Ontologies in modelling and analysing of big genetic data by N. L. Podkolodnyy, O. A. Podkolodnaya, V. A. Ivanisenko, M. A. Marchenko

“…This makes it useful not only for genomic biology, but also for systems biology, as well as for interpreting large-scale experimental data. …”
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Mechanistic Studies with DNA Polymerases Reveal Complex Outcomes following Bypass of DNA Damage by Robert L. Eoff, Jeong-Yun Choi, F. Peter Guengerich

“…The inherent instability of DNA is a major obstacle to genomic maintenance and contributes in varying degrees to cellular dysfunction and disease in multi-cellular organisms. …”
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Insights into the origin, hybridisation and adaptation of Candida metapsilosis hybrid pathogens. by Valentina Del Olmo, Álvaro Redondo-Río, Alicia Benavente García, Savitree Limtong, Ester Saus, Toni Gabaldón

“…However, little is known about the genomic implications of hybridisation nor its impact on pathogenicity-related traits. …”
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Sirtuins, Bioageing, and Cancer by D. McGuinness, D. H. McGuinness, J. A. McCaul, P. G. Shiels

“…Typically, Sirtuins have been implicated in the preservation of genomic stability and in the prolongation of lifespan though many of their target interactions remain unknown. …”
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The DNA Replication Stress Hypothesis of Alzheimer’s Disease by Yuri B. Yurov, Svetlana G. Vorsanova, Ivan Y. Iourov

“…However, this theory seems to require some inputs in accordance with the generally recognized amyloid cascade theory as well as to explain causes and consequences of genomic instability (aneuploidy) in the AD brain. …”
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Placental, Matrilineal, and Epigenetic Mechanisms Promoting Environmentally Adaptive Development of the Mammalian Brain by Kevin D. Broad, Eridan Rocha-Ferreira, Mariya Hristova

“…Placentation also hands ultimate control of genomic imprinting and intergenerational epigenetic information transfer to the matriline as epigenetic markers undergo erasure and reprogramming in the developing oocyte. …”
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MethylBERT enables read-level DNA methylation pattern identification and tumour deconvolution using a Transformer-based model by Yunhee Jeong, Clarissa Gerhäuser, Guido Sauter, Thorsten Schlomm, Karl Rohr, Pavlo Lutsik

“…Read-level methylomes enable more in-depth analyses, due to their broad genomic coverage and preservation of rare cell-type signals, compared to summarized data such as 450K/EPIC microarrays. …”
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LAMA2 Congenital Muscle Dystrophy: A Novel Pathogenic Mutation in Bulgarian Patient by Ivanka Dimova, Ivo Kremensky

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Genetic Basis for Variation of Metalloproteinase-Associated Biochemical Activity in Venom of the Mojave Rattlesnake (Crotalus scutulatus scutulatus) by Ruben K. Dagda, Sardar Gasanov, Ysidro De La OIII, Eppie D. Rael, Carl S. Lieb

“…To address this question, we PCR-amplified and compared the genomic DNA nucleotide sequences that code for the mature metalloproteinase domain of fourteen Mojave rattlesnakes captured from different geographical locations across the southwest region of the United States. …”
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Gene networks and metabolomic screening analysis revealed specific pathways of amino acid and acylcarnitine profile alterations in blood plasma of patients with Parkinson’s disease... by A. A. Makarova, P. M. Melnikova, A. D. Rogachev, P. S. Demenkov, T. V. Ivanisenko, E. V. Predtechenskaya, S. Y. Karmanov, V. V. Koval, A. G. Pokrovsky, I. N. Lavrik, N. A. Kolchanov, V. A. Ivanisenko

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Reconstruction and computer analysis of the structural and functional organization of the gene network regulating cholesterol biosynthesis in humans and the evolutionary characteri... by A. D. Mikhailova, S. A. Lashin, V. A. Ivanisenko, P. S. Demenkov, E. V. Ignatieva

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Search for and functional annotation of multi-domain PLA2 family proteins in flatworms by M. E. Bocharnikova, I. I. Turnaev, D. A. Afonnikov

“…The paper provides a search for and a comparative analysis of PLA2 sequences encoded in the genomes of flatworms. 44 species represented by two free-living and 42 parasitic organisms were studied. …”
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Insights into the lemon (Citrus limon) epiphytic microbiome: impact of the biocontrol yeast Clavispora lusitaniae 146 by Maria Cecilia Rasuk, José Matías Irazoqui, María Florencia Perez, Martina María Pereyra, Pedro Eugenio Sineli, Anja Poehlein, Rolf Daniel, Julian Rafael Dib

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Chromosome 3p Inverted Duplication with Terminal Deletion: Second Postnatal Case Report with Additional Clinical Features by Jacquelyn D. Riley, Catherine M. Stefaniuk, Francine Erenberg, Angelika L. Erwin, Lauren Palange, Caroline Astbury

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Imprinting and Promoter Usage of Insulin-Like Growth Factor II in Twin Discordant Placenta by Yan-Min Luo, Qun Fang, Hui-Juan Shi, Lin-Huan Huang, Run-Cai Liang, Guang-Lun Zhuang

“…Case reports from infant twins suggest that abnormal genomic imprinting may be one of the important causes of twin discordance, but it is unknown whether abnormal genomic imprinting occurs in the placenta. …”
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Leveraging Quantum LSTM for High-Accuracy Prediction of Viral Mutations by Prashanth Choppara, Bommareddy Lokesh

“…To improve model predictions, we use two key preprocessing techniques TF-IDF for efficient feature extraction and PCA for dimensionality reduction of genomic sequences. TF-IDF helps the model focus on the most informative nucleotide features, while PCA reduces the size of the data, making the model computationally efficient without sacrificing important information. …”
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Fractional hitting sets for efficient multiset sketching by Timothé Rouzé, Igor Martayan, Camille Marchet, Antoine Limasset

“…Abstract The exponential increase in publicly available sequencing data and genomic resources necessitates the development of highly efficient methods for data processing and analysis. …”
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Impact of developmental state, p53 status, and interferon signaling on glioblastoma cell response to radiation and temozolomide treatment. by Artem Berezovsky, Oluwademilade Nuga, Indrani Datta, Kimberly Bergman, Thais Sabedot, Katherine Gurdziel, Susan Irtenkauf, Laura Hasselbach, Yuling Meng, Claudius Mueller, Emanuel F Petricoin, Stephen Brown, Neeraja Purandare, Sidhesh Aras, Tom Mikkelsen, Laila Poisson, Houtan Noushmehr, Douglas Ruden, Ana C deCarvalho

“…Glioblastoma (GBM) tumors exhibit extensive genomic, epigenomic, and transcriptional diversity, with significant intratumoral heterogeneity, complicating standard treatment approaches involving radiation (RT) and the DNA-alkylating agent temozolomide (TMZ). …”
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Plant MicroRNA Prediction by Supervised Machine Learning Using C5.0 Decision Trees by Philip H. Williams, Rod Eyles, Georg Weiller

“…Different types of sequence data are being investigated for novel miRNAs, including genomic and transcriptomic sequences. A variety of machine learning methods have successfully predicted miRNA precursors, mature miRNAs, and other nonprotein coding sequences. …”
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Using Gap Visualization to Navigate Multivariate Metabarcode Data, Select Primer Pairs, and Enhance Reference Data Quality by Xin‐Yi Chua, Louise Ord, Stephen J. Bent, David Lovell, Annette McGrath

“…Since reference data sets are large and complex, we provide a simple and intuitive method to navigate subsets of reference sequence data containing conflicting or ambiguous relationships between genomic information and taxonomic classification. …”
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