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<h4>Background</h4>Recent advances in single-molecule sequencing techniques, such as Nanopore sequencing, improved read length, increased sequencing throughput, and enabled direct detection of DNA modifications through the analysis of raw signals. These DNA modifications include naturally occurring …
Read PDFThe <i>APOE</i> gene encodes a lipid transport protein central to Alzheimer's disease (AD) pathogenesis. Three common alleles-ε2 (rs7412(C > T)), ε3 (reference), and ε4 (rs429358(T > C))-arise from two coding variants in exon 4 and …
Read PDFGenome-wide chromatin accessibility and nucleosome occupancy profiles have been widely investigated, while the long-range dynamics remain poorly studied at the single-cell level. Here, we present a new experimental approach, methyltransferase treatment followed by single-molecule long-read …
Read PDFCancer is a disease largely caused by genomic aberrations. Utilizing many rapidly emerging sequencing technologies, researchers have studied cancer genomes to understand the molecular statuses of cancer cells and to reveal their vulnerabilities, such as …
Read PDF<h4>Background</h4>GGC repeat expansions in NOTCH2NLC are associated with neuronal intranuclear inclusion disease. Very recently, asymptomatic carriers with NOTCH2NLC repeat expansions were reported. In these asymptomatic individuals, the CpG island in NOTCH2NLC is hypermethylated, suggesting that …
Read PDF<h4>Background</h4>Yellow pitaya (Selenicereus megalanthus, 2n = 4x = 44) breeding remains severely hindered due to the lack of a reference genome.<h4>Results</h4>Here, we present a high-quality chromosome-level genome assembly of yellow pitaya using PacBio HiFi sequencing …
Read PDFBACKGROUND: Pseudosulfitobacter pseudonitzschiae is a species within the genus Pseudosulfitobacter, which belongs to the Roseobacteraceae. This family is closely associated with algae and is essential to marine ecosystems, particularly through interactions with phytoplankton. Notably, this …
Read PDFMagnaporthe oryzae is a devastating fungal pathogen that causes substantial yield losses in rice and other cereal crops worldwide. A high-quality genome assembly is critical for addressing challenges posed by this pathogen. However, the current …
Read PDFThe dynamic organization of chromatin governs gene expression by regulating DNA accessibility. In plants, light not only initiates photomorphogenesis but also reshapes higher-order chromatin architecture. However, the limited resolution of current techniques impedes investigation of …
Read PDFBACKGROUND: The maize inbred line Chang7-2 and derived lines are important male donors for hybrid production, contributing significantly to the development of high-yield and stress-tolerant hybrids. Additionally, Chang7-2 serves as a valuable model inbred line …
Read PDFThe cattle genome is crucial for understanding ruminant biology, but it remains incomplete. Here we present a telomere-to-telomere haplotype-resolved X chromosome and four autosomes of cattle in a near-complete assembly that is 431 Mb (16%) …
Read PDFThe Y chromosome's unique structure poses challenges for cytogenetic studies, especially in designing probes for FISH Oligopaint labeling experiments (Fluorescence in situ hybridization). The standard protocol for designing probes for these experiments discards repetitive sequences …
Read PDF<h4>Background</h4>Tandemly repeated satellite DNAs (satDNAs) are among the most copious sequences of eukaryotic genomes. They often reside in centromeric regions, but their diversity among different organisms obscures the properties that centromere-competent satDNAs should possess.<h4>Results</h4>Here, we …
Read PDFApios americana and Apios priceana are tuber-forming legumes native to North America with ecological value and agricultural potential. The lack of genomic resources has limited comparative studies and crop improvement for these species. Here, we …
Read PDFOnthophagus binodis is a coprophagous scarab beetle native to southern Africa. This species and many others in the tribe Onthophagini have been introduced to farms across multiple continents in the context of cattle pasture management …
Read PDFThe human genome produces a large repertoire of non-coding RNAs (ncRNAs) with important regulatory roles in development, physiology, and most of diseases. Among these, long non-coding RNAs (lncRNAs) have emerged as key modulators of gene …
Read PDFMetastasis remains the leading cause of cancer mortality, yet the factors that determine metastatic competence and the timing of its acquisition are not well understood. Using human breast cancer cohorts and multi-omics in preclinical models, …
Read PDFHepatocellular carcinoma (HCC) is the most common type of primary liver cancer. Tumor heterogeneity is a major obstacle to effective treatment and is poorly understood using traditional bulk sequencing methods. This review highlights the transformative …
Read PDFDuring the hair cycle and wound regeneration, various developmental transcriptomic features are reactivated. Consequently, studying skin development provides critical insights into both fundamental biology and skin regeneration. However, chromatin accessibility during skin development remains underexplored. …
Read PDFAdvances in cardiac regenerative medicine increasingly rely on integrating artificial intelligence with spatial multi-omics technologies to decipher intricate cellular dynamics in cardiomyocyte differentiation. This systematic review, synthetising insights from 88 PRISMA selected studies spanning 2015-2025, …
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