the
Literature
Authors: Incesu Mustafa Mehmet , Ucar Murat , Kozan Ramazan , Simsek Berkay , Esendagli Guldal 
Published: November 2023

Background::
Benign multicystic peritoneal mesothelioma is a multiloculated cystic mass which originates from the peritoneum. This rare tumor is usually seen
in women of childbearing age and has a high recurrence rate after surgery.

Case Presentation::
We present two benign multicystic peritoneal mesothelioma cases with different imaging modalities, which were also pathologically proven.

Conclusion::
The imaging features which may be diagnostic should be well known as there are very few reports regarding this entity
Determination of Novel SARS-CoV-2 Inhibitors by Combination of
Machine Learning and Molecular Modeling Methods
Authors: Güner Ersin , Özkan Özgür , Yalcin-Ozkat Gözde , Ölgen Süreyya 
Published: November 2023

Introduction::
Within the scope of the project, this study aimed to find novel inhibitors
by combining computational methods. In order to design inhibitors, it was aimed to produce molecules
similar to the RdRp inhibitor drug Favipiravir by using the deep learning method.

Method::
For this purpose, a Trained Neural Network (TNN) was used to produce 75 molecules
similar to Favipiravir by using Simplified Molecular Input Line Entry System (SMILES) representations.
The binding properties of molecules to Viral RNA-dependent RNA polymerase (RdRp)
were studied by using molecular docking studies. To confirm the accuracy of this method, compounds
were also tested against 3CL protease (3CLpro), which is another important enzyme for the
progression of SARS-CoV-2. Compounds having better binding energies and RMSD values than
favipiravir were searched with similarity analysis on the ChEMBL drug database in order to find
similar structures with RdRp and 3CLpro inhibitory activities.

Result::
A similarity search found new 200 potential RdRp and 3CLpro inhibitors structurally similar
to produced molecules, and these compounds were again evaluated for their receptor interactions
with molecular docking studies. Compounds showed better interaction with RdRp protease
than 3CLpro. This result presented that artificial intelligence correctly produced structures similar
to favipiravir that act more specifically as RdRp inhibitors. In addition, Lipinski's rules were applied
to the molecules that showed the best interaction with RdRp, and 7 compounds were determined
to be potential drug candidates. Among these compounds, a Molecular Dynamic simulation
study was applied for ChEMBL ID:1193133 to better understand the existence and duration of the
compound in the receptor site.

Conclusion::
The results confirmed that the ChEMBL ID:1193133 compound showed good Root
Mean Square Deviation (RMSD), Root Mean Square Fluctuation (RMSF), hydrogen bonding, and
remaining time in the active site; therefore, it was considered that it could be active against the
virus. This compound was also tested for antiviral activity, and it was determined that it did not
delay viral infection, although it was cytotoxic between 5mg/mL-1.25mg/mL concentrations. However,
if other compounds could be tested, it might provide a chance to obtain activity, and compounds
should also be tested against the enzymes as well as the other types of viruses.