scComm: a contrastive learning framework for deciphering cell-cell communications at single-cell resolution [0.03%]
Zijie Jin,Zongli Tang,Xinyi Li et al.
Zijie Jin et al.
Cell-cell communication regulates complex biological processes in multicellular systems. Existing scRNA-seq-based methods typically aggregate gene expression by clusters, overlooking within-cluster heterogeneity. We present scComm, a comput...
Bisal Halder,Guoming Gao,Armin Ahnoud et al.
Bisal Halder et al.
Background: Hyperosmotic shock and the resulting cell volume compression are commonly experienced by organs such as the kidneys, causing rapid formation of hyperosmotic phase separation (HOPS) condensates in the cytoplasm...
Kiera L Malone,Ajit K Singh,James M Lignos et al.
Kiera L Malone et al.
Histone post-translational modifications epigenetically regulate gene expression by modulating nucleosome structure and DNA accessibility. This review outlines how unique patterns of modifications on canonical and variant histones generate ...
The cellular landscape of i-motifs: genomic insights, methodological challenges, and the road ahead [0.03%]
Pallabi Sengupta,Nasim Sabouri
Pallabi Sengupta
Non-canonical DNA structures add a dynamic layer of genome regulation beyond the classical double helix. I-motifs, cytosine-rich four-stranded DNA structures, are increasingly recognized as context-dependent regulators of genome function. R...
Dynamic changes in Lamin B1 and heterochromatin coincide with chromatin condensation during human erythropoiesis [0.03%]
Rui Wen,Qiqi Zhang,Yiqi Li et al.
Rui Wen et al.
Background: Chromatin condensation, accompanied by pronounced nuclear shrinkage, is a pivotal step in terminal erythroid differentiation and is essential for enucleation. However, the precise timing and molecular mechanis...
Co-occurrence of rare variants implicates gene pairs in cytoskeletal pathways and is associated with increased severity in autism spectrum disorder [0.03%]
Hyeji Lee,Kahee Ko,Seoyeon Kim et al.
Hyeji Lee et al.
Background: The genetic basis of autism spectrum disorder (ASD) is complicated by high heritability and substantial heterogeneity, in which de novo variants and polygenic burden from common variants have not been comprehe...
A kingdom-wide full-length RNA atlas reveals the evolutionary landscapes of plant poly(A) tails [0.03%]
Yang Chen,Wenqin Lu,Hai He et al.
Yang Chen et al.
Background: Poly(A) tails play crucial roles in regulating mRNA degradation and translation, yet their evolutionary dynamics remain largely unexplored. Re...
Sex chromosome evolution mediated by a large inversion and a possible switch of the sex determination gene [0.03%]
Xiaomeng Mao,Nima Rafati,Christian Tellgren-Roth et al.
Xiaomeng Mao et al.
Background: Sex chromosomes often evolve faster than autosomes and commonly degenerate after recombination arrest. However, the underlying evolutionary processes are under persistent debate. In particular, it is unclear w...
Jiyuan Yang,Jun Sun,Hanyi Zhang et al.
Jiyuan Yang et al.
Background: Aberrant three-dimensional genome organization is a hallmark of cancer. However, the underlying regulatory mechanisms remain elusive. Results:...
Dynamic and cell-type specific transcriptional reprogramming underlies the floral transition in the maize shoot apical meristem [0.03%]
Liang Dong,Yonghao Sun,Lu Kang et al.
Liang Dong et al.
Background: The floral transition in maize represents a pivotal developmental switch that determines flowering time, environmental adaptation, and yield-related traits. However, the molecular mechanisms governing shoot ap...