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ADAS-viewer: web-based application for integrative analysis of multi-omics data in Alzheimer’s disease
Alzheimer’s disease (AD) is a neurodegenerative disorder and is represented by complicated biological mechanisms and complexity of brain tissue. Our...
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Genomic Islands in Helicobacter Species
Horizontal gene transfer mechanisms help in the transfer of distant genes generating pathogens with different types of virulence. Genomic Islands...
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Visualization of lncRNA and mRNA Structure Models Within the Integrative Genomics Viewer
Every class of RNA forms base-paired structures that impact biological functions. Chemical probing of RNA structure, especially with the advent of...
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Computation Tools for Prediction and Analysis of Genomic Islands
The genomic island (GI) is a discrete cluster of genes in prokaryotic genomes acquired through horizontal gene transfer (HGT). GI includes genes...
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Genomic Strategies in Mitochondrial Diagnostics
Pathogenic variants in both mitochondrial and nuclear genes contribute to the clinical and genetic heterogeneity of mitochondrial diseases. There are...
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Plant genomic resources at National Genomics Data Center: assisting in data-driven breeding applications
Genomic data serve as an invaluable resource for unraveling the intricacies of the higher plant systems, including the constituent elements within...
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Prioritization of risk genes in colorectal cancer by integrative analysis of multi-omics data and gene networks
Genome-wide association studies (GWASs) have identified over 140 colorectal cancer (CRC)-associated loci; however, target genes at the majority of...
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New-Age Genomic Measures for Uncovering Plant-Microbiome Interactions: Tools, Pipelines and Guidance Map for Genomic Data Mining
In the current post-genomic era, advancement in high-throughput genome sequencing and associated computational tools for genomic analyses have...
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Genetic impacts on DNA methylation help elucidate regulatory genomic processes
BackgroundPinpointing genetic impacts on DNA methylation can improve our understanding of pathways that underlie gene regulation and disease risk.
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Comprehensive analysis of genomic complexity in the 5’ end coding region of the DMD gene in patients of exons 1–2 duplications based on long-read sequencing
BackgroundDystrophinopathies are the most common X-linked inherited muscle diseases, and the disease-causing gene is DMD . Exonic duplications are a...
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A super pan-genomic landscape of rice
Pan-genomes from large natural populations can capture genetic diversity and reveal genomic complexity. Using de novo long-read assembly, we...
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Deep genomic characterization highlights complexities and prognostic markers of pediatric acute myeloid leukemia
Pediatric acute myeloid leukemia (AML) is an uncommon but aggressive hematological malignancy. The poor outcome is attributed to inadequate...
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TarPan: an easily adaptable targeted sequencing panel viewer for research and clinical use
BackgroundThe study of cancer genomics continually matures as the number of patient samples sequenced increases. As more data is generated, oncogenic...
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Sequencing and de novo assembly of the Koshihikari genome and identification of the genomic region related to the eating quality of cooked rice
The japonica rice ( Oryza sativa L.) cultivar Koshihikari is considered an important breeding material with good eating quality (EQ). To effectively...
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Multiscale analysis of pangenomes enables improved representation of genomic diversity for repetitive and clinically relevant genes
Advancements in sequencing technologies and assembly methods enable the regular production of high-quality genome assemblies characterizing complex...
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FixItFelix: improving genomic analysis by fixing reference errors
The current version of the human reference genome, GRCh38, contains a number of errors including 1.2 Mbp of falsely duplicated and 8.04 Mbp of...
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The genome and transcriptome of the snail Biomphalaria sudanica s.l.: immune gene diversification and highly polymorphic genomic regions in an important African vector of Schistosoma mansoni
BackgroundControl and elimination of schistosomiasis is an arduous task, with current strategies proving inadequate to break transmission....
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Identifying genomic islands with deep neural networks
BackgroundHorizontal gene transfer is the main source of adaptability for bacteria, through which genes are obtained from different sources including...
