bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identifying Hub Genes for Glaucoma based on Bulk RNA Sequencing Data and Multi-machine Learning Models
Authors: Xie Yangyang , Yu Kai 
Published: February 2024

Aims:
The aims of this study were to determine hub genes in glaucoma through multiple
machine learning algorithms.

Background:
Glaucoma has afflicted many patients for many years, with excessive pressure in
the eye continuously damaging the nervous system and leading to severe blindness. An effective
molecular diagnostic method is currently lacking.

Objective:
The present study attempted to reveal the molecular mechanism and gene regulatory
network of hub genes in glaucoma, followed by an attempt to reveal the drug-gene-disease network
regulated by hub genes.

Methods:
A microarray sequencing dataset (GSE9944) was obtained through the Gene Expression
Omnibus database. The differentially expressed genes in Glaucoma were identified. Based on these
genes, we constructed three machine learning models for feature training, Random Forest model
(RF), Least absolute shrinkage and selection operator regression model (LASSO), and Support
Vector Machines model (SVM). Meanwhile, Weighted Gene Co-Expression Network Analysis
(WGCNA) was performed for GSE9944 expression profiles to identify Glaucoma-related genes.
The overlapping genes in the four groups were considered as hub genes of Glaucoma. Based on these
genes, we also constructed a molecular diagnostic model of Glaucoma. In this study, we also
performed molecular docking analysis to explore the gene-drug network targeting hub genes. In
addition, we evaluated the immune cell infiltration landscape in Glaucoma samples and normal
samples by applying CIBERSORT method.

Results:
8 hub genes were determined: ATP6V0D1, PLEC, SLC25A1, HRSP12, PKN1, RHOD,
TMEM158 and GSN. The diagnostic model showed excellent diagnostic performance (area under
the curve=1). GSN might positively regulate T cell CD4 naïve as well as negatively regulate T
cell regulation (Tregs). In addition, we constructed gene-drug networks in an attempt to explore
novel therapeutic agents for Glaucoma.

Conclusion:
Our results systematically determined 8 hub genes and established a molecular diagnostic
model that allowed the diagnosis of Glaucoma. Our study provided a basis for future systematic
studies of Glaucoma pathogenesis.
Expression Profiling of EMT Transcriptional Regulators ZEB1 and ZEB2
in Different Histopathological Grades of Oral Squamous Cell Carcinoma
Patients
Authors: Baqai Neha , Amin Rafat , Fatima Tehseen , Ahmed Zeba , Faiz Nousheen 
Published: February 2024

Background:
Pakistan has a high burden of oral cancers, with a prevalence rate of
around 9%. Oral Squamous Cell Carcinoma (OSCC) accounts for about 90% of oral cancer cases.
Epithelial to Mesenchymal Transition (EMT) gets highly stimulated in tumor cells by adopting
subsequent malignant features of highly invasive cancer populations. Zinc Finger E-Box binding
factors, ZEB1 and ZEB2, are regulatory proteins that promote EMT by suppressing the adherent
ability of cells transforming into highly motile cancerous cells. The present study aimed to analyze the expression of EMT regulators, ZEB1 and ZEB2, and their association with the clinicopathological features in different grades of OSCC patients.

Methods:
Tissue samples were collected for both case and control groups from the recruited study
participants. Cancer tissues (cases) were collected from the confirmed OSCC patients, and healthy
tissues (controls) were collected from third-molar dental extraction patients. The study participants were recruited with informed consent and brief demographic and clinical characteristics.
The case group was further segregated with respect to the histological cancer grading system into
well-differentiated (WD), moderately differentiated (MD), and poorly differentiated (PD) squamous cell carcinoma (SCC) groups. RNA was extracted from the tissue samples for expression
profiling of ZEB1 and ZEB2 genes through quantitative real-time PCR (qRT-PCR).

Results:
All of the recruited participants had a mean age of 46.55 ± 11.7 (years), with most of
them belonging to Urdu speaking ethnic group and were married. The BMI (kg/m2
) of the healthy
participants was in the normal range (18-22 kg/m2
). However, BMI was found to be reduced with
the proliferation in the pathological state of cancer. The oral hygiene of patients was better than
the healthy participants, possibly due to the strict oral hygiene practice concerns of consultants.
Every recruited OSCC patient had one or multiple addiction habits for more than a year. Patients
reported health frailty (46.6%), unhealed mouth sores (40%), swallowing difficulties and
white/reddish marks (80%), and restricted mouth opening (64.4%). Furthermore, 82.2% of the recruited patients observed symptoms within 1-12 months, and buccal mucosa was the most exposed tumor site among 55.6% of the patients. Expression profiling of EMT regulators showed
gradual over-expressions of ZEB1 (8, 20, and 42 folds) and ZEB2 (4, 10, and 18 folds) in respective histological cancer grades.

Conclusion:
High expressions of ZEBs have been significantly associated with cancer progression and poor health. However, no association was found between OSCC with other clinicopathological features when compared to healthy controls.
Pharmacological Triggers of Takotsubo Cardiomyopathy: An Updated
Review of Evidence and Recommendations
Authors: Arunkumar S. , Jegaverrapandi K. 
Published: February 2024

Background:
Previous publications in 2011, 2016, and 2022 have presented lists of
drugs associated with takotsubo cardiomyopathy (TCM). This review aims to provide updated
drug lists that have been reported as potential causes of TCM.

Methods:
Following the same methodology employed in previous reviews, a detailed investigation
was carried out in the PubMed/Medline database from June 2022 to July 2023 to identify
drug-induced TCM (DITC) case reports. Various search terms related to the drug-induced transient
left ventricular ballooning syndrome, ampulla cardiomyopathy, apical ballooning syndrome,
drug-induced broken heart syndrome, drug triggered takotsubo cardiomyopathy, takotsubo
cardiomyopathy, and iatrogenic takotsubo cardiomyopathy were utilized. Filters for fulltext
availability, case reports, human studies, and English language were applied. Articles reporting
drugs associated with TCM development were included in the analysis.

Results:
Foremost 192 case reports were initially identified, with 75 drugs meeting the inclusion
criteria after a thorough review. The latest revision identified seven drugs that might lead
to TCM, with four drugs (57.14%) already reported in previous reviews and three drugs
(42.86%) newly identified. Consequently, the updated drug list potentially triggering TCM in
2023 comprises a sum of 75 drugs.

Conclusion:
The recent 75 drugs provided additional evidence linking to TCM development.
The updated list predominantly includes drugs that induce sympathetic overstimulation, although
some drugs on the list have unclear associations with sympathetic nervous system activation.
Energy and Performance Centric Resource Allocation Framework in
Virtual Machine Consolidation Using Reinforcement Learning Approach
Authors: Brahmam Madala Guru , R Vijay Anand 
Published: February 2024

Abstract::
Virtual machines are used to reduce cloud platform application performance, management
costs, and access irregularities. Virtual machines are frequently vulnerable to delays,
overburdening workloads, and other obstacles while consolidating and migrating servers. To
significantly disperse loads among virtual machines, dynamic consolidation techniques are implemented
to control energy dissipation, monitor overloading, and address underloading problems.

Background::
The process of consolidation involves more calculations and resources in order
to transfer services between virtual machines, provided that Service Level Agreements are observed.

Methods::
The suggested approach promotes the use of cutting-edge architecture to combine
virtual machines, and, therefore, strike a balance between performance and energy requirements.
The main design considerations for the suggested Dynamic Weightage algorithm,
which includes the clustering approach in relation to reinforcement learning approaches, are
overall resource needs and Performance to Power Ratio (PPR). A cluster of ideal virtual machines
is created, and resources are distributed according to performance and energy requirements.
Virtual machine resource requests are converted into a matching relationship factor,
which represents the individual hosts while taking PPR into account. The overall workload associated
with virtual machine consolidation is also provided by these estimations. It is noted
that there is little energy trade-off and that performance is maintained at a nominal level across
the cluster. The architecture is put into practice throughout offline platforms, which are dispersed
ecosystems that allow for increased system performance and scaling.

Results::
The CloudSim simulator is used to validate the system using datasets that are obtained
from PlanetLab. According to the data, energy saving has produced yields of up to 47% and
promising quality of service attributes.

Conclusion::
The validation of the system is performed using the CloudSim simulator with datasets
from PlanetLab. The results indicate significant energy conservation, up to 47%, along
with promising quality of service parameters. The proposed architecture is compared with other
state-of-the-art algorithms for distributed architectures and heterogeneous environments,
showcasing its efficiency. The conclusion emphasizes the prioritization of VM consolidation
and energy efficiency in the proposed architecture, which has been tested on a Proliant G7-
based data center using a variety of hosts. Notably, the CloudSim Toolkit is highlighted as outperforming
OpenStack-based techniques in simulation results.
Small Interference RNA Encapsulated in Liposomes: An Effective Strategy for In vitro Inhibition of SARS-CoV-2 Load
Authors: Rodrigues Joao Pedro Viana , Gonçalves Vanessa Pinheiro , Lourenço Francisco Dantas , Martins Ronaldo Bragança , do Nascimento Felipe Rocha , Arruda Eurico , de Figueiredo Nicolete Larissa Deadame , Nicolete Roberto 
Published: February 2024

Background:
The pressing need for effective SARS-CoV-2 antiviral medicines has driven
research into innovative therapeutic techniques. RNA interference with small interfering RNAs
(siRNAs) has shown promise as an antiviral treatment.

Objective:
We evaluated the effectiveness of lipid-based nanoparticles as a viable delivery platform
for siRNA-based approach against SARS-CoV-2 in vitro infection.

Methods:
Liposomes were fabricated by microfluidics to incorporate SARS-CoV-2-specific siRNAs
based on conserved sections of the Spike protein coding sequence. Nanoparticle tracking analysis
was used to evaluate the nanoparticles' physicochemical features. VERO cell lines infected with
SARS-CoV-2 were used to test the efficiency of siRNA-loaded liposomes. RT-PCR was used to
determine the viral load by quantifying the SARS-CoV-2 genome.

Results:
The results showed that liposomes efficiently decreased viral load in infected cells with
good physicochemical features, such as a mean particle size of about 180 nm, zeta potential of +2.5
mV and encapsulation efficiency (53.6%).

Conclusion:
These findings imply that lipid-based nanoparticles might be a targeted delivery strategy
for siRNA-based approaches.
Role of Ferroptosis in COVID-19 Pathogenesis: Insights from Iron Metabolism and Lipid Peroxidation Markers
Authors: Alvandi Maryam , Hashemi Seyyed Hamid , Shaghaghi Zahra , Marzhoseyni Zeynab , Ghasemi-Basir Hamid Reza , Mohammadi Mojdeh , Yazdi Amirhossein , Farzipour Soghra 
Published: February 2024

Objective:
Ferroptosis is a form of programmed cell death characterized by the irondependent
accumulation of lipid peroxides, leading to membrane damage and cell rupture. Several
lines of evidence suggest that ferroptosis may contribute to the pathogenesis and severity of COVID-
19. This study aimed to measure iron metabolism and lipid peroxidation markers in COVID-19 patients
to establish a direct link between ferroptosis and COVID-19.

Methods:
In the present cross-sectional study, the serum levels of hemoglobin (Hb), ferritin, and iron,
total iron binding capacity (TIBC), malondialdehyde (MDA), and glutathione (GSH) were assessed
in 100 COVID-19 patients diagnosed using Real-time PCR and compared to the levels in 100
healthy individuals.

Results:
Our findings revealed a significant increase in serum levels of ferritin and MDA in COVID-
19 patients compared to control subjects. Conversely, TIBC, Hb, Iron, and GSH levels were lower in
COVID-19 patients than in control.

Conclusion:
Our study provides further evidence supporting the significance of ferroptosis in the
pathogenesis of COVID-19. Further research aimed at elucidating the exact role of ferroptosis in
COVID-19 is warranted, as it may lead to improved strategies for mitigating multi-organ dysfunction
associated with this disease.
Preparation, Optimization and In Vitro Characterization of Fluticasoneloaded
Mixed Micelles Based on Stearic Acid-g-chitosan as a Pulmonary
Delivery System
Authors: Tasharoie Shima , Ostad Seyed Naser , Amini Mohsen , Sabourian Reyhaneh , Gilani Kambiz 
Published: February 2024

Purpose:
The primary objective of this study was to optimize formulation variables and
investigate the in vitro characteristics of fluticasone propionate (FP)-loaded mixed polymeric micelles,
which were composed of depolymerized chitosan-stearic acid copolymer (DC-SA) in combination
with either tocopheryl polyethylene glycol succinate or dipalmitoylphosphatidylcholine for
pulmonary drug delivery.

Methods:
A D-optimal design was employed for the optimization procedure, considering lipid/ polymer
ratio, polymer concentration, drug/ polymer ratio, and lipid type as independent variables.
Dependent variables included particle size, polydispersion index, zeta potential, drug encapsulation
efficiency, and loading efficiency of the polymeric micelles. Additionally, the nebulization efficacy
and cell viability of the optimal FP-loaded DC-SA micellar formulations were evaluated.

Results:
The mixed polymeric micelles were successfully prepared with properties falling within
the desired ranges, resulting in four optimized formulations. The release of FP from the optimal systems
exhibited a sustained release profile over 72 hours, with 70% of the drug still retained within
the core of the micelles. The nebulization efficiency of these optimal formulations reached up to
63%, and the fine particle fraction (FPF) ranged from 41% to 48%. Cellular viability assays demonstrated
that FP-loaded DC-SA polymeric micelles exhibited lower cytotoxicity than the free drug
but were slightly more cytotoxic than empty mixed micelles.

Conclusion:
In conclusion, this study suggests that DC-SA/ lipid mixed micelles have the potential
to serve as effective carriers for nebulizing poorly soluble FP.
Analisis Struktur Biaya dan Keuntungan Usaha (Studi Kasus pada Agroindustri Kopi Bubuk Cap Kapal Lampung dan Agroindustri Kopi Bubuk Cap Intan di Kota Bandar Lampung)
Authors: Murniati Ktut , Kasymir Eka , Lestari Dwi Ayu 
Published: February 2024

<p>Kopi merupakan salah satu komoditas perkebunan yang memiliki nilai ekonomi tinggi sebab dapat diolah menjadi kopi bubuk. Banyaknya permintaan terhadap kopi bubuk menyebabkan munculnya agroindustri kopi bubuk. Penelitian ini menggunakan metode studi kasus pada agroindustri kopi bubuk Cap Kapal Lampung dan agroindustri kopi bubuk Cap Intan di Kota Bandar Lampung. Penelitian ini bertujuan untuk menganalisis struktur biaya, keuntungan usaha, saluran pemasaran, dan peran jasa layanan penunjang pada kedua agroindustri kopi bubuk. Pengumpulan data dilakukan dari bulan Desember 2021 sampai dengan bulan Januari 2022. Struktur biaya diperoleh dari persentase pada setiap komposisi biaya terhadap total biaya yang dikeluarkan. Komponen biaya terbesar pada struktur biaya kedua agroindustri kopi bubuk adalah biaya bahan baku. Keuntungan usaha diperoleh dari pengurangan antara pendapatan dengan total biaya produksi. Kedua agroindustri kopi bubuk memberikan keuntungan setiap bulan sehingga kedua agroindustri kopi bubuk layak untuk dikembangkan. Saluran pemasaran diketahui untuk melihat bagaimana saluran distribusi yang digunakan kedua agroindustri kopi bubuk. Saluran pemasaran pada agroindustri kopi bubuk Cap Kapal Lampung terdiri dari tiga saluran pemasaran, sedangkan pada agroindustri kopi bubuk Cap Intan terdiri dari dua saluran pemasaran. Peran jasa layanan penunjang diketahui untuk melihat pemanfaatan jasa layanan penunjang dalam mendukung kegiatan yang dilakukan kedua agroindustri kopi bubuk. Agroindustri kopi bubuk Cap Kapal Lampung memanfaatkan enam jasa layanan penunjang, sedangkan agroindustri kopi bubuk Cap Intan memanfaatkan tujuh jasa layanan penunjang.</p>
Persepsi Petani Padi Sawah Irigasi dan Tadah Hujan terhadap Perubahan Iklim di Kabupaten Lampung Selatan
Authors: Saputra Ibrohim , Prasmatiwi Fembriarti Erry , Abidin Zainal , Setiawan Agus 
Published: February 2024

<p class="Default">Perubahan iklim yang terjadi saat ini sangat berdampak pada sektor pertanian. Mayoritas petani yang merupakan tokoh utama dalam sektor pertanian tidak mengetahui dan memahami kondisi perubahan iklim, sehingga banyak petani yang kurang tanggap terhadap perubahan iklim. Tujuan penelitian ini adalah menganalisis pengetahuan dan persepsi petani padi sawah lahan irigasi dan tadah hujan terhadap perubahan iklim. Penelitian dilakukan di Kecamatan Palas, Kecamatan Candipuro, dan Kecamatan Sidomulyo dari bulan Juni sampai September 2020. Sampel penelitian berjumlah 100 orang petani dengan rincian 50 orang petani padi irigasi dan 50 petani padi tadah hujan. Data dianalisis secara deskriptif dan menggunakan skala <em>likert. </em>Hasil penelitian menunjukkan bahwa mayoritas petani padi lahan irigasi dan tadah hujan tidak mengetahui dan memahami tentang perubahan iklim, hanya 10 persen petani irigasi dan 8 persen petani tadah hujan yang mengetahui tentang perubahan iklim. Mayoritas cukup setuju bahwa kondisi iklim saat ini berbeda dengan kondisi iklim 10 tahun terakhir dan mereka setuju adanya perubahan iklim berdampak pada usahatani padi yang mereka usahakan.</p><p><strong>Kata kunci: </strong>Iklim, Irigasi, Persepsi, Perubahan, Tadah Hujan<strong></strong></p>
Analisis Kinerja Rantai Pasok Produk Olahan Bawang Merah PT Sinergi Brebes Inovatif
Authors: Imaniyah Kamila Nur , Roessali Wiludjeng , Nurfadillah Suryani 
Published: February 2024

<p>Analisis kinerja rantai pasok diperlukan dalam manajemen perusahaan dengan mengukur kinerja melalui indikator-indikator yang terlibat dalam keseluruhan proses bisnis mencakup seluruh kegiatan yang berkaitan dengan arus dan transportasi produk, penciptaan nilai dari produsen ke konsumen, dan arus informasi yang terhubung di dalamnya. Penelitian bertujuan untuk mengidentifikasi, mendeskripsikan, serta menganalisis kinerja rantai pasok produk olahan bawang merah PT Sinergi Brebes Inovatif. Penelitian ini menggunakan metode deskriptif <em>Food Supply Chain Network</em> (FSCN) untuk membahas kondisi rantai pasok pasta bawang merah dan model <em>Supply Chain Operation Refference</em> (SCOR) serta perbandingan berpasangan untuk mengetahui tingkat kinerja rantai pasok pasta bawang merah. Teknik pengambilan sampel menggunakan teknik <em>snowball sampling</em> dengan partisipan yaitu petani pemasok, informan kunci perusahaan, dan konsumen. Hasil penelitian menunjukkan bahwa rantai pasok produk olahan bawang merah PT Sinergi Brebes Inovatif dimulai dari rantai pasok hulu yaitu petani pemasok, PT Sinergi Brebes Inovatif sebagai rantai pasok internal, dan konsumen sebagai bagian terakhir pada rantai pasok hilir. Saat ini, kinerja rantai pasok PT Sinergi Brebes Inovatif untuk produk pasta bawang merah yaitu 88,179 termasuk kategori sedang (<em>average</em>); kinerja rantai pasok untuk produk bawang <em>crispy </em>yaitu 79,064 termasuk kategori kurang (<em>below average</em>); dan kinerja rantai pasok untuk produk bawang goreng yaitu 86,542 termasuk kategori sedang (<em>average</em>).</p><p> </p>
Analisis Permintaan Jahe Selama Pandemi Covid-19 di Kota Payakumbuh (Studi Kasus: Pasar Ibuh Payakumbuh)
Authors: Wahyuni Laila , Putri Mega Amelia , Darnetti Darnetti 
Published: February 2024

<p>Jahe merupakan tanaman hortikultura jenis biofarmaka (tanaman obat) jahe memiliki banyak manfaat, tidak hanya untuk bumbu masakan tapi juga dapat dijadikan obat-obatan herbal. Selama pandemi permintaan jahe mengalami peningkatan karena dipercaya mampu meningkatkan imunitas tubuh dikala masa pandemi. Tujuan penelitian yakni 1) Menganalisis perbedaan permintaan, harga dan pendapatan konsumen selama pandemi 2) Menganalisis faktor-faktor yang mempengaruhi permintaan jahe selama pandemi covid-19 di pasar Ibuh Kota Payakumbuh. Jenis penelitian berupa deskriptif kuantitatif dengan sumber data berasal dari data primer melalui wawancara, kuesioner, dan observasi sedangkan data sekunder diperoleh dari <em>study</em> pustaka dari buku, jurnal, artikel ilmiah, dan data terdokumentasi dari Badan Pusat Statistik (BPS). Metode analisis data menggunakan deskriptif kuantitatif. Alat analisis <em>paired sample t-test</em> dan regresi linier berganda. Selama pandemi perekonomian mengalami ketidakstabilan, ditandai oleh jumlah permintaan jahe yang mengalami peningkatan sebesar 38%, seiring dengan meningkatnya harga jahe sebesar 141,6% dari hari biasanya serta pendapatan konsumen mengalami penurunan rata-rata sebesar 14%. Setelah dilakukan uji <em>paired sample t-tes</em> hasil menunjukan bahwa pendapatan, harga dan pendapatan konsumen selama pandemi menunjukan adanya perbedaan signifikan dari sebelum pandemi Covid-19. Hasil uji regresi linier berganda permintaan jahe selama pandemi di pasar Ibuh Kota Payakumbuh secara parsial dipengaruhi oleh beberapa faktor yaitu harga, pendapatan, pendidikan, jumlah anggota keluarga, dan produk pengganti namun umur dan motivasi tidak memberikan pengaruh nyata terhadap permintaan jahe selama pandemi Covid-19 di pasar Ibuh Kota Payakumbuh. Sedangkan secara simultan seluruh variabel yang digunakan memiliki pengaruh nyata signifikan terhadap permintaan jahe selama pandemi di pasar Ibuh Kota Payakumbuh.</p>