Dnmt3a-mutated clonal hematopoiesis promotes osteoporosis
Osteoporosis is caused by an imbalance of osteoclasts and osteoblasts, occurring in close
proximity to hematopoietic cells in the bone marrow. Recurrent somatic mutations that lead …
proximity to hematopoietic cells in the bone marrow. Recurrent somatic mutations that lead …
A comparative analysis of planarian genomes reveals regulatory conservation in the face of rapid structural divergence
M Ivanković, JN Brand, L Pandolfini, T Brown… - Nature …, 2024 - nature.com
The planarian Schmidtea mediterranea is being studied as a model species for
regeneration, but the assembly of planarian genomes remains challenging. Here, we report …
regeneration, but the assembly of planarian genomes remains challenging. Here, we report …
[HTML][HTML] HiCAR is a robust and sensitive method to analyze open-chromatin-associated genome organization
The long-range interactions of cis-regulatory elements (cREs) play a central role in gene
regulation. cREs can be characterized as accessible chromatin sequences. However, it …
regulation. cREs can be characterized as accessible chromatin sequences. However, it …
[HTML][HTML] HydRA: Deep-learning models for predicting RNA-binding capacity from protein interaction association context and protein sequence
RNA-binding proteins (RBPs) control RNA metabolism to orchestrate gene expression and,
when dysfunctional, underlie human diseases. Proteome-wide discovery efforts predict …
when dysfunctional, underlie human diseases. Proteome-wide discovery efforts predict …
Exhaustive identification of genome-wide binding events of transcriptional regulators
Genome-wide binding assays aspire to map the complete binding pattern of gene
regulators. Common practice relies on replication—duplicates or triplicates—and high …
regulators. Common practice relies on replication—duplicates or triplicates—and high …
Quality-controlled R-loop meta-analysis reveals the characteristics of R-loop consensus regions
R-loops are three-stranded nucleic acid structures formed from the hybridization of RNA and
DNA. While the pathological consequences of R-loops have been well-studied to date, the …
DNA. While the pathological consequences of R-loops have been well-studied to date, the …
Evolutionary rewiring of regulatory networks contributes to phenotypic differences between human and mouse orthologous genes
Mouse models have been engineered to reveal the biological mechanisms of human
diseases based on an assumption. The assumption is that orthologous genes underlie …
diseases based on an assumption. The assumption is that orthologous genes underlie …
Improved quality metrics for association and reproducibility in chromatin accessibility data using mutual information
Background Correlation metrics are widely utilized in genomics analysis and often
implemented with little regard to assumptions of normality, homoscedasticity, and …
implemented with little regard to assumptions of normality, homoscedasticity, and …
Impaired ATF3 signaling involves SNAP25 in SOD1 mutant ALS patients
V Yazar, JK Kühlwein, A Knehr, V Grozdanov… - Scientific reports, 2023 - nature.com
Epigenetic remodeling is emerging as a critical process for several neurodegenerative
diseases, including amyotrophic lateral sclerosis (ALS). Genetics alone fails to explain the …
diseases, including amyotrophic lateral sclerosis (ALS). Genetics alone fails to explain the …
Genetic variation is a key determinant of chromatin accessibility and drives differences in the regulatory landscape of C57BL/6J and 129S1/SvImJ mice
J Mononen, M Taipale, M Malinen… - Nucleic Acids …, 2024 - academic.oup.com
Most common genetic variants associated with disease are located in non-coding regions of
the genome. One mechanism by which they function is through altering transcription factor …
the genome. One mechanism by which they function is through altering transcription factor …