transcription & RNA processing

This study evaluates composite hydrogels of hyaluronan and fibrin to assess their impact on mesenchymal stromal cell shape and chondrogenesis in 3D environments.

The paper isolates a quiescent melanoma population in vivo, showing it has invasive properties and undergoes transcriptional reprogramming driven by the tumor niche.

This paper introduces a method to infer infectious disease transmission networks using multiple genomes per host, showing improved accuracy with more genomes and applying it to real outbreaks.

This study shows H2A.Z regulates plant salt response by modulating gene transcription, with its occupancy affecting gene expression levels under salt stress.

This paper develops injectable hydrogels with microcapillary networks to improve stem cell transplantation by enhancing tissue integration and graft survival.

This paper introduces a method using RNA nanotechnology and nanopores to quantitatively analyze alternative transcription termination at the single-molecule level.

This study develops heparin-norbornene nanoparticles with SDF-1 to recruit progenitor cells and promote angiogenesis after stroke, achieving revascularization in 10 days.

The paper shows that IFN-I and IFN-gamma produce distinct transcriptomes over time due to different roles of ISGF3 and IRF1 in enhancer activation and chromatin accessibility.

This study shows ATP-mediated preconditioning induces epigenomic and transcriptomic changes in microglia-like cells that resemble epilepsy-associated microglial states.

This study develops a fluorescence reporter system to visualize endogenous p53 transcriptional activity in living cells, revealing cell-to-cell heterogeneity and cell cycle dependence of p53 activation.

This study identifies Tip6, an effector protein from Ustilago maydis, which interacts with ZmTPL2 to disrupt host transcriptional regulation and promote tumorigenesis.

This study identifies HIC1 as part of a FOXP3-RUNX1-CBFB complex that regulates Treg cell differentiation and function through interactions with the RUNX1 promoter.

This study identifies SRSF7's role in promoting the type I interferon response by transcriptionally activating IRF7 through cooperation with KMT5a.

The paper shows that non-pathogenic bacteria cause pathogen-like plant responses depending on their density, with high titers triggering strong defense mechanisms.

This study identifies the N679K mutation in Omicron variants as reducing spike protein expression and attenuating SARS-CoV-2 infection, while showing a replication advantage in the upper airway.

This paper improves DMS mutational profiling to probe RNA structure at all four nucleotides with high fidelity in cells.

This study identifies HSP70's interaction with non-coding RNA transcribed by RNA Polymerase III and shows its role in facilitating transcription of these RNAs.

This study identifies how p300/CBP reads and writes histone acetylation to propagate epigenetic marks and activate gene transcription.

This study identifies FLASH as a regulator of EMT plasticity, showing it influences hybrid E/M states through its effects on EMT-TFs and cell junction proteins.

This paper shows that TRIP12 loss inhibits pancreatic acinar cell plasticity and tumor metastasis by affecting Claudin18.2 expression and ADM.

The paper investigates how repeated heat stress affects gene regulation in Brachypodium distachyon, identifying long noncoding RNA and miRNA roles in stress memory and resilience.

The paper identifies a new Rae1 cleavage site in the bmrBCD operon mRNA and links Rae1 activity to chloramphenicol resistance and translation quality control.

The paper shows that combining TOP1 and BRD4 inhibitors selectively kills pancreatic cancer cells by inducing readthrough transcription, without harming normal cells.

The paper investigates chloroplast development regulation in liverwort Marchantia polymorpha, finding that GLK controls chloroplast biogenesis while GATA and SCL have no detectable roles.

This study uses long-read RNA sequencing to analyze mitochondrial transcriptomes in yeast under different growth conditions, revealing condition-dependent intron turnover patterns.

The paper validates and characterizes a viral antisense transcript using Northern blot analysis and qRT-PCR, highlighting the complexity of viral transcriptomes.

The paper identifies MOXD1 as a tumor-suppressor gene in neuroblastoma by analyzing bulk and single-cell RNA sequencing data and validating its role in organ homeostasis across multiple species.

This study identifies m6A-RNA modifications in plants under different light and temperature conditions and links their distribution to alternative polyadenylation and transcript localization.

This study shows that CRYs and UBP12/13 antagonistically regulate DNA damage response in Arabidopsis, with CRYs promoting repair and UBP13 repressing it.

This study shows AmotL2 regulates YAP promoter accessibility through chromatin remodeling in endothelial cells under mechanical stress.