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Preprint REVIEW | doi:10.20944/preprints202403.0876.v1

Innovations in Medicine: Exploring ChatGPT's Impact on Rare Disorder Management

Stefania Zampatti, Cristina Peconi, Domenica Megalizzi, Giulia Calvino, Giulia Trastulli, Raffaella Cascella, Claudia Strafella, Carlo Caltagirone, Emiliano Giardina

Subject: Medicine And Pharmacology, Other Keywords: Artificial Intelligence; ChatGPT; Rare Disorders

Online: 15 March 2024 (14:41:58 CET)

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Preprint ARTICLE | doi:10.20944/preprints202406.0327.v1

Genomic Landscape of Susceptibility to Severe COVID-19 in the Slovenian Population

Anja Kovanda, Tadeja Lukežič, Aleš Maver, Hana Vokač Križaj, Mojca Čižek Sajko, Julij Šelb, Matija Rijavec, Urška Bidovec-Stojković, Barbara Bitežnik, Boštjan Rituper, Peter Korošec, Borut Peterlin

Subject: Medicine And Pharmacology, Other Keywords: severe COVID-19; severe outcome of SARS-CoV-2 infection; whole-genome sequencing; WGS; genetic susceptibility; rare variants; human rare genomic variants

Online: 6 June 2024 (07:30:51 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202402.1128.v1

Genetic Factors Contributing to the Pathogenesis of Essential Hypertension in Two African Populations

Kusha Kalideen, Brian Rayner, Raj Ramesar

Subject: Biology And Life Sciences, Other Keywords: essential hypertension; South Africa; Mixed Ancestry; Xhosa; RAAS; AGTR1; AGT; ACE; CYP11B2

Online: 20 February 2024 (09:20:43 CET)

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Preprint CASE REPORT | doi:10.20944/preprints202409.0406.v1

G6PD Potenza: A Novel Pathogenic Variant Broadens the Mutational Landscape in the Italian Population

Claudio Ricciardi Tenore, Eugenia Tulli, Claudia Calo, Roberto Bertozzi, Jessica Evangelista, Giulia Maneri, Martina Rinelli, Francesca Brisighelli, Alessia Perrucci, Elisa De Paolis, Andrea Urbani, Maria De Bonis, Angelo Minucci

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: G6PD Potenza; Sanger Sequencing; G6PD deficiency; RFLP; Italian population

Online: 5 September 2024 (08:20:55 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.0571.v1

Streamlined Two-Step Fragment Analysis PCR and Exome Sequencing of RFC1 for Diagnostic Testing of Suspected CANVAS Patients

Helena Jaklič, Ivana Babič Božović, Borut Peterlin, Anja Kovanda

Subject: Medicine And Pharmacology, Other Keywords: Cerebellar ataxia neuronopathy and vestibular areflexia syndrome (CANVAS); RFC1; genetic testing; genetic diagnostics, ; fluorescent PCR; repeat-primed PCR; repeat-expansion; fragment length analysis

Online: 11 March 2024 (05:36:41 CET)

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Preprint ARTICLE | doi:10.20944/preprints202405.0159.v1

The TGFβ Induced MicroRNAome of the Trabecular Meshwork

Chelsey Doyle, Breedge Callaghan, Anton W Roodnat, Lee Armstrong, Karen Lester, David A Simpson, Sarah D. Atkinson, Carl Sheridan, Declan J McKenna, Colin E Willoughby

Subject: Medicine And Pharmacology, Ophthalmology Keywords: glaucoma; primary open-angle glaucoma; POAG; trabecular meshwork; intra-ocular pressure; pseudoexfoliation glaucoma; microRNA; miRNA; transforming growth factor beta; TGFβ ; fibrosis; epigenetics; gene therapy; therapeutics

Online: 3 May 2024 (11:22:57 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202404.0420.v1

Pirfenidone Reverts Global DNA Hypomethylation, Promoting DNMT1/UHRF/PCNA Coupling Complex in Experimental Hepatocarcinoma

Hipolito Otoniel Miranda-Roblero, Liliana Faridi Saavedra-Salazar, Marina Galicia-Moreno, Scarlet Arceo-Orozco, Fernando Caloca-Camarena, Ana Sandoval-Rodríguez, Jesús García-Bañuelos, Claudia Frias-Gonzalez, Monica Almeida-López, Erika Martínez-López, Juan Armendariz-Borunda, Hugo Christian Monroy-Ramirez

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Hepatocellular carcinoma; DNMT1; DNMT3a; c-Myc; β -catenin

Online: 5 April 2024 (08:39:31 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201703.0162.v1

Evaluation of the Effects of Airborne Particulate Matter on Bone Marrow-Mesenchymal Stem Cells (BM-MSCs): Cellular, Molecular and Systems Biological Approaches

Muhammad Abu-Elmagd, Mansour A Alghamdi, Magdy Shamy, Mamdouh I Khoder, Max Costa, Mourad Assidi, Roaa Kadam, Haneen Alsehli, Mamdooh Gari, Peter Natesan Pushparaj, Gauthaman Kalamegam, Mohammed Al-Qahtani

Subject: Medicine And Pharmacology, Pathology And Pathobiology Keywords: Particulate matter; BM-MSCs; cell proliferation; cell death; qRT-PCR; IPA

Online: 20 March 2017 (16:33:56 CET)

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Preprint REVIEW | doi:10.20944/preprints202406.0329.v1

Are Viruses Taxonomic Units? – A Protein Domain and Loop-Centric Phylogenomic Assessment

Gustavo Caetano-Anollés

Subject: Biology And Life Sciences, Virology Keywords: holobionts; hologenomes; LUCA; origin of viruses; phylogenomic reconstruction; process; protein structure; reductive evolution; superkingdom; syncytins

Online: 6 June 2024 (07:52:20 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202405.0840.v1

Genetic Architecture of CHD in NICU patients – UMC Ljubljana Experience

Ana Peterlin, Sara Bertok, Karin Writzl, Luca Lovrečić, Aleš Maver, Maruša Debeljak, Gregor Nosan

Subject: Medicine And Pharmacology, Cardiac And Cardiovascular Systems Keywords: congenital heart disease; chromosomal microarray analysis; next-generation sequencing

Online: 13 May 2024 (12:12:36 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.1964.v1

Full Coverage Path Planning for Torpedo-type AUVs’ Marine Survey Confined in Convex Polygon Area

Ji-Hong Li, Hyungjoo Kang, Min-Gyu Kim, Mun-Jik Lee, Han-Sol Jin

Subject: Engineering, Marine Engineering Keywords: Marine survey; CPP (coverage path planning); full coverage; AUVs (autonomous underwater vehicles); convex polygon; path smoothing

Online: 24 July 2024 (17:40:17 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202406.0099.v1

Detailed Profiling of the Tumor Microenvironment in Ethnic Breast Cancer, Using Tissue Microarrays and Multiplex Immunofluorescence

Mohamed Zaakouk, Aisling Longworth, Kelly Hunter, Suhaib Jiman, Mervat El-Deftar, Abeer Shaaban

Subject: Medicine And Pharmacology, Pathology And Pathobiology Keywords: Tumor microenvironment; Multiplex immunofluorescence; Ethnic breast cancer; Multispectral imaging; TILs; T helper cells; Treg cells; FOXP3; TAMs; B cells

Online: 3 June 2024 (16:07:13 CEST)

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Preprint REVIEW | doi:10.20944/preprints202404.1075.v1

Genomic Approaches for Drug Repurposing

Kirtan Dave, Meenakshi Sharma, Dahavl Patel, Parmdeep Singh Dhanda, Alpa Yadav, Mukul Jain

Subject: Biology And Life Sciences, Life Sciences Keywords: drug repurposing; genomics; Proteomics; NGS

Online: 17 April 2024 (11:38:22 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.0561.v2

Genomic and Phenotypic Analysis of Salmonella enterica Bacteriophages Identifies Two Novel Phage Species

Sudhakar Bhandare, Opeyemi U. Lawal, Anna Colavecchio, Brigitte Cadieux, Yella Zahirovich-Jovich, Zeyan Zhong, Elizabeth Tompkins, Margot Amitrano, Irena Kukavica-Ibrulj, Brian Boyle, Siyun Wang, Roger C. Levesque, Pascal Delaquis, Michelle Danyluk, Lawrence Goodridge

Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: Salmonella; bacteriophage; diversity; host specificity; comparative phylogenomics; food safety.

Online: 13 March 2024 (14:07:08 CET)

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Preprint ARTICLE | doi:10.20944/preprints202403.0244.v1

The Effect of Genome Parametrization and SNP Marker Subsetting on Genomic Selection in Autotetraploid Alfalfa

Nelson Nazzicari, Nicolo Franguelli, Barbara Ferrari, Luciano Pecetti, Paolo Annicchiarico

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: legumes; alfalfa; genomic selection; SNP calling pipeline; autotetraploidy; polyploidy; genome parametrization; SNP subsetting

Online: 5 March 2024 (10:25:28 CET)

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Preprint REVIEW | doi:10.20944/preprints202312.0712.v1

Antivirals and Biologics for Broader Coverage Against Human Coronaviruses

Mia Outteridge, Christine Margaret Nunn, Kevin Devine, Bhaven Patel, Gary R McLean

Subject: Biology And Life Sciences, Virology Keywords: coronavirus; antiviral; biologic

Online: 12 December 2023 (07:45:11 CET)

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Coronaviruses (CoVs) are enveloped positive-sense single-stranded RNA viruses with a genome 27-31kbases in length. Critical genes include the spike (S), envelope (E), membrane (M), nucleocapsid (N) and 9 accessory open reading frames encoding for non-structural proteins (NSPs) that have multiple roles in the replication cycle and immune evasion (1). There are 7 known human CoVs that most likely appeared after zoonotic transfer, the most recent being SARS-CoV-2 responsible for the Covid-19 pandemic. Antivirals that have been approved by the FDA for use against Covid-19 such as Paxlovid can potentially target and successfully inhibit the main protease (MPro) activity of multiple human CoVs, however alternative proteomes encoded by CoV genomes have a closer genetic similarity to each other, suggesting that antivirals could be developed now that target future CoVs. New zoonotic introductions of CoVs to humans are inevitable and unpredictable. Therefore, new antivirals are required to control not only the next human CoV outbreak, but also the 4 common human CoVs (229E, OC43, NL63, HKU1) that circulate frequently and to contain sporadic outbreaks of the severe human CoVs (SARS-CoV, MERS and SARS-CoV-2). The current study found that emerging antiviral drugs, such as Paxlovid, have only been proven to target SARS-CoV-2. Other drugs which have the potential to target other human CoVs, are still within clinical trial and are not yet available for public use. Monoclonal antibody (mAb) treatment and vaccines for SARS-CoV-2 can reduce mortality and hospitalisation rates, however they target the Spike protein whose sequence mutates frequently and drifts. Spike also is not applicable for targeting other HCoVs as these are not well conserved sequences among human CoVs. Thus, there is a need for readily available treatments globally that target all 7 human CoVs and improve the preparedness for inevitable future outbreaks. Here we discuss antiviral research contributing to the control of common and severe CoV replication and transmission, including the current SARS-CoV-2 outbreak. The aim was to identify common features of CoVs for antivirals, biologics and vaccines that could reduce the scientific, political, economic and public health strain caused by CoV outbreaks now and in the future.

Preprint ARTICLE | doi:10.20944/preprints202306.1239.v1

Resilient Localization and Coverage in the Internet of Things

Yaser Al Mtawa, Hossam S. Hassanein, Nidal Nasser

Subject: Computer Science And Mathematics, Computer Networks And Communications Keywords: Wireless Sensor Network; Internet of Things (IoT); IoT Deployment; Localization; Sensing Coverage; Reliable Services; Intra-triangle Coverage; Delaunay Triangulation

Online: 16 June 2023 (12:08:21 CEST)

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Preprint REVIEW | doi:10.20944/preprints202407.1479.v1

Diagnosis of Chronic Granulomatous Disease: Strengths and Challenges in the Genomic Era

Conor John O’Donovan, Lay Teng Tan, Mohd Azri Zainal Abidin, Marion Ruth Roderick, Alexandros Grammatikos, Jolanta Bernatoniene

Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: Inborn errors of immunity (IEI); Chronic granulomatous disease (CGD); NADPH oxidase; Nitroblue tetrazolium (NBT); Dihydrorhodamine (DHR); Genetic testing; Genomic testing; Screening

Online: 18 July 2024 (14:38:08 CEST)

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Preprint ARTICLE | doi:10.3390/sci1010030

Health Insurance Coverage Before and After the Affordable Care Act

Jesse Patrick, Philip Q. Yang

Subject: Public Health And Healthcare, Health Policy And Services Keywords: health insurance coverage; determinants; the Affordable Care Act; Obamacare; partial implementation; full implementation

Online: 10 June 2019 (00:00:00 CEST)

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Preprint REVIEW | doi:10.20944/preprints202311.1531.v1

Sex Differences in Colon Cancer: Genomic and Non‐Genomic Signaling of Estrogen

Brian Joseph Harvey, Harry Myles Harvey

Subject: Biology And Life Sciences, Endocrinology And Metabolism Keywords: colon cancer; estrogen; estrogen receptors, sex differences

Online: 23 November 2023 (13:35:24 CET)

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Preprint ARTICLE | doi:10.20944/preprints202404.1502.v1

Genomic Profiling and Expression Analysis of BPC Gene Family in Brassica oleracea in Comparison with Arabidopsis

Muhammad Asad Ullah, Akmal Zubair, Aqsa Parvaiz, Inzamam Ul Haq, Hayssam M. Ali, Waleed A. A. Alsakkaf, Mohamed E. Hasan

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: basic pentacysteine; genomic analysis; chromosomal mapping; gene expression

Online: 23 April 2024 (07:29:04 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.0302.v1

IL-10 and IL-1β Serum Levels, Genetic Variants, and Metabolic Syndrome: Insights into Older Adults' Clinical Characteristics

Renata de Souza Freitas, Calliandra Maria De Souza Silva, Caroline Caroline Ferreira Fratelli, Luciano Ramos de Lima, Marina Morato Stival, Silvana Schwerz Funghetto, Izabel Cristina Rodrigues da Silva, Rosângela Vieira de Andrade

Subject: Public Health And Healthcare, Primary Health Care Keywords: Metabolic Syndrome; Interlekine-10; Interlekine-1β ; older population; IL10 rs1800890; IL1B rs1143627

Online: 6 March 2024 (11:09:09 CET)

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Preprint ARTICLE | doi:10.20944/preprints202408.2221.v1

Human-Activity-Mediated Gene Flows Are Involved in the Establishment of Magnaporthe oryzae Population Structures: A Population Genomic Analysis

Guohua Duan, Yuchan Liu, Cheng Zheng, Kaihui Yu, Jiahui Xie, Baohua Wang, Huakun Zheng, Wei Tang, Jiandong Bao, Zonghua Wang, Meilian Chen

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: Magnaporthe oryzae; population structure; genetic diversity; gene flow

Online: 30 August 2024 (08:36:22 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.0837.v1

BacSPaD: A Robust Bacterial Strains’ Pathogenicity Resource Based on Integrated and Curated Genomic Metadata

Sara Ribeiro, Guillaume Chaumet, Karine Alves, Julien Nourikyan, Lei Shi, Jean-Pierre Lavergne, Ivan Mijakovic, Simon de Bernard, Laurent Buffat

Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: Bacterial pathogenicity; Genomic metadata analysis; Bioinformatics; Microbiology research; Public health surveillance

Online: 11 July 2024 (00:01:42 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202408.0599.v1

A Comprehensive Analysis of the Genomic and Expressed Repertoire of the T Cell Receptor Beta Chain in Equus caballus

Rachele Antonacci, Francesco Giannico, Roberta Moschetti, Angela Pala, Anna Caputi Jambrenghi, Serafina Massari

Subject: Biology And Life Sciences, Life Sciences Keywords: alpha-beta T cell; TRB locus; Perissodactyla; Equus; equine genome; immunogenetics; evolution

Online: 8 August 2024 (08:48:37 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202408.0800.v1

Wastewater Genomic Surveillance to Track Infectious Disease-Causing Pathogens in Agadir and Inezgane Cities

Maryem Wardi, Ahmed Belmouden, Mohamed Aghrouch, Abdellah Lotfy, Youssef Idaghdour, Zohra Lemkhente

Subject: Biology And Life Sciences, Virology Keywords: Wastewater-based epidemiology; COVID-19; SARS-CoV-2; Influenza A; Morocco; Genomic surveillance

Online: 13 August 2024 (03:24:22 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202404.1545.v1

Effect of a National Health Insurance Coverage Benefit Extension Policy on Long-Term Outcomes of Ventilated Patients with Severe Pneumonia: A Nationwide Cohort Study

Wanho Yoo, Hyojin Jang, Min Ki Lee, Hye-Kyung Park, Mi-Hyun Kim, Yeongdae Kim, Jungmin Son, Jinmi Kim, Kwangha Lee

Subject: Medicine And Pharmacology, Pulmonary And Respiratory Medicine Keywords: health expenditures; health insurance; Pneumonia; mechanical ventilator; mortality

Online: 23 April 2024 (15:28:03 CEST)

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Preprint CASE REPORT | doi:10.20944/preprints202312.1095.v2

Genomic Exploration of Pediatric Neurological Diversity: Lessons from Clinical Exome Panel Sequencing

Naresh Tayade, Anjali Krishna A, Gautham Manoj, Akshay Kewat, Rajiv Devulapalli, Somesh Kumar, Sunil K Polipalli, Bipin G Nair, Obul Reddy Bandapalli, Prashanth Suravajhala

Subject: Medicine And Pharmacology, Pediatrics, Perinatology And Child Health Keywords: Rare conditions; Neurological disorders; Autism; Arthrogryposis; Bilateral cataract

Online: 7 August 2024 (00:30:58 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201709.0107.v2

Rosetta Mission: Electron Scattering Cross Sections—Data Needs and Coverage in BEAMDB Database

Bratislav P. Marinković, Jan Hendrik Bredehöft, Veljko Vujčić, Darko Jevremović, Nigel J. Mason

Subject: Physical Sciences, Atomic And Molecular Physics Keywords: electron scattering; cross sections; Rosetta mission; atomic and molecular databases

Online: 21 October 2017 (15:30:59 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.0487.v2

Why Does Cross-Sectional Analyst Coverage Incorporate Market-Wide Information?

Yunfei Hou, Changsheng Hu

Subject: Social Sciences, Decision Sciences Keywords: Analyst coverage; Exponential distribution; Market-wide information; Maximum entropy

Online: 12 March 2024 (08:43:58 CET)

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Preprint REVIEW | doi:10.20944/preprints201810.0708.v1

Overview of Genomic Tools for Circular Visualization in next-Generation Genomic Sequencing Era

Alisha Parveen, Sukank Khurana, Abhishek Kumar

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: circular visualization; circos; genomics; next-generation sequencing

Online: 30 October 2018 (07:06:35 CET)

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Preprint ARTICLE | doi:10.20944/preprints202009.0626.v1

Joint Optimization Strategy of Coverage Planning and Energy Scheduling for Wireless Rechargeable Sensor Networks

Cheng Gong, Chao Guo, Haitao Xu, Chengcheng Zhou, Xiaotao Yuan

Subject: Engineering, Automotive Engineering Keywords: Wireless Rechargeable Sensor Network; Coverage Optimization; Virtual Force; Particle Swarm Optimization; Queuing Game

Online: 26 September 2020 (12:18:41 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.1767.v1

Integration of Automatic Test Generators For Maximizing the Code Coverage Level

Ivan Jakovljević, Aleksander Radovan

Subject: Engineering, Electrical And Electronic Engineering Keywords: automatic test generation; jUnit; Spring framework; JaCoCo; EvoMaster; EvoSuite

Online: 23 July 2024 (09:37:43 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202305.0343.v1

Maximizing test coverage for security threats Using Optimal Test Data Generation

Talha Hussain, Rizwan Bin Faiz, Mohammad Aljaidi, Adnan Khattak, Ghassan Samara, Ayoub Alsarhan, Raed Alazaidah

Subject: Computer Science And Mathematics, Software Keywords: Modified Condition/Decision Coverage; Decision Coverage; Test Coverage; Test Data; Object Constraint Language; Structured Misuse Case Description.

Online: 5 May 2023 (10:03:55 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202404.1794.v1

Genomic Characterization of Carbapenemase-Producing Enterobacter hormaechei, Serratia marcescens, Citrobacter freundii, Providencia stuartii and Morganella morganii Clinical Isolates from Bulgaria

Stefana Sabtcheva, Ivan Stoikov, Ivan N. Ivanov, Deyan Donchev, Magdalena Lesseva, Sylvia Georgieva, Deana Teneva, Elina Dobreva, Iva Christova

Subject: Medicine And Pharmacology, Medicine And Pharmacology Keywords: carbapenemases; NDM-1; VIM-4; VIM-86; OXA-48; horizontal gene transfer; Enterobacter; Serratia; Citrobacter; Providencia; Morganella

Online: 28 April 2024 (08:17:31 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.1579.v1

Combined Genome-Wide Association Studies (GWAS) and Linkage Mapping Identifies Genomic Regions Associated with Seedling Root System Architecture (RSA) under Different Nitrogen Conditions in Wheat (Triticum aestivum L.)

Yulin Jia, Ninglu Xu, Jun Zhang, Kaiming Ren, Jinzhi Wu, Chunping Wang, Ming Huang, Youjun Li

Subject: Biology And Life Sciences, Plant Sciences Keywords: Keywords：Triticum aestivum L; root system architecture; N use efficiency; GWAS; linkage mapping; 660K SNP chip; DArT

Online: 19 July 2024 (08:37:45 CEST)

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The nutrient absorption and utilization efficiency in the roots of seedlings are beneficial for increasing crop yield. Creating marker assisted selection for wheat root traits can assist wheat breeders in choosing robust roots to maximize nutrient uptake. Exploring and identifying the effect of different nitrogen applications on RSA is of great significance for breeding nitrogen efficient wheat varieties. In this study, A total of 243 wheat varieties native to the Yellow and Huai Valley regions of China were utilized for genome-wide association studies (GWAS). Furthermore, a recombinant inbred line (RIL) population of 123 lines derived from the cross between Avocet and Chilero was utilized for linkage examination and confirmation of the hereditary loci distinguished by GWAS. Five RSA traits include the relative number of root tips (RNRT); relative total root length (RTRL); relative total root surface area (RTRS); relative total root volume (RTRV) and relative average root diameter (RARD) where evaluated under two N conditions—normal N (NN) supply and low N (LN)—to characterize the NUE of each accession. GWAS and linkage analysis were performed by integrating data from the wheat 660k single nucleotide polymorphism (SNP) chip and diversity arrays technology (DArT) to identify genetic loci associated with RSA. The results showed that based on the ratio of RSA related traits under two N supply conditions, a total of 598 SNP markers, which are significantly associated with RSA related traits, were detected at 160 genetic loci by GWAS. A total of 10 QTL loci related to RSA were dis-covered and identified by linkage mapping. In which, three significant RSA related Quantitative Trait Locus (QTL) were identified, namely qRtrl-3D, qRnrt-3D, and qRtrl-7D. The study has the potential to enhance the effectiveness of selecting root traits in wheat breeding programs, offering valuable insights into the genetic underpinnings of nitro-gen use efficiency (NUE) in wheat. This could lead to the creation of NUE wheat varieties by implementing focused breeding strategies.

Preprint ARTICLE | doi:10.20944/preprints202309.1566.v1

CYP2D6 and CYP2C19 Variant Coverage of Commercial Antidepressant Pharmacogenomic Testing Panels Available in Victoria, Australia

Malcolm Forbes, Mal Hopwood, Chad Bousman

Subject: Medicine And Pharmacology, Psychiatry And Mental Health Keywords: pharmacogenetics; psychiatry; personalized medicine; CYP2D6; CYP2C19

Online: 22 September 2023 (11:46:06 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202308.2037.v1

Coverage Analysis of LoRa and NB-IoT Technologies on LPWAN-based Agricultural Vehicle Tracking Application

Hakkı Soy

Subject: Engineering, Electrical And Electronic Engineering Keywords: LoRa; NB-IoT; LPWAN; coverage; vehicle tracking; smart farming

Online: 30 August 2023 (15:26:14 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202009.0645.v2

Implementing WHO Guidance on Conducting and Analysing Vaccination Coverage Cluster Surveys: Two Examples from Nigeria

John Ndegwa Wagai, Dale A. Rhoda, Mary L. Prier, Mary Kay Trimner, Caitlin B. Clary, Joseph Oteri, Bassey Okposen, Adeyemi Adeniran, M. Carolina Danovaro-Holliday, Felicity T. Cutts

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: survey; vaccination coverage; WHO; Nigeria

Online: 18 November 2020 (12:18:02 CET)

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Preprint COMMUNICATION | doi:10.20944/preprints202404.1865.v1

Detection and Characterization of Methylated Circulating Tumor DNAs in Gastric Cancer

Seung Young Seo, Sang Hee Youn, Jin-Han Bae, Sung-Hun Lee, Sun Young Lee

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Gastric cancer; Liquid biopsy; MeDIP; Fragment

Online: 29 April 2024 (10:34:32 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202402.1069.v1

GWAS in a Collection of Bulgarian Old and Modern Bread Wheat Accessions Uncovers Novel Genomic Loci for Grain Protein Content and Thousand Kernel Weight

Tania Kartseva, Vladimir Aleksandrov, Ahmad M. Alqudah, Mian Abdur Rehman Arif, Konstantina Kocheva, Dilyana Doneva, Katelina Prokopova, Andreas Börner, Svetlana Misheva

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: association mapping, candidate genes, grain protein content, TKW, grain quality, grain yield, Triticum aestivum L.

Online: 19 February 2024 (15:26:36 CET)

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Preprint REVIEW | doi:10.20944/preprints202407.1052.v1

Targeting Androgen, Thyroid Hormone, and Vitamin A and D Receptors to Treat Prostate Cancer

Brigitte Hantusch, Lukas Kenner, Vesna S Stanulović, Maarten Hoogenkamp, Geoffrey Brown

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Prostate cancer; nuclear hormone receptors; androgen receptor; thyroid hormone receptor; retinoic acid receptor; vitamin D receptor

Online: 12 July 2024 (13:59:33 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.1634.v1

Genomic Insight into the COVID-19 Severity in MAFLD Patients: A Single-Center Prospective Cohort Study

Mykhailo Buchynskyi, Valentyn Oksenych, Iryna Kamyshna, Olena Budarna, Oleksandr Kamyshnyi

Subject: Medicine And Pharmacology, Epidemiology And Infectious Diseases Keywords: MAFLD; liver disease; SNP; COVID-19; SARS-CoV-2; interferon

Online: 27 March 2024 (15:01:31 CET)

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Preprint ARTICLE | doi:10.20944/preprints202007.0336.v3

Factors Influencing Genomic Prediction Accuracies of Tropical Maize Resistance to Fall Armyworm and Weevils

Arfang Badji, Lewis Machida, Daniel Bomet Kwemoi, Frank Kumi, Dennis Okii, Natasha Mwila, Symphorien Agbahoungba, Angele Ibanda, Astere Bararyenya, Selma Ndapewa Nghituwamhata, Thomas Odong, Peter Wasswa, Mildred Ochwo-Ssemakula, Herbert Talwana, Godfrey Asea, Michael Otim, Samuel Kyamanywa, Patrick Rubaihayo

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Prediction accuracy; Mixed linear and Bayesian models; Machine Learning algorithms; Training set size and composition; Parametric and nonparametric models

Online: 17 September 2020 (05:41:51 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202403.0192.v1

Correlating Quantitative and Genomic SARS-CoV-2 Wastewater Data with Clinical Metrics in Metropolitan Perth, Western Australia

Jake Gazeley, Terence Lee, Daniel R Knight, Alexander Shivarev, Cameron Gordon, David Speers, Dylan D Barth, Jelena Maticevic, Meredith Hodge, Paul Armstrong, Paul Knight, Sandra Sjollema, Avram Levy

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: Wastewater-based epidemiology; SARS-CoV-2; COVID-19; surveillance system; correlation analysis; genomics

Online: 5 March 2024 (09:07:35 CET)

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Preprint ARTICLE | doi:10.20944/preprints202306.0382.v1

Reaching Universal Coverage of Water and Sanitation Services: Is Regionalization a Sustainable Path for Developing Countries?

Willian Narzetti, Francisco Silva Pinto, Daniel Narzetti, Tiago Cetrulo

Subject: Social Sciences, Other Keywords: water and sanitation services; water governance; universal access; financial-economic capacity; sustainability; regionalization.

Online: 6 June 2023 (05:32:30 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202207.0037.v1

Challenges and Evolution of Water Level Monitoring towards a Comprehensive, World-Scale Coverage with Remote Sensing

Mélissande Machefer, Martí Perpinyà-Vallès, Maria José Escorihuela, David Gustafsson, Laia Romero

Subject: Environmental And Earth Sciences, Environmental Science Keywords: remote sensing; satellite; altimetry; water level; water inland; essential climate variable; database; hydrology

Online: 4 July 2022 (08:02:24 CEST)

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Surface water availability is a fundamental environmental variable to implement effective climate adaptation and mitigation plans, as expressed by scientific, financial and political stakeholders. Recently published requirements urge the need for homogenised access to long historical records at a global scale, together with the standardised characterisation of the accuracy of observations. While satellite altimeters offer world coverage measurements, existing initiatives and online platforms provide derived water level data. However, these are sparse, particularly in complex topographies. This study introduces a new methodology in two steps 1) teroVIR, a virtual station extractor for a more comprehensive global and automatic monitoring of water bodies, and 2) teroWAT, a multi-mission, interoperable water level processor, for handling all terrain types. L2 and L1 altimetry products are used, with state-of-the-art retracker algorithms in the methodology. The work presents a benchmark between teroVIR and current platforms in West Africa, Kazakhastan and the Arctic: teroVIR shows an unprecedented increase from 55% to 99% in spatial coverage.A large-scale validation of teroWAT results in an average of unbiased root mean square error ubRMSE of 0.638 m on average for 36 locations in West Africa. Traditional metrics (ubRMSE, median, absolute deviation, Pearson coefficient) disclose significantly better values for teroWAT when compared with existing platforms, of the order of 8 cm and 5% improved respectively in error and correlation. teroWAT shows unprecedented excellent results in the Arctic, using a L1 products based algorithm instead of L2 one, reducing the error of almost 4 m on average. To further compare teroWAT with existing methods, a new scoring option, teroSCO, is presented, measuring the quality of the validation of time series transversally and objectively across different strategies. Finally, teroVIR and teroWAT are implemented as platform-agnostic modules and used by flood forecasting and river discharge methods as relevant examples. A review of various applications for miscellaneous end-users is given, tackling the educational challenge raised by the community.

Preprint REVIEW | doi:10.20944/preprints202405.0592.v1

Progress and Application of Genomic Selection in Sheep and Goat

Linyun Zhang, Yixin Duan, Naiyi Xu, Yongju Zhao

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Goat; Sheep; Genomic Selection; Genetic Evaluation; Accuracy

Online: 9 May 2024 (11:57:38 CEST)

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Preprint REVIEW | doi:10.20944/preprints202110.0011.v1

Artificial Intelligence and Machine Learning in Precision and Genomic Medicine

Sameer Quazi

Subject: Computer Science And Mathematics, Mathematical And Computational Biology Keywords: Machine Learning; Precision Medicine; Genomic Medicine; Therapeutic; Artificial Intelligence

Online: 1 October 2021 (11:41:27 CEST)

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Preprint REVIEW | doi:10.20944/preprints202406.1671.v1

Consent Considerations for Generation and Sharing of Genomic Data

Charles D. Warden

Subject: Public Health And Healthcare, Health Policy And Services Keywords: data sharing, policy, genomics, genetics

Online: 25 June 2024 (09:26:47 CEST)

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Preprint REVIEW | doi:10.20944/preprints202202.0042.v1

Utilizing Genomic Selection for Wheat Population Development and Improvement

Lance F. Merrick, Andrew W. Herr, Karansher S. Sandhu, Dennis N. Lozada, Arron H. Carter

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: plant breeding; two-part strategy; recurrent selection; population improvement; product development; optimization; genetic gain; cross-prediction

Online: 2 February 2022 (18:07:58 CET)

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Working Paper ARTICLE

Geographic and Genomic Distribution of SARS-CoV-2 Mutations

Daniele Mercatelli, Federico Manuel Giorgi

Subject: Biology And Life Sciences, Virology Keywords: SARS-CoV-2; genomics coronavirus; COVID-19 evolution

Online: 3 July 2020 (09:45:43 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202404.0184.v1

Carbohydrate Hydrolytic Activity, Antibiotic Resistance and Stress Tolerance of Lacticaseibacillus paracasei BCRC-16100 and Lacticaseibacillus paracasei ZFM54 for Probiotics Using Genomic and Biochemical Approaches

Peter James Icalia Gann, Jimmbeth Zenila P. Fabia, Althea Gay B. Pagurayan, Ma. Joy Theresa Agcaoili, Ryan James J. Pascual, Suerte M. Baranda, Arc Josam J. Racho, Marvielyn P. Olivar, Jayson F. Cariaga, Alvin Domingo, Dionisio S. Bucao, Shirley C. Agrupis

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: probiotics; nutrient digestion; antibiotic resistance; antibacterial activity; whole genome sequence

Online: 2 April 2024 (10:16:40 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202308.1265.v1

AutoBar: Automatic Barrier Coverage Formation for Danger Keep Out Applications in Smart City

Ying Shao, Qiwen Wang, Xingjian Lu, Zhanquan Wang, E Zhao, Shuang Fang, Jianxiong Chen, Linghe Kong, Kayhan Zrar Ghafoor

Subject: Computer Science And Mathematics, Computer Networks And Communications Keywords: barrier coverage; mobile sensor networks; boundary detection; convex analysis; virtual force

Online: 17 August 2023 (10:21:35 CEST)

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Barrier coverage is a fundamental application in wireless sensor networks, which is widely used to protect a region through intruder detection for smart city. In this paper, we study a new branch of barrier coverage, named warning barrier coverage (WBC). Different from the classic barrier coverage, WBC has the inverse protect direction, which protects unexpected visitors by warning them away from the region enclosed by sensor barriers. The WBC holds a promising prospect in many danger keep out applications for smart city. For example, a WBC can enclose the debris area in the sea and alarm any approaching ships in order to avoid their damaging propellers. One special feature of WBC is that the target region is usually dangerous and its boundary is previously unknown. Hence, the scattered mobile nodes need to detect the boundary and form the barrier coverage themselves. It is challenging to form these distributed sensor nodes into a barrier because a node can sense only the local information and there is no global information of the unknown region or other nodes. To this end, we propose a novel solution AutoBar for mobile sensor nodes to automatically form a WBC for smart city. To pursue the high coverage quality, we theoretically derive the optimal distribution pattern of sensor nodes using convex theory. Based on the analysis, we design a fully distributed algorithm that enables nodes to collaboratively move towards the optimal distribution pattern. In addition, AutoBar is able to reorganize the barrier even any node is broken. To validate the feasibility of AutoBar, we develop the prototype of the specialized mobile node, which consists of two kinds of sensors: one for boundary detection and another for visitor detection. Based on the prototype, we conduct extensive real trace driven simulations in various smart city scenarios. Performance results demonstrate that AutoBar outperforms the existing barrier coverage strategies in terms of coverage quality, formation duration, and communication overhead.

Preprint ARTICLE | doi:10.20944/preprints202305.1306.v1

Field Complete Coverage Path Planning Based on Improved Genetic Algorithm for Transplanting Robot

Xizhi Wu, Jinqiang Bai, Fengqi Hao, Guanghe Cheng, Yongwei Tang, Xiuhua Li

Subject: Computer Science And Mathematics, Robotics Keywords: Improved genetic algorithm; Complete coverage path planning; Autonomous agricultural robot

Online: 18 May 2023 (08:47:18 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202304.1025.v1

An Improved Salp Swarm Algorithm for Solving Node Coverage Optimization problem in WSN

Jiaming Wang, Zhengli Zhu, Fuquang Zhang, Yanxiong Liu

Subject: Computer Science And Mathematics, Data Structures, Algorithms And Complexity Keywords: wireless sensor network (WSN); Salp Swarm Algorithm (SSA); T-distribution; tent chaotic se-quence

Online: 27 April 2023 (04:05:52 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202204.0247.v1

Percentages of Vaccination Coverage Required To Establish Herd Immunity Against SARS-Cov-2

Pedro Plans-Rubió

Subject: Public Health And Healthcare, Health Policy And Services Keywords: Covid-19 vaccination coverage; anti-SARS-CoV-2 herd immunity; Covid-19 vaccination strategy; SARS-CoV-2

Online: 27 April 2022 (05:04:20 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202406.1293.v1

Vaccination Coverage and Predictors of Vaccination Among Children Aged 12-23 Months in the Pastoralist Communities of Ethiopia: A Mixed Methods Design

Muluken Dessalegn Muluneh, Sintayehu Abebe, Mhiret Ayele, Nuhamin Mesfin, Mohammed Abrar, Virginia Stulz, Makida Berhan

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: vaccination; pastoralist; afar; coverage; regression

Online: 18 June 2024 (16:59:04 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202306.0046.v1

The Future of Newborn Genomic Screening

JOHN David LANTOS

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: ethics; genomics; neonates; outcomes; economics

Online: 1 June 2023 (07:23:07 CEST)

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Preprint REVIEW | doi:10.20944/preprints202111.0394.v1

Genomic Designing of Climate Smart Turmeric

Arpitha Shankar

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: Turmeric; Climate change; Improved nutrition

Online: 22 November 2021 (13:27:03 CET)

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Preprint REVIEW | doi:10.20944/preprints202109.0441.v1

Genomic Risk Factors for Cervical Cancer

Dhanya Ramachandran, Thilo Dörk

Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: Cervical cancer; cervical dysplasia, HPV, HLA, GWAS, genetic susceptibility, meta-analysis, SNP, eQTL, Papillomavirus

Online: 24 September 2021 (15:28:14 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202103.0242.v1

Genomic Fabric Remodeling in Prostate Cancer

Sanda Iacobas, Dumitru A. Iacobas

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: apoptosis; evading apoptosis; expression variability; cancer functional pathway; prostate cancer phenotype; immortality; proliferation; P53 signaling; transcriptomic network

Online: 9 March 2021 (08:44:15 CET)

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Preprint CASE REPORT | doi:10.20944/preprints202408.0010.v1

Genomic Insights into Idiopathic Granulomatous Mastitis through Whole Exome Sequencing: A Case Report of Eight Patients

Seeu Si Ong, Peh Joo Ho, Alexis Jiaying Khng, Benita Kiat Tee Tan, Qing Ting Tan, Ern Yu Tan, Su-Ming Tan, Thomas Choudary Putti, Swee Ho Lim, Ee Ling Serene Tang, Jingmei Li, Mikael Hartman

Subject: Medicine And Pharmacology, Obstetrics And Gynaecology Keywords: breast pathology; breast abscess; suppurative breast lesion; tuberculous mastitis; breast cancer; mastitis; idiopathic granulomatous mastitis; somatic mutations; pathogenic mutations; whole-exome sequencing

Online: 1 August 2024 (10:59:25 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202211.0228.v1

Genomic Diversity and Chromosomal Rearrangements in Neisseria Gonorrhoeae and Neisseria Meningitidis

Boris Shaskolskiy, Dmitry Kravtsov, Ilya Kandinov, Ekaterina Dementieva, Dmitry Gryadunov

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Neisseria gonorrhoeae; Neisseria meningitidis; whole genome sequencing; chromosomal rearrange-ments; mobile elements

Online: 14 November 2022 (02:11:22 CET)

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Preprint CASE REPORT | doi:10.20944/preprints202404.0136.v1

From Investigating a Case of Cellulitis to Exploring Nosocomial Infection Control of ST1 Legionella pneumophila Using Genomic Approaches

Charlotte Michel, Fedoua Echahidi, Sammy Place, Lorenzo Filippin, Vincent Colombie, Nicolas Yin, Delphine Martiny, Olivier Vandenberg, Denis Piérard, Marie Hallin

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: Legionella pneumophila; Legionella pneumophila ST1; WGS; genomic typing; wgMLST; cgMLST; wgSNP; nosocomial; hygiene investigation

Online: 2 April 2024 (07:26:36 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202405.0043.v1

Genomic Investigation for Potential Therapeutic Use of Abiraterone in the Amazonian Indigenous Population

Jonatas Monteiro Nobre, Marianne R. Fernandes, Jose Oliveira Venancio, Giovanna Gilioli da Costa Nunes, NEY PEREIRA CARNEIRO DOS SANTOS, PAULO PIMENTEL ASSUMPÇÃO, ÂNDREA RIBEIRO-DOS-SANTOS, SIDNEY EMANUEL BATISTA DOS SANTOS, Juliana CARLA GOMES RODRIGUES, Natasha Monte, Rommel M. R. Burbano, João Farias Guerreiro, Kaio Evandro Cardoso Aguiar

Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: abiraterone; prostate; amazonian; indigenous; cancer

Online: 1 May 2024 (05:34:03 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202407.0713.v1

Genomic Selection for Growth and Wood Traits in Castanopsis hystrix

Weihua Zhang, Ruiyan Wei, Yuanzhen Lin

Subject: Biology And Life Sciences, Plant Sciences Keywords: Castanopsis hystrix; genomic selection; growth trait; wood trait; early selection; SNP

Online: 9 July 2024 (08:45:04 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202107.0068.v1

Genomic Landscape of Angiosarcoma: A Targeted and Immunotherapy Biomarker Analysis

Andrea Espejo-Freire, Andrew Elliot, Andrew Rosenberg, Philippos Apolinario Costa, Priscila Barreto Coelho, Emily Jonczak, Gina D’Amato, Ty Subhawong, Junaid Arshad, Julio A. Diaz-Perez, W. Michael Korn, Matthew J. Oberley, Daniel Magee, Don Dizon, Margaret von Mehren, Moh'd M. Khushman, Atif Mahmoud Hussein, Kirsten Leu, Jonathan C. Trent

Subject: Medicine And Pharmacology, Immunology And Allergy Keywords: Angiosarcoma; biomarkers; tumor microenvironment; immunotherapy, next generation sequencing, whole transcriptome sequencing.

Online: 2 July 2021 (15:43:54 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202006.0089.v1

Genomic Variations and Signatures of Selection in Wuhua Yellow Chicken

Zhuoxian Weng, Yongjie Xu, Weina Li, Jiebo Chen, Ming Zhong, Fusheng Zhong, Bingwang Du, Bin Zhang, Xunhe Huang

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Wuhua yellow chicken; whole genome resequencing; heritable variation; selection signal

Online: 7 June 2020 (14:42:23 CEST)

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Preprint REVIEW | doi:10.20944/preprints201906.0178.v1

Evaluation of the Genomic Basis for Alzheimer’s and Parkinson’s Diseases

Pratip Rana, Edian F. Franco, Yug Rao, Khajamoinuddin Syed, Debmalya Barh, Vasco Azevedo, Rommel T. J. Ramos, Preetam Ghosh

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Alzheimer's disease; Parkinson's disease; genetics; gene regulatory network; miRNAs

Online: 18 June 2019 (13:07:49 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202312.2134.v2

The Musa Marker Database: a Comprehensive Genomic Resource for the Improvement of the Musaceae Family

Manosh Kumar Biswas, Dhiman Biswas, Ganjun Yi, Guiming Deng

Subject: Biology And Life Sciences, Horticulture Keywords: Microsatellite; SNP; ILP; database; Musa sp.

Online: 15 April 2024 (10:44:37 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202112.0060.v1

3D Placement of a New Tethered UAV to UAV Relay System for Coverage Maximization

Nour El-Din Safwat, Fatma Newagy, Ismail Hafez

Subject: Engineering, Electrical And Electronic Engineering Keywords: UAV network; Tethered UAVs; Placement Algorithms

Online: 6 December 2021 (11:19:33 CET)

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Working Paper ARTICLE

Proposed Smooth-STC Algorithm for Enhanced Coverage Path Planing Performance in Mobile Robot Applications

Hai Van Pham, Philip Moore, Dinh Xuan Truong

Subject: Computer Science And Mathematics, Robotics Keywords: mobile robotic systems; coverage path planning; smooth-STC algorithm; robotic C-space path planning

Online: 26 March 2019 (09:37:15 CET)

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Preprint ARTICLE | doi:10.20944/preprints202405.1436.v1

Climate Change Impacts on Mediterranean Coral Oculina Patagonica: Reproductive Resilience and Thermal Performance

Tamar Shemesh, Shani Levy, Abigail Einbinder, Itai Kolsky, Jessica Bellworthy, Tali Mass

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: Climate Change, Temperate Coral, Reproductive Resilience, Thermal Performance, Bleaching.

Online: 22 May 2024 (12:43:17 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202309.0154.v1

Evaluation of Smallpox Vaccination Coverage and Attitude towards Monkeypox Vaccination among Healthcare Workers in An Italian University Hospital

Sergio Scarinci, Martina Padovan, Bianca Cosci, Armando Petillo, Vittorio Gattini, Francesca Cosentino, Aldo Mignani, Rudy Foddis, Giovanni Guglielmi

Subject: Public Health And Healthcare, Public, Environmental And Occupational Health Keywords: Vaccine coverage; monkeypox; Mpox; Smallpox; healthcare workers; occupational health; occupational exposure; vaccination attitude.

Online: 5 September 2023 (03:15:19 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202204.0255.v1

First Genomic Insights Into The Mandevilla Genus

Fabio Palumbo, Samela Draga, Francesco Scariolo, Gio Batta Sacilotto, Marco Gazzola, Gianni Barcaccia

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: genome assembly; Apocynaceae; SSR; superbarcoding; flow cytometry; monoterpene indole alkaloids; DNA barcoding; cpDNA; Mandevilla sanderi

Online: 27 April 2022 (10:07:43 CEST)

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Preprint REVIEW | doi:10.20944/preprints202202.0048.v1

Optimizing Plant Breeding Programs For Genomic Selection

Lance F. Merrick, Andrew W. Herr, Karansher S. Sandhu, Dennis N. Lozada, Arron H. Carter

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Plant Breeding; Speed Breeding; Training Population; Field Design; Multi-Environment; Multi-Trait; Deep Learning; High-Throughput Phenotyping; Genetic Gain

Online: 3 February 2022 (10:41:44 CET)

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Preprint REVIEW | doi:10.20944/preprints202103.0209.v1

Genomic Mapping in Detection of Vascular Disorders

Sameer Quazi, Arnaud Capuzzo, Javid Ahmad Malik

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: Genetic Mapping; Vascular system; Embryogenesis; Vascular disorder; PIk3CA gene

Online: 8 March 2021 (10:43:40 CET)

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Preprint ARTICLE | doi:10.20944/preprints201907.0169.v1

Genomic Analysis of the Polyvalent Bacteriophage FP01

Ignacio Vasquez, Julio Retamales, Barbara Parra, James Robeson, Javier Santander

Subject: Biology And Life Sciences, Immunology And Microbiology Keywords: polyvalent bacteriophage FP01, Escherichia coli, Salmonella, genome

Online: 12 July 2019 (13:07:09 CEST)

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Preprint REVIEW | doi:10.20944/preprints201812.0156.v1

The Report of Marine Life Genomic Research

Guangyi Fan, Jianwei Chen, Tao Jin, Chengcheng Shi, Xiao Du, He Zhang, Yaolei Zhang, Hanbo Li, Ting Luo, Pengxu Yan, Guang Liu, Xiangqun Chi, Xiaoxuan Tan, Liangwei Li, Guilin Liu, Xiaochuan Liu, Shijie Hao, Kai Han, Xiaoyun Huang, Shuai Sun, Jing Zhou, Mengjun Yu, Lingfeng Meng, Yue Chang, Rui Zhang, Kaiqiang Liu, Mengqi Zhang, Yong Zhao, Chang Li, Jiao Guo, Xinyu Guo, Jiahao Wang, Meiqi Lv, Haoyang Gao, Yujie Liu, Yue Song, Shengjun Wang, Yang Deng, Binjie Ouyang, Jinzhong Lin, Yingjia Yu, lynn Fink, Xianwei Yang, Xun Xu, Xin Liu

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: Marine microorganisms, marine fungi, algae, marine plants, marine invertebrates, marine vertebrates, genome, metagenome

Online: 12 December 2018 (15:44:09 CET)

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Preprint ARTICLE | doi:10.20944/preprints202407.1356.v1

Comparative Analysis of Comprehensive Genomic Profile in Thymomas and Recurrent Thymomas Reveals Potentially Actionable Mutations for Target Therapies

Filippo Lococo, Elisa De Paolis, Jessica Evangelista, Andrea Dell’Amore, Diana Giannarelli, Marco Chiappetta, Annalisa Campanella, Carolina Sassorossi, Alessandra Cancellieri, Fiorella Calabrese, Emanuele Vita, Angelo Minucci, Emilio Bria, Angelo Castello, Andrea Urbani, Federico Rea, Stefano Margaritora, Giovanni Scambia

Subject: Medicine And Pharmacology, Oncology And Oncogenics Keywords: NGS; recurrent thymoma; surgery; CGP; gene profile; clinical trials

Online: 17 July 2024 (11:00:23 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202402.0459.v1

Sociodemographic and Clinical Predictors of Health Insurance Coverage among Patients Seeking Viral Hepatitis B and C Services in Nigeria: A Cross-Sectional Facility-Based Study

Abiola Victor Adepoju, Donald C Udah, Chinonye Ezenwa Alioha, Jamiyu Ganiyu, Sumaiya Muhammad Lawal, James Ambo Haruna, Ibrahim Adamu Alhassan

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: Health insurance; Nigeria; Universal health Coverage; Sociodemographic predictors; Viral hepatitis B and C;

Online: 8 February 2024 (08:15:43 CET)

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Abstract: Background: Viral hepatitis B and C (HBV and HCV) pose significant public health challenges globally, particularly in Nigeria, where access to healthcare and treatment affordability are major concerns. This study aims to identify sociodemographic and clinical predictors of health insurance coverage among patients with HBV and HCV in Nigeria. Methods: A cross-sectional facility-based study was conducted at two secondary hospitals in Nasarawa State, Nigeria. Par-ticipants included patients diagnosed with HBV, HCV, or both and are > 18 years old. Data were collected using a structured questionnaire covering sociodemographic and clinical information, health insurance details, and economic impact. Logistic multivariate regression analysis was used to analyze the relationship between sociodemographic/clinical variables and health insurance status. Results: Out of 295 participants included in the final analysis, 67.1% had health insur-ance, primarily covering hepatitis screening and vaccination. Being aged 31-45 years (adjusted Odds Ratio [aOR]: 5.72, 95% Confidence Interval [CI]: 1.4 - 23.28, p = 0.02), having post-secondary education (aOR: 11.73, CI: 4.09 - 33.66, p < 0.001), and being HIV-positive (aOR: 2.86, CI: 1.02 - 8.02, p = 0.046) were significant predictors of health insurance coverage. Being unemployed significantly reduced the likelihood of having health insurance (aOR: 0.04, CI: 0.01 - 0.11, p < 0.001).Conclusions: This study reveals high insurance coverage among patients seeking viral hepatitis services in Nasarawa state, Nigeria and provides critical insights into the sociodemo-graphic predictors of health insurance coverage. It also highlights the need for the expansion health insurance benefit package that covers for viral hepatitis diagnosis and treatment, espe-cially for the younger adults, unemployed and less educated populations. This should be followed with adequate budgeting and policy implementation monitoring efforts, which are crucial for Nigeria's journey towards universal health coverage and elimination of viral hepatitis.

Preprint REVIEW | doi:10.20944/preprints202403.0424.v1

Genomic Atlas 2.0 Emerging Strategies and Technologies in Advanced Genetic Mapping

Mohammad Odah

Subject: Biology And Life Sciences, Biology And Biotechnology Keywords: Genomic atlas 2.0; advanced genetic mapping; high-throughput sequencing; long-read sequencing technologies; spatial genomics; CRISPR technologies; integrative genomic mapping

Online: 8 March 2024 (03:57:26 CET)

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Working Paper ARTICLE

Genomic Characterization and Phylogenetic Analysis of SARS-CoV-2 during the early phase of the pandemic in Asia

Jale Moradi, Mohsen Moghoofei, Mohammad Doroudian, Ramin Abiri

Subject: Biology And Life Sciences, Anatomy And Physiology Keywords: SARS-CoV-2; Phylogenetics; Asia

Online: 15 January 2021 (13:14:15 CET)

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Preprint REVIEW | doi:10.20944/preprints202110.0072.v1

Closing Connectivity Gap: An Overview of Mobile Coverage Solutions for Not-Spots in Rural Zones

Diego Fernando Cabrera-Castellanos, Alejandro Aragón-Zavala, Gerardo Castañón-Ávila

Subject: Engineering, Electrical And Electronic Engineering Keywords: aerial communication; FANET; not-spots; stratospheric communication platform; UAV; UAV-Assisted network; 5G

Online: 5 October 2021 (08:48:11 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202006.0073.v1

Significantly Improved COVID-19 Outcomes in Countries with Higher BCG Vaccination Coverage: A Multivariable Analysis

Danielle Klinger, Ido Blass, Nadav Rappoport, Michal Linial

Subject: Biology And Life Sciences, Virology Keywords: Epidemiology; SARS-CoV-2; Multivariable regression; Tuberculosis; Demography; Coronavirus; MMR vaccine

Online: 7 June 2020 (09:25:55 CEST)

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Preprint ARTICLE | doi:10.20944/preprints201806.0494.v1

The Determinants of Optional Insurance Coverage with FlexibleSpending Accounts in Post-Affordable Care Act-USA

Ibrahim Niankara

Subject: Social Sciences, Decision Sciences Keywords: Aordable Care Act, Flexible Spending Accounts, Insurance Coverage, Multiple Service Plans

Online: 29 June 2018 (16:10:38 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202406.1410.v1

Study Protocol for a Prospective Self-Controlled Trial on Success in Meeting Comprehensive Genomic Profiling Analysis Criteria for Specimens Obtained by Endoscopic Ultrasound-Guided Tissue Acquisition Using a 19G Needle from Primary and Metastatic Lesions

Kotaro Takeshita, Susumu Hijioka, Yoshikuni Nagashio, Hidenobu Hara, Daiki Agarie, Yuki Kawasaki, Tetsuro Takasaki, Shin Yagi, Yuya Hagiwara, Kohei Okamoto, Daiki Yamashige, Soma Fukuda, Masaru Kuwada, Yasuhiro Komori, Mao Okada, Yuta Maruki, Chigusa Morizane, Hideki Ueno, Yasushi Yatabe, Takuji Okusaka

Subject: Medicine And Pharmacology, Gastroenterology And Hepatology Keywords: endoscopic ultrasound-guided tissue acquisition; comprehensive genomic profiling; pancreatic cancer; metastatic lesion; fine-needle biopsy

Online: 20 June 2024 (13:14:56 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202404.0480.v1

Soil Moisture and Litter Coverage Drove the Altitude Gradient Pattern of Soil Arthropods Community in a Low Elevation Mountain

Haiming Qin, Jingwen Shang, Qin Qi, Bo Cao, Yong Kong, Yujian Li, Junfeng Chen, Xianfeng Yi

Subject: Biology And Life Sciences, Ecology, Evolution, Behavior And Systematics Keywords: soil fauna; community structure; elevation gradient; environmental factors

Online: 8 April 2024 (16:34:14 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202306.1828.v1

Genomic Surveillance of Rabies Virus in Georgian Canines

Celeste Huaman, Adrian C. Paskey, Caitlyn Clouse, Austin Feasley, Madeline Rader, Gregory K Rice, Andrea E Luquette, Maren C Fitzpatrick, Hannah M Drumm, Regina Z Cer, Marina Donduashvili, Tamar Buchukuri, Anna Nanava, Christine E Hulseberg, Michael A Washington, Eric D Laing, Francisco Malagon, Kimberly A Bishop-Lilly, Christopher C Broder, Brian C Schaefer

Subject: Biology And Life Sciences, Virology Keywords: Rabies; lyssaviruses; RABV; dog; jackal; canine; neutralization; genomics; next-generation sequencing; phylogeny

Online: 26 June 2023 (14:44:40 CEST)

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Preprint REVIEW | doi:10.20944/preprints202304.0326.v1

Recent Advances in the Genomic Resources for Sheep

Shernae A. Woolley, Mazdak Salavati, Emily L. Clark

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Sheep, genome, transcriptome, pangenome, gene editing

Online: 13 April 2023 (14:08:04 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202004.0016.v2

Retinal Genomic Fabrics Remodeling after Optic Nerve Injury

Pedro Henrique Victorino, Camila Marra, Dumitru Andrei Iacobas, Sanda Iacobas, David C Spray, Rafael Linden, Daniel Adesse, Hilda Petrs-Silva

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: glaucoma; retina ganglion cell degeneration; microarray; genes coordination; notch signaling pathway; complement cascade

Online: 23 February 2021 (12:44:20 CET)

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Glaucoma is a multifactorial neurodegenerative disease, characterized by degeneration of the retinal ganglion cells (RGCs). There has been little progress in developing efficient strategies for neuroprotection in glaucoma. We profiled the retina transcriptome of Lister Hooded rats at 2 weeks after optic nerve crush (ONC) and analyzed the data from the Genomic Fabric Paradigm (GFP) to bring additional insights into the molecular mechanisms of the retinal remodeling after induction of RGC degeneration. GFP considers for the expression of each gene 3 independent characteristics: level, variability and correlation with each other gene. Thus, the 17,657 quantified genes our study generated a total of 155,911,310 values to analyze. This represents 8,830x more data per condition than a traditional transcriptomic analysis. ONC led to a 57% reduction in RGC numbers as detected by retrograde labeling with DiI. We observed a higher Relative Expression Variability after ONC. Gene expression stability was used as a measure of transcription control and disclosed a robust reduction in the number of very stably expressed genes. Predicted Protein-Protein interaction (PPI) analysis with STRING revealed axon and neuron projection as mostly decreased processes, consistent with RGC degeneration. Conversely, immune response PPIs were found among up-regulated genes. Enrichment analysis showed that Complement Cascade and Notch Signaling Pathway, as well as Oxidative Stress and Kit Receptor Pathway were affected after ONC. To expand our studies of altered molecular pathways, we examined the pair-wise coordination of gene expressions within each pathway and within the entire transcriptome using Pearson correlations. ONC increased the number of synergistically coordinated pairs of genes and the number of similar profiles mainly in Complement Cascade and Notch Signaling Pathway. This deep bioinformatic study provides novel insights beyond the regulation of individual gene expression and discloses changes in the control of expression of Complement Cascade and Notch Signaling functional pathways that may be relevant for both RGC degeneration and remodeling of the retinal tissue after ONC.

Preprint REVIEW | doi:10.20944/preprints202009.0308.v1

Accelerating Tomato Breeding by Exploiting Genomic Selection Approaches

Elisa Cappetta, Giuseppe Andolfo, Antonio Di Matteo, Amalia Barone, Luigi Frusciante, Maria Raffaella Ercolano

Subject: Biology And Life Sciences, Agricultural Science And Agronomy Keywords: Tomato; genetic breeding value; training population; genotyping; marker effect; phenotyping; selection schemes

Online: 14 September 2020 (00:08:23 CEST)

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Preprint REVIEW | doi:10.20944/preprints201811.0571.v2

Revisiting Prostate Cancer in India: A Genomic View

Prameesha Perera, Ayam Gupta, Nidhi Shukla, Mamta Nehra, Mukesh Sharma, Sneha Mishra, Vikram Singh Chauhan, Maneesh Kumar Vijay, Suresh Kumar Jatawa, Archana Tiwari, Krishna Mohan Medicherla, Praveen Mathur, Devendra Sharma, Prashanth Suravajhala

Subject: Biology And Life Sciences, Biochemistry And Molecular Biology Keywords: prostate cancer; prostate-specific antigen; incidence; genomics; next generation sequencing

Online: 3 April 2019 (10:15:50 CEST)

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Preprint REVIEW | doi:10.20944/preprints202307.0870.v1

Investigating Cryptosporidium spp. Using Genomic and Proteomic Techniques: Current Progress and Future Directions

Joanna Dąbrowska, Jacek Sroka, Tomasz Cencek

Subject: Biology And Life Sciences, Animal Science, Veterinary Science And Zoology Keywords: Cryptosporidium spp.; genomics; proteomics

Online: 13 July 2023 (10:03:56 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202112.0366.v1

An Integrated Epigenomic and Genomic View on Phyllodes and Phyllodes-Like Breast Tumors

Juergen Hench, Tatjana Vlajnic, Savas Deniz Soysal, Ellen C Obermann, Stephan Frank, Simone Muenst

Subject: Medicine And Pharmacology, Pathology And Pathobiology Keywords: fibroepithelial breast lesions; phyllodes tumors; methylation analysis; copy number alterations; dimension reduction; unsupervised machine learning

Online: 22 December 2021 (12:46:50 CET)

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Preprint REVIEW | doi:10.20944/preprints202007.0587.v1

SARS-CoV-2 ORF8 and SARS-CoV ORF8ab: Genomic Divergence and Functional Convergence

Sameer Mohammad, Abderrezak Bouchama, Bothina Mohammad Alharbi, Mamoon Rashid, Tanveer Saleem Khatlani, Nusaibah S Gaber, Shuja Shafi Malik

Subject: Biology And Life Sciences, Virology Keywords: Keywords: COVID-19; SARS-CoV-2; SARS-CoV; Accessory Protein; ORF8; ORF8ab

Online: 24 July 2020 (13:51:12 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202408.1759.v1

Sex-Biased Associations of Circulating Ferroptosis Inhibitors with Reduced Lipid Peroxidation and Better Neurocognitive Performance in People with HIV

Harpreet Kaur, Ravi Kumar Alluri, Kunling Wu, Robert C Kalayjian, William S Bush, Frank J Palella, Susan L Koletar, Corrilynn O Hileman, Kristine M Erlandson, Ronald J Ellis, Roger J Bedimo, Babafemi O Taiwo, Katherine K Tassiopoulos, Asha R Kallianpur

Subject: Biology And Life Sciences, Neuroscience And Neurology Keywords: HIV; ferritin heavy-chain; ferritin light-chain; ferroptosis; lipid peroxidation; iron; oxidative stress; neurocognitive impairment; neurocognitive domains

Online: 24 August 2024 (00:22:41 CEST)

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Preprint ARTICLE | doi:10.20944/preprints202406.0525.v1

Evaluation of Mass Drug Administration Coverage for Lymphatic Filariasis in the Lukonga Health Zone in 2022

Patrick Ntumba, Pierre Zalagile Akilimali

Subject: Public Health And Healthcare, Public Health And Health Services Keywords: lymphatic filariasis; therapeutic coverage; supervised treatment; mass treatment; preventive chemotherapy

Online: 10 June 2024 (06:36:58 CEST)

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Abstract: (1) Background and rationale: To validate the reported therapeutic coverage, a lymphatic filariasis post-mass drug administration (MDA) campaign survey was conducted in the Lukonga health zone from 10 June to 15 July 2023. (2) Materials and methods: This was a descriptive, cross-sectional study conducted at the community level in 30 villages in the Lukonga health zone from 10 June to 15 July 2023. The study population included all individuals from the visited com-munities. The study variables included age, sex, drug use (ivermectin + albendazole), adverse events, and adherence to MDA guidelines for supervised drug use. Questionnaires were administered on Android phones using the SurveyCTO platform. Stata version 17 was used for data analysis. (3) Results: Of the 1092 respondents, 54.8% were female and one-third were between the ages of 5 and 14. Two-thirds of the households surveyed, or 64%, had more than six people living in them, and 1031 individuals, or 94%, reported being present during the community mass drug distribution. Notably, 678 individuals, or 66%, reported taking the drugs offered, and 66.4% of those who took the drugs reported doing so in the presence of drug distributors. Thus, the survey coverage was 65.7% [95% CI: 62.9–68.7]. The results of this study show that the survey coverage was above the 65% threshold recommended by the WHO but below the 82.3% reported by the Lukonga health zone. The main reason for non-compliance was a fear of ivermectin-related side effects (47%). Supervised or directly observed treatment was not adhered to (66.4%). (4) Discussion and conclusions: Key challenges to further increase treatment coverage include assessing data quality, building capacity, motivating drug distributors, improving data reporting tools, proper recording by drug distributors, and ac-curate reporting on non-residents who take the drugs during the MDA. In addition, harmonization of the numerator for calculating drug coverage in the health zone is critical.

Preprint ARTICLE | doi:10.20944/preprints202402.0301.v1

Clinicopathological and Genomic Identification of Breast Cancers with No Impact on Mortality

Salvador Gámez-Casado, Lourdes Rodríguez-Pérez, Cristina Bandera-López, Andrés Mesas-Ruiz, Alicia Campini Bermejo, Marta Bernal-Gómez, Manuel Zalabardo-Aguilar, Julio Calvete-Candenas, Gala Martínez-Bernal, Lidia Atienza-Cuevas, Marcial Garcia-Rojo, Encarnación Benítez-Rodríguez, Bella Pajares-Hachero, María José Bermejo-Pérez, José Manuel Baena-Cañada

Subject: Biology And Life Sciences, Life Sciences Keywords: Low-risk breast cancer; Metastasis; Observational study; Screening

Online: 5 February 2024 (16:30:40 CET)

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