Comprehensive guide for epigenetics and transcriptomics data quality control by Arianna Comendul, Frederique Ruf-Zamojski, Colby T. Ford, Pankaj Agarwal, Elena Zaslavsky, German Nudelman, Manoj Hariharan, Aliza Rubenstein, Hanna Pincas, Venugopalan D. Nair, Adam M. Michaleas, Philip D. Fremont-Smith, Darrell O. Ricke, Stuart C. Sealfon, Christopher W. Woods, Kajal T. Claypool, Rafael Jaimes, III

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A Rapid Cu Enrichment Mechanism from Cu-Bearing Brine in Kuqa Basin, Xinjiang, China: Controlled by Crystallized Sequence of Saline Minerals by Yangtong Cao, Haiming Xu

“…Meanwhile, the precipitation of paratacamite is controlled by a crystallized sequence of saline minerals accompanying with evaporated-concentrated course of brine in which gypsum, secondary glauberite, paratacamite, and halite are crystallized in turn. …”
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Whole-Genome Sequencing and Comparative Genome Analysis Provided Insight into the Predatory Features and Genetic Diversity of Two Bdellovibrio Species Isolated from Soil by Omotayo Opemipo Oyedara, Aldo Segura-Cabrera, Xianwu Guo, Temidayo Oluyomi Elufisan, Rafael Alejandro Cantú González, Mario A. Rodríguez Pérez

“…Furthermore, the two Bdellovibrio strains exhibited differences based on the % GC content, amino acid identity, and 16S rRNA gene sequence. The 16S rRNA gene sequence of Bdellovibrio sp. …”
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Unravelling the prognostic and operative role of intratumoural microbiota in non‐small cell lung cancer: Insights from 16S rRNA and RNA sequencing by Fuling Mao, Zixuan Hu, Ruifeng Shi, Hongbing Zhang, Zihe Zhang, Yongwen Li, Xuanguang Li, Penghu Gao, Jinhui Li, Minghui Liu, Hongyu Liu, Jun Chen

“…We used 16S rRNA sequencing to dissect microbial composition and perform prognosis correlations, and in conjunction with transcriptome sequencing, we determined potential mechanisms underpinning significant microbiota actions. …”
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Prediction of Metal Ion Binding Sites in Proteins from Amino Acid Sequences by Using Simplified Amino Acid Alphabets and Random Forest Model by Suresh Kumar

Subjects: “…amino acid sequence…”
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The evolution process between the earthquake swarm beneath the Noto Peninsula, central Japan and the 2024 M 7.6 Noto Hanto earthquake sequence by Zhigang Peng, Xinglin Lei, Qing-Yu Wang, Dun Wang, Phuc Mach, Dongdong Yao, Aitaro Kato, Kazushige Obara, Michel Campillo

“…We find possible along-strike and along-dip expansion of seismicity in the first few months at the beginning of the swarm sequence, while no obvious migration pattern in the last few days before the M 7.6 mainshock was observed. …”
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Mycobiota composition through the ripening of artisanal soft cheeses ‘Torta del Casar’ and ‘Queso de la Serena’ monitored by high-throughput sequencing by Almudena V. Merchán, Ángel Carlos Román, Santiago Ruiz-Moyano, María Vázquez-Hernández, Catalina M. Cabañas, María José Benito

Subjects: “…High-throughput sequencing…”
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Combined analysis of 16S rRNA sequencing and metabolomics reveals the growth-promoting mechanism of compound probiotics in zig-zag eel (Mastacembelus armatus) by Yuwei Feng, Zhiting Zuo, Guangting Xie, Yiman Chen, Xiaoli Yin, Baoyue Lu, Zhide Yu, Chong Han, Hu Shu

“…The intestinal physiology was reflected by intestinal histology, intestinal digestive enzyme, and antioxidant enzyme activity (P < 0.05). 16S rRNA sequencing was used to analyze the gut microbiota of different groups. …”
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The Middle to Late Triassic of Central Saudi Arabia with emphasis on the Jilh Formation. Part II: sequence stratigraphy, depositional and structural history, correlations and paleogeography by Le Nindre, Yves-Michel, Davies, Roger Brett, Issautier, Benoit, Krystyn, Leopold, Vaslet, Denis, Vrielynck, Bruno, Memesh, Abdullah

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Detection of Dengue Virus-Specific IgM and IgG Antibodies through Peptide Sequences of Envelope and NS1 Proteins for Serological Identification by Pradeep Kumar Nagar, Deepali Savargaonkar, Anupkumar R. Anvikar

“…Peptide sequences were synthesized chemically by solid-phase peptide synthesis technique. …”
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Unravelling the transcriptomic symphony of muscle ageing: key pathways and hub genes altered by ageing and caloric restriction in rat muscle revealed by RNA sequencing by Gulam Altab, Brian J. Merry, Charles W. Beckett, Priyanka Raina, Inês Lopes, Katarzyna Goljanek-Whysall, João Pedro de Magalhães

“…Hence, we employed high-throughput RNA sequencing to survey the global changes in protein-coding gene expression occurring in skeletal muscle with age. …”
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The geometry evolution of Early Paleozoic carbonate platform in the southwestern Tarim Basin, China: evidence from sequence stratigraphic analysis and seismic forward modeling by Jie Li, Jie Li, Zicheng Cao, Feng Geng, Suju Yang, Xuguang Sha, Mingjie Lan, Shenghou Wang, Yongchao Lu, Yangbo Lu, Daqing Tang, Zhao Zhang, Fang Hao

“…This study emphasizes the potential of the integration of sequence stratigraphic analyses and seismic forward modeling as a seismic workflow for retrieving the stratigraphic architecture and platform geometry.…”
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Whole-genome sequencing-based characterization of Salmonella enterica Serovar Enteritidis and Kentucky isolated from laying hens in northwest of Iran, 2022–2023 by Shirin Vakili, Mehri Haeili, Adel Feizi, Kiarash Moghaddasi, Maryam Omrani, Arash Ghodousi, Daniela Maria Cirillo

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Diversity Assessment of Some Sesame (Sesamum indicum L.) Genotypes Cultivated in Northern Ghana Using Morphological and Simple Sequence Repeat (SSR) Markers by Raphael Adu-Gyamfi, Ruth Prempeh, Issahaku Zakaria

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mbctools: A User-Friendly Metabarcoding and Cross-Platform Pipeline for Analyzing Multiple Amplicon Sequencing Data across a Large Diversity of Organisms by Barnabé, Christian, Sempéré, Guilhem, Manzanilla, Vincent, Millan, Joel Moo, Amblard-Rambert, Antoine, Waleckx, Etienne

“…In our workflow, VSEARCH is utilized for processing fastq files derived from amplicon-based Next-Generation Sequencing data. This software is a versatile open-source tool for processing amplicon sequences, offering advantages such as high speed, efficient memory usage, and the ability to handle large datasets. …”
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High-throughput sequencing of 16S rRNA gene analysis reveal insights into abundance, diversity, and function of the gut microbiota in zebrafish exposed to triflumezopyrim by Ipsita Iswari Das, Bayasis M. Sharma, Madhusmita Mahapatra, Sipra Nayak, Aman Kumar Mohanty, Lakshman Sahoo, Rajesh Kumar, Jitendra Kumar Sundaray

“…Herein, we utilized 16S rRNA gene sequencing to reveal the aquatic eco-risk of triflumezopyrim in the gut microbiota of zebrafish. …”
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Integrating bulk and single-cell RNA sequencing data: unveiling RNA methylation and autophagy-related signatures in chronic obstructive pulmonary disease patients by Shi-Xia Liao, Lan-Ying Zhang, Ling-Mei Shi, Huai-Yu Hu, Yan-Hui Gu, Ting-Hua Wang, Yao Ouyang, Peng-Peng Sun

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Effect of forging sequence and heat treatment on microstructure of high-duty power-plant shaft made of Cr-Mo ultra-high strength steel by Skubisz P., Lisiecki Ł.

“…Using the Finite Element Modeling, the multi-stage sequence of upsetting and the cogging strain distribution were optimized to minimize the strain variation along the length to a range 2.2÷2.7, and correlated with the microstructure generated at each main stage on the large cross-sections of the shaft. …”
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Two Years of SARS-CoV-2 Omicron Genomic Evolution in Brazil (2022–2024): Subvariant Tracking and Assessment of Regional Sequencing Efforts by Ueric José Borges de Souza, Fernando Rosado Spilki, Amilcar Tanuri, Paulo Michel Roehe, Fabrício Souza Campos

“…This study examines the genomic diversity of SARS-CoV-2 in Brazil after the worst phase of the pandemic, the wider adoption of routine vaccination, and the abolishment of other non-pharmacological preventive measures from July 2022 to July 2024 using 55,951 sequences retrieved from the GISAID database. The analysis focuses on the correlation between confirmed COVID-19 cases, sequencing efforts across Brazilian states, and the distribution and evolution of viral lineages. …”
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Prediction of Water Consumption in Hospitals Based on a Modified Grey GM (0, 1∣sin) Model of Oscillation Sequence: The Example of Wuhan City by Han Zhou, Jiejun Huang, Yanbin Yuan, Biao Tang

“…Taking the hospitals in Wuhan City as an example and basing the analysis on the characteristics of actual water consumption, we proposed a modified grey GM (0, 1∣sin) model of oscillation sequence. Using the grey theory, the variable weight-strengthening buffer operator (VWSBO) was introduced into this model to weaken the interference of the disturbance term on the data sequence. …”
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