bluuebunny/crossref_metadata_2025_split huggingface dataset:
Developing a nanopore sequencing workflow for protein engineering applications
Authors: Tan Daniel Zhi Jun , Fung Vincent , Sun Tao , Tian Kaiyuan , Li Zhi , Zhou Kang 
Published: June 2023

Abstract

Sequencing plays a critical role in protein engineering, where the genetic information encoding for a desired mutation can be identified. We evaluated the performance of two commercially available NGS technologies (Illumina NGS and nanopore sequencing) on the available mutant libraries that were either previously constructed for other protein engineering projects or were constructed in-house for this study. The sequencing results from Illumina sequencing indicated that a substantial proportion of the reads exhibited strand exchange, which mixed information of different mutants. When nanopore sequencing was used, the occurrence of strand exchange was substantially reduced compared with Illumina sequencing. We then developed a new library preparation workflow for nanopore sequencing and was successful in further reducing the incidence of strand exchange. The optimized workflow was successfully used to aid selection of improved alcohol dehydrogenase mutants in cells where their activities were coupled with cell growth rate. The workflow quantified the enrichment fold change of most mutants in the library (size = 1,728) in the growth-based selection passaging. A mutant that was > 500% more active than its parent variant was identified based on the fold change data, but not with the absolute abundance data (random sampling of the passaged cells), highlighting the usefulness of this rapid and affordable sequencing workflow in protein engineering.
A proposed method to estimate surgical blood loss in adults – a consistent and objective formula
Authors: Roth Jonathan Victor 
Published: June 2023

Abstract
The estimation of surgical blood loss, particularly after large blood loss cases, by anesthesia personnel can be subjective and can vary between individuals. Intraoperative transfer of anesthesia care also affects blood loss estimates. This manuscript proposes a simple objective methodology to estimate surgical blood loss that does not depend upon any individual and can easily be calculated from knowledge of the patient’s sex, height and weight, the starting hemoglobin (or hematocrit), the ending hemoglobin (or hematocrit), the number of packed red blood cells and whole blood units transfused, and the volume of cell saver blood reinfused.
Renewable energy of wastewater heat recovery
Authors: Alisawi Hussein Abed Obaid 
Published: June 2023

Abstract

Wastewater heat recovery (HR) is one of the renewable energy sources. The associated harmful environmental, health, and social effects of traditional biomass, fossil fuel, and other polluted sources have enhanced the growing interest in the search for an alternate cleaner energy source globally. The major objective of this study is to develop a model to assess the impacts of wastewater flow (WF), the temperature of wastewater (TW), and internal temperature in sewer pipes (TA) on the performance of HR. Sanitary sewer networks in Karbala city of Iraq were chosen as a case study in the present research. Statistical and physically based models such as the storm water management model (SWMM), multiple-linear regression (MLR), and structural equation model (SEM) were used for this purpose. The model outputs were analyzed to assess the performance of HR in the context of changing WF, TW, and TA. The results showed that the total amount of HR from wastewater in Karbala city center during the 70 days was 136,000 Mw. The study clearly showed that WF in Karbala played a major role in HR. Basically, the heat from wastewater is CO2-free and represents a significant opportunity for the energy transition in the heating market.
ZNF667 Suppressed LPS-induced Macrophages Inflammation through mTOR-dependent Aerobic Glycolysis Regulation
Authors: Li Yong-Zhen , Chao Ru , Qu Shun-Lin , Huang Liang , Zhang Chi 
Published: June 2023

Background:
Macrophages participate in all stages of the inflammatory response, and the excessive
release of inflammatory mediators and other cytokines synthesized and secreted by macrophages is fundamentally
linked to an uncontrolled inflammatory response. The zinc finger 667 (ZNF667) protein, a novel DNAbinding
protein, has been shown to play a vital role in oxidative stress. However, none of the target genes in
macrophages or the potential roles of ZNF667 have been elucidated to date.

Objectives:
The present study was designed to investigate the effects of ZNF667 on LPS-induced inflammation
in macrophages.

Methods:
The RAW264.7 macrophage cell line was selected as a model system. Inflammatory response-related
gene expression levels and phosphorylation levels of PI3K, AKT, and mTOR were detected in LPS-treated
macrophages via RT-PCR and western blotting, respectively.

Results:
We found that LPS resulted in the up-regulation of ZNF667 in macrophages and a peak response in
ZNF667 protein expression levels when used at a concentration of 100 ng/mL. ZNF667 overexpression significantly
inhibited the LPS-induced up-regulation of iNOS, and IL-1β mRNA and protein expression levels, together
with the secretion of IL-1β, IL-6, and TNF-α. ZNF667 overexpression also inhibited PI3K, AKT, and
mTOR hyperphosphorylation and had no effect on the phosphorylation of NF-κB p65, ERK1/2, MAPK p38,
and the transcriptional activity of NF-κB in macrophages. The up-regulation of ZNF667 inhibited the levels of
expression of HK2 and PFKFB3, glucose consumption, and lactate production in LPS-stimulated macrophages.
The up-regulation of mRNA levels of LPS-induced glycolytic genes HK2 and PFKFB3 and the increased mRNA
expression of pro-inflammatory cytokines (IL-1β and iNOS) were abolished by hexokinase inhibitor 2-DG
in ZNF667-deficient macrophages. Meanwhile, glucose consumption and lactate production were abrogated in
macrophages when cells were treated with the specific mTOR inhibitor RPM.

Conclusion:
Our results demonstrate that ZNF667 suppressed LPS-stimulated RAW264.7 macrophage inflammation
by regulating mTOR-dependent aerobic glycolysis.
The Effect of Quercetin in the Yishen Tongluo Jiedu Recipe on the
Development of Prostate Cancer through the Akt1-related CXCL12/
CXCR4 Pathway
Authors: Ning Yu , Wu Yongrong , Zhou Qing , Teng Yongjie 
Published: June 2023

Background:
It remains a challenge to effectively treat prostate cancer (PCa) that affects
global men's health. It is essential to find a natural alternative drug and explore its antitumor
mechanism due to the serious toxic side effects of chemotherapy.

Methods:
The targets and signaling pathways were analyzed by network pharmacology and verified
by molecular docking and LC-MS. The proliferation, apoptosis, invasion, and migration of
DU145 cells were detected by the CCK-8 method, flow cytometry, and Transwell, respectively.
The Bcl-2, caspase-3, CXCL12, and CXCR4 expressions and Akt1 phosphorylation were determined
by Western blot. Akt1 overexpression was applied to identify the involvement of the Akt1-
related CXCL12/CXCR4 pathway in regulating PCa. Nude mouse tumorigenesis was performed to
analyze the effect of quercetin on PCa in vivo.

Results:
Network pharmacology analysis displayed that quercetin was the main active component
of the Yishen Tongluo Jiedu recipe and Akt1 was the therapy target of PCa. LC-MS analysis
showed that quercetin existed in the Yishen Tongluo Jiedu recipe, and molecular docking proved
that quercetin bound to Akt1. Quercetin inhibited the proliferation of DU145 cells by upregulating
caspase-3 and downregulating Bcl-2 expression, promoting apoptosis and reducing invasion and
migration abilities. In vivo, quercetin downregulated CXCL12 and CXCR4 expressions and inhibited
PCa development by the Akt1-related CXCL12/CXCR4 pathway.

Conclusion:
As the active component of the Yishen Tongluo Jiedu recipe, quercetin inhibited PCa
development through the Akt1-related CXCL12/CXCR4 pathway. This study provided a new idea
for PCa treatment and a theoretical basis for further research.
Comparison of the Sensor-Augmented Pump System with the Advanced
Hybrid Closed-Loop Delivery System: Quality of Life, Diabetes Distress,
and Glycaemic Outcomes in a Real-Life Context
Authors: Benioudakis Emmanouil S. , Karlafti Eleni , Kalaitzaki Argyroula , Kalpou Maria-Alexandra , Georgiou Evangelos D. , Savopoulos Christos , Didangelos Triantafyllos 
Published: June 2023

Background:
Type 1 diabetes mellitus (T1D) is a chronic disease that requires exogenous
insulin administration and intensive management to prevent any complications. Recent innovations
in T1D management technologies include the Advanced Hybrid Closed-Loop delivery system
(AHCL). The pioneer AHCL system provides automated basal and automated bolus corrections
when needed

Objective:
This study aimed to compare the Advanced Hybrid Closed-Loop (AHCL) system and
the Sensor-Augmented Pump (SAP) with Predictive Low Glucose Management (PLGM) system,
in relation to glycaemic outcomes, general and diabetes-related Quality of Life (QoL), and diabetes
distress.

Methods:
General and diabetes-related QoL were assessed with the Diabetes Quality of Life Brief
Clinical Inventory (DQOL-BCI) and the World Health Organization Quality of Life-BREF
(WHOQOL-BREF), respectively. Diabetes distress was assessed with the Diabetes Distress Scale
for Type 1 diabetes (T1-DDS).

Results:
Eighty-nine T1D adults participated in the study, mostly females (65.2%), with a mean
age of 39.8 (± 11.5 years). They had on average 23 years of diabetes (± 10.7) and they were on
continuous subcutaneous insulin infusion therapy. Significant differences favoring the AHCL over
the SAP + PLGM system were demonstrated by lower mean glucose levels, less time above range,
lower scores on DQOL-BCI, T1-DDS, and higher scores on WHOQOL-BREF. Finally, the linear
regression models revealed the association of time in range in most of the above aspects.

Conclusion:
This study highlighted the advantages of the AHCL system over the SAP + PLGM
system in the real-world setting in relation to general and diabetes-related QoL, diabetes distress,
and glycaemic outcomes.
Review for Optimal Human-gesture Design Methodology and Motion
Representation of Medical Images using Segmentation from Depth Data and
Gesture Recognition
Authors: Gupta Anju , Kumar Sanjeev , Kumar Sanjeev 
Published: June 2023

Abstract:
Human gesture recognition and motion representation has become a vital base of current intelligent human-machine interfaces because of ubiquitous and more comfortable interaction. Human-Gesture recognition chiefly deals with recognizing meaningful, expressive body movements involving physical motions of face, head, arms, fingers, hands or body. This review article presents a concise overview of optimal human-gesture and motion representation of medical images. This paper surveys various works undertaken on human gesture design and discusses various design methodologies used for image segmentation and gesture recognition. It further provides a general idea of modeling techniques for analyzing hand gesture images and even discusses the diverse techniques involved in motion recognition. This survey provides an insight into various efforts and developments made in the gesture/motion recognition domain through analyzing and reviewing the procedures and approaches employed for identifying diverse human motions and gestures for supporting better and devising improved applications in near future.
Disease Quantification of Liver Lymphoma in CT Images without Lesion
Segmentation
Authors: Li Kexin , Huang Xinwang , Sun Chunxue , Xie Qiancheng , Cong Shijie 
Published: June 2023

Aim:
This study aimed to automatically implement liver disease quantification (DQ) in lymphoma using CT images without lesion segmentation.

Background:
Computed Tomography (CT) imaging manifestations of liver lymphoma include diffuse infiltration, blurred boundaries, vascular drift signs, and multiple lesions, making liver lymphoma segmentation extremely challenging.

Methods:
The method includes two steps: liver recognition and liver disease quantification. We use the transfer learning technique to recognize the diseased livers automatically and delineate the livers manually using the CAVASS software. When the liver is recognized, liver disease quantification is performed using the disease map model. We test our method in 10 patients with liver lymphoma. A random grouping cross-validation strategy is used to evaluate the quantification accuracy of the manual and automatic methods, with reference to the ground truth.

Results:
We split the 10 subjects into two groups based on lesion size. The average accuracy for the total lesion burden (TLB) quantification is 91.76%±0.093 for the group with large lesions and 95.57%±0.032 for the group with small lesions using the manual organ (MO) method. An accuracy of 85.44%±0.146 for the group with larger lesions and 81.94%±0.206 for the small lesion group is obtained using the automatic organ (AO) method, with reference to the ground truth.

Conclusion:
Our DQ-MO and DQ-AO methods show good performance for varied lymphoma morphologies, from homogeneous to heterogeneous, and from single to multiple lesions in one subject. Our method can also be extended to CT images of other organs in the abdomen for disease quantification, such as Kidney, Spleen and Gallbladder.
In silico Prediction of ADMET/Drug-likeness Properties of Bioactive
Phloroglucinols from Hypericum Genus
Authors: da Silva Camila Pires Machado , das Neves Gustavo Machado , Poser Gilsane Lino von , Eifler-Lima Vera Lucia , Rates Stela Maris Kuze 
Published: June 2023

Background:
Dimeric acylphloroglucinols occurring in species from sections Brathys and Trigynobrathys of the genus Hypericum exhibit acylfilicinic acid and acylphloroglucinol moieties linked by a methylene bridge. However, this chemical feature differs from hyperforin, from H. perforatum (Hypericum section), some dimeric acylphloroglucinols, such as uliginosin B, display similar pharmacological activities, namely antidepressant and antinociceptive. However, there is no knowledge about the pharmacokinetic profile and no toxicity studies of these compounds in intact mammals.

Objective:
to perform an in silico evaluation of the similarity, pharmacokinetics and toxicity (ADMET) properties of dimeric acylphloroglucinols from species native to Central and South America.

Methods:
ADMET prediction of eleven elected phloroglucinols followed by the chemical space evaluation of thirty-five dimeric acylphloroglucinols derivatives labeled according to their prenylation/geranylation pattern through principal component analysis (PCA). The similarity analysis was performed using the Tanimoto similarity index. ADMET properties were predicted with the open-source software SwissADME and pkCSM-pharmacokinetics.

Results:
Several compounds showed good human intestinal absorption. However, they may present difficulties in crossing the blood-brain barrier, probably due to the high tPSA values. The predicted toxicity parameters indicated that most compounds have low toxicity. Most non-prenylated phloroglucinols were disposed into Lipinski’s rule limits. Uliginosin B, isouliginosin B and japonica seem to be druglike compounds. The PCA model explained 77.49% of the total variance, and molecular similarity analyses revealed some expected similarities between isomers and different compounds.

Conclusion:
dimeric acylphloroglucinols may be promising drug candidates and deserve further pharmacological and medicinal chemistry studies.
A Survey on Bio-based Food Packaging Material About the Presence and
Migration of Flame Retardants
Authors: Buiarelli Francesca , Simonetti Giulia , Acquaviva Luca , Riccardi Carmela , Pomata Donatella , Di Filippo Patrizia 
Published: June 2023

Introduction:
The present work fits in the context of verifying the safety of some food contact
materials (FCMs) declared sustainable, checking for the presence of different classes of contaminants and
their possible migration.

Background:
Alternative packaging materials have started to step in the market in substitution to plastic
for several years. Most of them come from natural, biological sources to meet biodegradability and compostability.
Nevertheless, some contaminants can be present and concerning for human health.

Objective:
To pursue the goal, we focused on brominated flame retardants, in particular new brominated
flame retardants and bromophenols, as they are considered emerging contaminants, and no legislation has
been enacted yet.

Methods:
After the evaluation of their presence in the seven investigated samples, we adopted migration
tests into proper simulants recommended by the legislation. The analyses were carried out both by gas
chromatography-mass spectrometry and by high-performance liquid chromatography-tandem mass spectrometry.

Results:
All the items taken into consideration contained detectable concentrations of the investigated
compounds. The total amount of new brominated flame retardants were considered irrelevant to proceed
with the migration study, whereas the migration of bromophenols was studied in deep due to the greater
amount present.

Conclusion:
In overall, the findings obtained on real samples showed that, except in one case the percentage
of chemicals migration measured was very low, to be considered not concerning for human health in
most of the cases.
Biodegradable Polymeric Microspheres as Drug Carriers for Anti-
Microbial Agent
Authors: Bansal Nidhi , Rao Komal , Yadav Nikita , Minocha Neha 
Published: June 2023

Introduction:
Microspheres, the novel drug delivery system that offers therapeutic alternatives to single-unit dosage forms, both conventional and quick release. Microspheres are solid microspheres having a diameter of 1-1000 µm. Microspheres can be made utilising various procedures that
vary in their effectiveness and dosage form administration when compared to standard dosage forms.

Background:
The idea of targeted drug delivery is to concentrate the treatment in the target tissues
while lowering the relative concentration of the drug in the non-target tissues. As a result, the medication is concentrated at the desired location. Thus, the medication has no effect on the tissues nearby.
Therefore, by combining the drug with carrier particle like microspheres, nanoparticles, liposomes, niosomes, etc., that regulates the release and absorption characteristics of the drug, carrier technology
offers an intelligent way for drug delivery.

Results:
Microspheres are naturally biodegradable materials made of proteins or synthetic polymers
that flow freely. Its formulation is approachable, maintaining the desired concentration at the site of
interest without unfavorable effects and reliably delivering the drug to the target site with specificity.

Conclusion:
Microspheres attracted a lot of interest for their sustained release as well as their ability
to direct anti-cancer medications to the tumour using biodegradable polymers. Due to this, future drug
delivery systems for innovative medications will heavily rely on microspheres.
Recent Approaches to Enhance Osteogenesis of Dental Pulp Stem Cells on
Electrospun Scaffolds
Authors: Safari Zahra , Aghili Seyedeh Sara , Hassantash Sahar , Iranmanesh Ehsan , Abouali Mehdi , Bagherianlemraski Mobina , Ghasemzadeh Shabnam , Dadgar Esmaeel , Barati Ghasem , Saburi Ehsan 
Published: June 2023

Abstract:
Critical-sized bone defects are a challenging issue during bone regeneration. Bone tissue engineering
is aimed to repair such defects using biomimicking scaffolds and stem cells. Electrospinning allows
the fabrication of biocompatible, biodegradable, and strengthened scaffolds for bone regeneration.
Natural and synthetic polymers, alone or in combination, have been employed to fabricate scaffolds with
appropriate properties for the osteogenic differentiation of stem cells. Dental pulps are rich in stem cells,
and dental pulp stem cells (DPSCs) have a high capacity for proliferation, differentiation, immunomodulation,
and trophic factor expression. Researchers have tried to enhance osteogenesis through scaffold
modification approaches, including incorporation or coating with mineral, inorganic materials, and herbal
extract components. Among them, the incorporation of nanofibers with hyaluronic acid (HA) has been
widely used to promote osteogenesis. In this review, the electrospun scaffolds and their modifications
used in combination with DPSCs for bone regeneration are discussed.
The Effectiveness of Face Masks in Preventing COVID-19 Transmission: A Systematic Review
Authors: SeyedAlinaghi SeyedAhmad , Karimi Amirali , Afsahi Amir Masoud , Mirzapour Pegah , Varshochi Sanaz , Mojdeganlou Hengameh , Mojdeganlou Paniz , Razi Armin , Alilou Sanam , Dashti Mohsen , Ghasemzadeh Afsaneh , Saeidi Solmaz , Mehraeen Esmaeil , Dadras Omid 
Published: June 2023

Introduction:Since the beginning of the COVID-19 pandemic, face masks have been among the cornerstones of COVID-19 prevention. Therefore, evaluating their preventive effects against COVID-19 is crucial. This review aimed to systematically search for the systematic review articles that explored the role of various types of face masks in preventing COVID-19.Methods:We browsed the keywords of this study in the online databases of Scopus, Web of Science, PubMed, and Cochrane on 10th January 2023 and retrieved all the relevant systematic review articles. The records were downloaded into an Endnote file, and the duplicates were removed. A two-step screening process consisting of title/abstract and full-text screenings was conducted to select the most relevant articles. To ensure the validity and reliability of the results, this study adhered to the PRISMA protocol.Results:A total of 28 systematic reviews were included in this review. Most studies found that face masks are beneficial against viral respiratory infections, such as COVID-19. Different types of masks were evaluated in included studies. It appeared that mask efficacy depends on the material, layers, fitting on the face and user compliance. N 95 respirator had maximum efficacy, especially when used continuously.Conclusion:Face masks have a beneficial effect against COVID-19. Home masks are less protective than surgical masks or N95 personal breathing masks. Besides, the use of masks may elicit a false sense of security in people, which may lead to poor hand hygiene and violation of social distancing. Therefore, the necessary training should be provided to the public to increase awareness and encourage the right practice of using the mask, emphasizing the preventive effects of washing hands, social distancing, and using a face mask against COVID-19.