Comparative evaluation of SNVs, indels, and structural variations detected with short- and long-read sequencing data by Shunichi Kosugi, Chikashi Terao

“…Abstract Short- and long-read sequencing technologies are routinely used to detect DNA variants, including SNVs, indels, and structural variations (SVs). …”
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A SEQUENCE OF FORMATION OF «URANPYROCHLORE» AND FLUOROCALCIOPYROCHLORE IN ALKALI PEGMATITES FROM THE VISHNEVYE MOUNTAINS, SOUTH URALS by V.I. Popova, V.A. Popov, I.A. Blinov, V.A. Kotlyarov, S.M. Lebedeva

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Identification of novel genetic variants associated with feline cardiomyopathy using targeted next-generation sequencing by Jade Raffle, Jose Novo Matos, Marsha Wallace, Lois Wilkie, Richard J. Piercy, Perry Elliott, David J. Connolly, Virginia Luis Fuentes, Androniki Psifidi

“…DNA was extracted from residual blood, and targeted next-generation sequencing was performed on two separate feline cohorts: an across-breed cohort (23 healthy cats and 21 HCM-affected pedigree or Domestic Shorthair cats), and a within-breed cohort of Birman pedigree cats (14 healthy, 8 HCM-affected, and 6 RCM-affected). …”
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An Efficient Approach to Mining Maximal Contiguous Frequent Patterns from Large DNA Sequence Databases by Md. Rezaul Karim, Md. Mamunur Rashid, Byeong-Soo Jeong, Ho-Jin Choi

Subjects: “…DNA sequence…”
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An Exploration of the Triplet Periodicity in Nucleotide Sequences with a Mature Self-Adaptive Spectral Rotation Approach by Bo Chen, Ping Ji

“…It outputs a random walk, that is, TP walk, in the complex plane for the query sequence. Each step in the walk is corresponding to a position in the sequence and generated from a long-term statistic of the TP in the sequence. …”
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Single-cell RNA sequencing reveals tumor heterogeneity in small cell neuroendocrine cervical carcinoma by Xuesong Xiang, Xiang Tao, Keqin Hua, Hua Jiang, Jingxin Ding

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Global Single-Cell Sequencing Landscape of Adipose Tissue of Different Anatomical Site Origin in Humans by Shixing Gu, Zhenyu Gong, Shuncai Liu, Guohao Lu, Yu Ling, Yanlin Wei, Ting Li, Ronghe Gu, Yongxian Rong, Junjun Li, Hongmian Li

“…Here, we combined single-cell RNA sequencing (scRNA-seq) of leg subcutaneous adipose tissue samples with scRNA-seq data from abdominal subcutaneous adipose tissue, leg subcutaneous adipose tissue, and visceral adipose tissue samples from public databases. …”
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S‐PLM: Structure‐Aware Protein Language Model via Contrastive Learning Between Sequence and Structure by Duolin Wang, Mahdi Pourmirzaei, Usman L. Abbas, Shuai Zeng, Negin Manshour, Farzaneh Esmaili, Biplab Poudel, Yuexu Jiang, Qing Shao, Jin Chen, Dong Xu

“…The results demonstrate S‐PLM's superior performance over sequence‐only PLMs on all protein clustering and classification tasks, achieving competitiveness comparable to state‐of‐the‐art methods requiring both sequence and structure inputs. …”
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Single-cell sequencing elucidates the mechanism of NUSAP1 in glioma and its diagnostic and prognostic significance by Meng-Yu Zhao, Zhao-Lei Shen, Hongzhen Dai, Wan-Yan Xu, Li-Na Wang, Yu- Gu, Jie-Hui Zhao, Tian-Hang Yu, Cun-Zhi Wang, Jia-feng Xu, Guan-Jun Chen, Dong-Hui Chen, Wen-Ming Hong, Wen-Ming Hong, Fang Zhang

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Small RNA sequencing highlights potential functions of tsRNAs in regulating pyroptosis in trigeminal neuralgia by Mizhen Qiu, Fei Zeng, Yi Yan, Mu Xu, Xuexue Zhang, Zhijian Wang, Yutong Wang, Daying Zhang, Shibiao Chen

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Nanopore sequencing reveals that DNA replication compartmentalisation dictates genome stability and instability in Trypanosoma brucei by Marija Krasiļņikova, Catarina A. Marques, Emma M. Briggs, Craig Lapsley, Graham Hamilton, Dario Beraldi, Kathryn Crouch, Richard McCulloch

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Sequence-structure based prediction of pathogenicity for amino acid substitutions in proteins associated with primary immunodeficiencies by Ekaterina S. Porfireva, Anton D. Zadorozhny, Anastasia V. Rudik, Dmitry A. Filimonov, Alexey A. Lagunin, Alexey A. Lagunin

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Sequence Analysis of the UCP1 Gene in a Severe Obese Population from Southern Italy by Giuseppe Labruna, Fabrizio Pasanisi, Giuliana Fortunato, Carmela Nardelli, Carmine Finelli, Eduardo Farinaro, Franco Contaldo, Lucia Sacchetti

“…Our aim was to investigate by sequence analysis the presence of UCP1 gene variations that may be associated with obesity. …”
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First Molecular Identification and Whole Genome Sequencing of Listeria monocytogenes Isolated From an African Lion by Ping Xu, Xinyong Qi, Xiaoxu Wang, Feng Xu, Hongjin Zhao, Liping Shen, Yujie Zhang, Shixin Huang, Jian Wang

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Determination of genetic diversity in persimmon accessions using morphological and inter simple sequence repeat markers by Yazgan Tunç, Canan Aydınlıoğlu, Kadir Uğurtan Yılmaz, Ali Khadivi, Daya Shankar Mishra, El Hassan Sakar, Tomáš Vyhnánek

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Validity of patient-derived xenograft mouse models for lung cancer based on exome sequencing data by Jaewon Kim, Hwanseok Rhee, Jhingook Kim, Sanghyuk Lee

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The polarity of high-definition transcranial direct current stimulation affects the planning and execution of movement sequences by Jake J. Son, Tara D. Erker, Thomas W. Ward, Yasra Arif, Peihan J. Huang, Jason A. John, Kellen M. McDonald, Nathan M. Petro, Grant M. Garrison, Hannah J. Okelberry, Kennedy A. Kress, Giorgia Picci, Elizabeth Heinrichs-Graham, Tony W. Wilson

“…Broadly, anodal stimulation induced significantly stronger beta oscillatory responses in these regions during simple movement sequences, while neural responses to complex sequences were not affected by stimulation. …”
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Metagenomic next-generation sequencing assists in the diagnosis of visceral leishmaniasis in non-endemic areas of China by Rui Zhao, Guilun He, Lin Xiang, Melinda Ji, Rongheng He, Xudong Wei

Subjects: “…metagenomic next-generation sequencing assists…”
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Training data diversity enhances the basecalling of novel RNA modification-induced nanopore sequencing readouts by Ziyuan Wang, Ziyang Liu, Yinshan Fang, Hao Helen Zhang, Xiaoxiao Sun, Ning Hao, Jianwen Que, Hongxu Ding

“…Abstract Accurately basecalling sequence backbones in the presence of nucleotide modifications remains a substantial challenge in nanopore sequencing bioinformatics. …”
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Sequence Variants of ADIPOQ and Association with Type 2 Diabetes Mellitus in Taiwan Chinese Han Population by Ming-Kai Tsai, Hui-Min David Wang, Jeng-Chuan Shiang, I-Hung Chen, Chih-Chiang Wang, Ya-Fen Shiao, Wen-Sheng Liu, Tai-Jung Lin, Tsung-Ming Chen, Ya-Huey Chen

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