Development and functional evaluation of a psoralen-conjugated nucleoside mimic for triplex-forming oligonucleotides by Yu Mikame, Haruki Toyama, Chikara Dohno, Takehiko Wada, Asako Yamayoshi

“…Here, we propose a design of the Ps-TFO for stable triplex formation with target DNA sequences containing pyrimidine-base interruptions under physiological conditions. …”
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A new Lactobacillus gasseri strain HMV18 inhibits the growth of pathogenic bacteria by Xiang Gao, Zixuan Wang, Xiang Li, Xiaoling Zhang, Shengqiang Du, Miaomiao Jia, Dailun Hu, Xianxian Jia, Bin Cong, Yan Zhang, Chunling Ma, Song Zhou, Jun Zhang

“…The new isolate was identified as L. gasseri by the colony morphology, Gram staining, biochemical reactions and confirmed by the 16S rDNA sequencing. The HMV18 strain inhibited the growth of food-borne pathogens such as E. coli, S. aureus and K. oxytoca. …”
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Mutations to transcription factor MAX allosterically increase DNA selectivity by altering folding and binding pathways by Renee Hastings, Arjun K. Aditham, Nicole DelRosso, Peter H. Suzuki, Polly M. Fordyce

“…Towards this end, we study how variants of the promiscuous transcription factor (TF) MAX (H. sapiens) alter DNA specificity and selectivity, yielding >1700 K ds and >500 rate constants in complex with multiple DNA sequences. Twenty-two of the 240 assayed MAX point mutations enhance selectivity, yet none of these mutations occur at residues that contact nucleotides in published structures. …”
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Representative Metagenomes of Mesophilic Biogas Reactor Across South Korea by Darsha Prabhaharan, Young Wook Go, Hyunjin Kim, Seongcheol Kang, Byoung-In Sang

“…From 110 GB of raw DNA sequences, 401 metagenome-assembled genomes (MAGs) were created, which include 42,301 annotated genes. …”
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Handgrip-Ring Structure Sensing Probe Assisted Multiple Signal Amplification Strategy for Sensitive and Label-Free Single-Stranded Nucleic Acid Analysis by Ying Ren, Yu He, Ping Li

“…By utilizing this innovative design, the current biosensor demonstrates a remarkable ability to detect miRNA with a limit as low as 376 aM and single-stranded DNA sequences with a limit as low as 45.3 aM. In addition, it possesses exceptional discrimination capabilities. …”
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Additions to the Mycosphaerella complex by P.W. Crous, K. Tanaka, B.A. Summerel, J.Z. Groenewald

“…Species in the present study were compared based on their morphology, growth characteristics in culture, and DNA sequences of the nuclear ribosomal RNA gene operon (including ITS1, ITS2, 5.8S nrDNA and the first 900 bp of the 28S nrDNA) for all species and partial actin and translation elongation factor 1-alpha gene sequences for Cladosporium species. …”
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Rare Suprasellar Chordoid Meningioma with INI1 Gene Mutation by Imad Fadl-Elmula, Rania Giha, Sawsan AH Deaf, Lamyaa Ahmed El Hassan, Ahmed M. Hassan, Mohamed AR Arbab

“…Genomic DNA was extracted and mutation analysis for INI1 gene using primer of exon 4, 5, 7, and 9 showed mutation involving exon 9. DNA sequencing showedheterozygosity C­­­­­­­­­­­­­­­­­­-T mutation in exon 9 of INI1 gene leading to change of amino acid serine to phenylalanine at (codon 63). …”
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A new species of parrot snake, Leptophis (Serpentes: Colubridae) from the Brazilian Cerrado by Nelson R. Albuquerque, Roullien H. Martins, Priscila S. Carvalho, Donald B. Shepard, Diego J. Santana

“…Phylogenetic analysis of 16S mtDNA sequences indicate the new species is the sister taxon of L. dibernardoi, a species occurring in the neighboring Caatinga ecoregion.…”
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Single‐egg comet assay: A protocol to quantify DNA damage in natural bioarchives by Rejin Salimraj, Alessio Perotti, Marcin W. Wojewodzic, Dagmar Frisch

“…We optimised the CA protocol for individual dormant propagules (single‐egg comet assay or SE‐CA) to inform downstream analyses such as DNA sequencing of the DNA quality contained in natural genetic archives of past populations. …”
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Nocardia thailandica Brain Abscess in an Immunocompromised Patient by Muhammad Effendi, Samad Tirmizi, Dayna McManus, Anita J. Huttner, David R. Peaper, Jeffrey E. Topal

“…Upon identification by 16S rDNA sequencing, the organism causing infection was identified to be N. thailandica. …”
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Environmental gradients shape genetic variation in the desert moss, Syntrichia caninervis Mitt. (Pottiaceae) by Ugbad A. Farah, Kirsten M. Fisher

“…Here, we sampled S. caninervis from sites along two elevation gradients and used restriction site associated DNA sequencing to compare the relative impacts of environmental factors and geospatial distances on genetic differentiation in S. caninervis populations. …”
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Effective in vivo binding energy landscape illustrates kinetic stability of RBPJ-DNA binding by Duyen Huynh, Philipp Hoffmeister, Tobias Friedrich, Kefan Zhang, Marek Bartkuhn, Francesca Ferrante, Benedetto Daniele Giaimo, Rhett A. Kovall, Tilman Borggrefe, Franz Oswald, J. Christof M. Gebhardt

“…Abstract Transcription factors (TFs) such as RBPJ in Notch signaling bind to specific DNA sequences to regulate transcription. How TF-DNA binding kinetics and cofactor interactions modulate gene regulation is mostly unknown. …”
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Feline Papillomatosis by Herman Egberink, Katrin Hartmann, Ralf Mueller, Maria Grazia Pennisi, Sándor Belák, Séverine Tasker, Karin Möstl, Diane D. Addie, Corine Boucraut-Baralon, Tadeusz Frymus, Regina Hofmann-Lehmann, Fulvio Marsilio, Etienne Thiry, Uwe Truyen, Margaret J. Hosie

“…Besides cat-specific PVs, DNA sequences most closely related to human and bovine PVs have been detected in feline skin lesions. …”
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Investigating mobile element variations by statistical genetics by Shohei Kojima

“…Mobile elements are DNA sequences that insert themselves into various genome locations. …”
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Detection of new single nucleotide polymorphisms in plasma cells carcinoma (myeloma) by polymerase chain reaction–single strand conformation polymorphism and sequencing technical m... by Sarah K. Obayes, Sabah H. Enayah, Shaimaa A. Al-Oubaidy, Rana A. Ghaleb

“…Genotyping of miRNA was accomplished using the polymorphism techniques of polymerase chain reaction and single strand conformation polymorphism (SSCP). DNA sequencing was also applied to categorize all the ranges of SSCP models detected using only gel imaging. …”
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Fatigue and Exercise Intolerance as Initial Manifestations of a Nonsyndromic Mitochondrial Disorder Due to the Variant m.3243A>G by Josef Finsterer, Sinda Zarrouk

“…Workup for suspected MID revealed ragged-red fibers and NADH-deficient muscle fibers, and biochemical investigations revealed a mild complex-I defect. mtDNA sequencing revealed the variant m.3243A>G with a heteroplasmy rate of 70% in the muscle. …”
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Molecular Markers for the Phylogenetic Reconstruction of <i>Trypanosoma cruzi</i>: A Quantitative Review by David Ramírez-Delgado, Carlos Alberto Flores-López

“…Based on three quantitative criteria (the number of phylogenetic informative characters, number of available reference sequences in public repositories, and accessibility to DNA sequences for their use as outgroup sequences), we examine and discuss the most appropriate genetic loci for the genetic typification of <i>T. cruzi</i>. …”
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Mechanism of Gene Amplification via Yeast Autonomously Replicating Sequences by Shelly Sehgal, Sanjana Kaul, M. K. Dhar

“…The amplification promoting sequences were chosen from the Saccharomyces cerevisiae ARS, 5S rRNA regions of Plantago ovata and P. lagopus, proposed sites of replication pausing at Ste20 gene locus of S. cerevisiae, and the bend DNA sequences within fragile site FRA11A in humans. The gene amplification assays showed that plasmid bearing APS from yeast and human beings led to enhanced protein concentration as compared to the wild type. …”
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The role of chromatin state in intron retention: A case study in leveraging large scale deep learning models. by Ahmed Daoud, Asa Ben-Hur

“…Large scale genomics deep learning models come in two flavors: the first are large language models of DNA sequences trained in a self-supervised fashion, similar to the corresponding natural language models; the second are supervised learning models that leverage large scale genomics datasets from ENCODE and other sources. …”
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Gene Mutation and Its Association with Clinicopathological Features in Young Patients with Non-Small-Cell Lung Cancer by Wencui Kong, Zongyang Yu, Wenwu Wang, Jingrong Yang, Jingfang Wang, Zhongquan Zhao

“…Clinicopathologic information of 102 young NSCLC patients was collected. Direct ctDNA sequencing of a portion of these patients was performed. …”
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