Download full-text PDF |
Source |
|---|
Publication Analysis
Top Keywords
Similar Publications
methylGrapher: genome-graph-based processing of DNA methylation data from whole genome bisulfite sequencing.
Nucleic Acids Res
January 2025
Department of Genetics, The Edison Family Center for Genome Sciences & Systems Biology, Washington University School of Medicine, St. Louis, MO 63110, USA.
Genome graphs, including the recently released draft human pangenome graph, can represent the breadth of genetic diversity and thus transcend the limits of traditional linear reference genomes. However, there are no genome-graph-compatible tools for analyzing whole genome bisulfite sequencing (WGBS) data. To close this gap, we introduce methylGrapher, a tool tailored for accurate DNA methylation analysis by mapping WGBS data to a genome graph.
View Article and Find Full Text PDFGenomic clustering tendency of transcription factors reflects phase-separated transcriptional condensates at super-enhancers.
Nucleic Acids Res
January 2025
Department of Genome Sciences, University of Virginia, PO Box 800717, Charlottesville, VA 22908, USA.
Many transcription factors (TFs) have been shown to bind to super-enhancers, forming transcriptional condensates to activate transcription in various cellular systems. However, the genomic and epigenomic determinants of phase-separated transcriptional condensate formation remain poorly understood. Questions regarding which TFs tend to associate with transcriptional condensates and what factors influence their association are largely unanswered.
View Article and Find Full Text PDFCraniofacial development gives rise to the complex structures of the face and involves the interplay of diverse cell types. Despite its importance, our understanding of human-specific craniofacial developmental mechanisms and their genetic underpinnings remains limited. Here, we present a comprehensive single-nucleus RNA sequencing (snRNA-seq) atlas of human craniofacial development from craniofacial tissues of 24 embryos that span six key time points during the embryonic period (4-8 post-conception weeks).
View Article and Find Full Text PDFEvolutionary patterns of the SSU rRNA (V4 region) secondary structure in genus (Ciliophora, Spirotrichea): insights into cryptic species and primitive traits.
PeerJ
January 2025
Department of Biological Science, University of Ulsan, Ulsan, Republic of South Korea.
The genus , a group of ciliated protists, has attracted attention as a model organism due to its widespread distribution and ease of cultivation. This study examines the evolutionary patterns of the SSU rRNA secondary structure within this genus, aiming to elucidate its role in supporting evolutionary relationships and uncovering cryptic species. By predicting the secondary structure of SSU rRNA and applying the CBC (Compensatory Base Change) concept analysis, we examined 69 species of the genus , with 57 SSU rRNA gene sequences retrieved from GenBank and 12 newly sequenced specimens from South Korea.
View Article and Find Full Text PDFGlutamatergic Input from Arcuate Nucleus Kiss1 Neurons to Preoptic Kiss1 Neurons is Required for LH Surge in Female Mice.
Endocrinology
January 2025
Department of Chemical Physiology and Biochemistry, Oregon Health & Science University, Portland, OR, USA.
Hypothalamic kisspeptin (Kiss1) neurons are vital for maintaining fertility in the mammal. In the female rodent, Kiss1 neurons populate the anteroventral periventricular/periventricular nuclei (Kiss1AVPV/PeN) and the arcuate nucleus (Kiss1ARH). Kiss1ARH neurons (a.
View Article and Find Full Text PDFWant AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!