Best practices for the experimental design of one health studies on companion animal and owner microbiomes – From data collection to analysis by Suzanne B. Clougher, Dagmara Niedziela, Piera Versura, Grace Mulcahy

“…We present the main bioinformatics pipelines in sequencing-data microbiome analysis, as well as data analysis specific to pet-owner microbiome comparison. …”
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À la recherche des points-clefs de Gilbert Simondon autour d’un système d’information géographique by Stephan Kowal

“…This article examines the nature of cartographic information in terms of point, line, surface, scale and frame, disrupting certain conventions of representation and drawing, through digitising procedures, as well as a new technique of sequencing files, the introduction of the world’s coordinate system, regions of processable data, and their overlay. …”
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Small cell lung cancer with EML4-ALK fusion: report of a case responding to ALK TKI and literature review by Mingyue Wang, Hongzhi Liu, Ruixin Zhang, Runyu Li, Xiaoyu Qin, Fangling Ning, Lijun Tian

“…Abstract Purpose With the continuous development and progress of next-generation gene sequencing technology, many types of anaplastic lymphoma kinase (ALK) rearrangement have been discovered. …”
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Impact of Extracellular Matrix-Related Genes on the Tumor Microenvironment and Prognostic Indicators in Esophageal Cancer: A Comprehensive Analytical Study by Yinghong Wu, Wenjie Hu, Zhihong Jia, Qiying Zhu, Jinghui Xu, Liang Peng, Renjie Wang

“…Our study utilized next-generation sequencing and clinical data from esophageal cancer patients provided by The Cancer Genome Atlas, employing the R package in RStudio for computational analysis. …”
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Changes in Metabolic Regulation and the Microbiota Composition after Supplementation with Different Fatty Acids in db/db Mice by Beatriz Elina Martínez-Carrillo, Talia Mondragón-Velásquez, Ninfa Ramírez-Durán, José Félix Aguirre-Garrido, Roxana Valdés-Ramos, Ana Laura Guadarrama-López, Arturo Castillo-Cardiel

“…The lipid, hormonal profiles, and composition of the culture-dependent microbiota and the phylogenetic analysis based on the 16S rRNA gene sequencing were determined for identification of the intestinal microbiota. …”
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Identification of mitochondrial carrier homolog 2 as an important therapeutic target of castration-resistant prostate cancer by Yankui Liu, Anjie Chen, Yufan Wu, Jiang Ni, Rong Wang, Yong Mao, Ning Sun, Yuanyuan Mi

“…Bioinformatic analyses reveal that MTCH2 overexpression is associated with critical clinical parameters of prostate cancer. Single-cell sequencing data indicate elevated MTCH2 expression in the prostate cancer epithelium. …”
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Effect of symbiont-targeted control of Halyomorpha halys on the co-occurring pentatomid community by Sofia V. Prieto, Bianca Orrù, Elena Gonella, Alberto Alma

“…Their symbionts were identified as allied to the genus Pantoea through 16S rRNA gene sequencing and also other bacteria were detected in the V4 ventricle of the midgut. …”
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An insight into the genome-wide analysis of bacterial defense mechanisms in a uropathogenic Morganella morganii isolate from Bangladesh. by Syed Muktadir Al Sium, Barna Goswami, Sanjana Fatema Chowdhury, Showti Raheel Naser, Mihir Kanti Sarkar, Md Jobaid Faruq, Md Ahashan Habib, Shahina Akter, Tanjina Akhtar Banu, Md Murshed Hasan Sarkar, Md Salim Khan

“…Genome annotation identified 3,718 protein-coding sequences, including genes for metabolism, protein processing, stress response, energy, and membrane transport. …”
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Colonization of a Central Venous Catheter by the Hyaline Fungus Fusarium solani Species Complex: A Case Report and SEM Imaging by Alberto Colombo, Giuseppe Maccari, Terenzio Congiu, Petra Basso, Andreina Baj, Antonio Toniolo

“…Gene amplification and direct sequencing of the fungal ITS1 rRNA region and the EF-1alpha gene confirmed the isolate as belonging to the Fusarium solani species complex. …”
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Adipose-Derived Stem Cells Are an Efficient Treatment for Fistula-in-ano of Japanese Rabbit by Xiao Qin, Peng Wang, Yongming Huang, Yansen Li, Min Chao, Wei Wang

“…High-throughput RNA sequencing was also performed to investigate the anal tissue (normal and ADSC treatment group) expression profile of mRNA. …”
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Prospects for mineral biofortification of wheat: classical breeding and agronomy by I. N. Leonova, E. V. Ageeva, V. K. Shumny

“…The new markers obtained from wheat genome sequencing and application of bioinformatic methods (GWAS, meta-QTL analysis) has expanded our knowledge on the traits that determine the grain mineral concentration and has identified the key gene candidates. …”
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Identification of a Novel PPAR Signature for Predicting Prognosis, Immune Microenvironment, and Chemotherapy Response in Bladder Cancer by Ke Zhu, Wen Deng, Hui Deng, Xiaoqiang Liu, Gongxian Wang, Bin Fu

“…The purpose of this study is to comprehensively investigate the function and prognostic value of PPAR-targeted genes in BLCA. Methods. The RNA sequencing data and clinical information of BLCA patients were acquired from The Cancer Genome Atlas (TCGA). …”
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PaleoProPhyler: a reproducible pipeline for phylogenetic inference using ancient proteins by Patramanis, Ioannis, Ramos-Madrigal, Jazmín, Cappellini, Enrico, Racimo, Fernando

“…In contrast to the field of ancient DNA - where several computational methods exist to process and analyze sequencing data - few tools exist for handling ancient protein sequence data. …”
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Order Batching in Warehouses by Minimizing Total Tardiness: A Hybrid Approach of Weighted Association Rule Mining and Genetic Algorithms by Amir Hossein Azadnia, Shahrooz Taheri, Pezhman Ghadimi, Muhamad Zameri Mat Saman, Kuan Yew Wong

“…Finally, the Genetic Algorithm has been applied for sequencing the constructed batches in order to minimize tardiness. …”
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Differences in Biogeographic Patterns and Mechanisms of Assembly in Estuarine Bacterial and Protist Communities by Weiyue Zhang, Yunlei Zhang, Zhizhuo Shao, Yi Sun, Hongjun Li

“…In this study, we systematically analyzed the diversity patterns, community assembly, and environmental adaptability of bacterial and protist communities using high-throughput sequencing techniques. The results revealed a higher alpha diversity for the bacteria than for protists, and the beta diversity pattern was dominated by species turnover in both communities. …”
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Effect of Cellulase Enzyme Treatment on Cyst Wall Degradation of Acanthamoeba sp. by Tisha Lazuana, Hendri Astuty, Ika Puspa Sari

“…All three samples were cultured using non-nutrient agar (NNA) media and identified by PCR and sequencing. The concentration of cellulase concentration used was 50 U, 100 U, 150 U, 200 U, 250 U, and 300 U with the incubation time used being 2 hours, 4 hours, 6 hours, 8 hours, and 24 hours. …”
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Plant MicroRNA Prediction by Supervised Machine Learning Using C5.0 Decision Trees by Philip H. Williams, Rod Eyles, Georg Weiller

“…MicroRNAs (miRNAs) are nonprotein coding RNAs between 20 and 22 nucleotides long that attenuate protein production. Different types of sequence data are being investigated for novel miRNAs, including genomic and transcriptomic sequences. …”
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Isolation and characterization of cadmium-resistant Bacillus cereus strains from Cd-contaminated mining areas for potential bioremediation applications by Bixia Liang, Yimeng Feng, Xiyue Ji, Chune Li, Qian Li, Zhenshun Zeng, Yuqi Wang

“…Morphological analysis and 16S rDNA sequencing identified both strains as Bacillus cereus. …”
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Impact of smoking cessation, coffee and bread consumption on the intestinal microbial composition among Saudis: A cross-sectional study. by Steve Harakeh, Emmanouil Angelakis, Timokratis Karamitros, Dipankar Bachar, Suhad Bahijri, Ghada Ajabnoor, Sulaiman M Alfadul, Suha A Farraj, Turki Al Amri, Ahmed Al-Hejin, Abdalla Ahmed, Ahmed A Mirza, Raoult Didier, Esam I Azhar

“…Feces from 104 Saudi volunteers (48% males) were tested for microbiota by sequencing the V3-V4 region of bacterial 16S ribosomal RNA (rRNA). …”
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Diversity and composition changes of intestinal fungi in patients with chronic kidney disease by XIE Huichao, XIAO Weidong, HAN Ben

“…Fresh fecal samples were collected from the CKD patients and healthy controls. ITS DNA sequencing was employed to determine the composition of intestinal fungi， and then bioinformatics analysis was applied to compare the differences in fungal community diversity， structure， and function between the 2 groups. …”
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