bulk RNA-seq

The paper demonstrates that RNA interference in mammalian cells exhibits self-organized criticality through feedback mechanisms, leading to scale-free bursts and power-law distributions in gene expression.

The paper identifies altered Golgi morphology as a vulnerability in CDKN2A/p16-Low melanoma and shows that Golgi disruption via lipid peroxidation sensitizes these cells to treatment.

This study identifies cRps6kb1 as a hyperglycemia-responsive circRNA that drives diabetic neuropathic pain by competing with PUM2 for Nt3 3-UTR binding, increasing proNT3/CCL2 expression and nociceptive hypersensitivity.

This study identifies 28S rsRNA-CTC_L20 as a regulator of PASMC proliferation in pulmonary hypertension by modulating BHB production and PKM2 β-hydroxybutyrylation.

This study shows avian reovirus induces ferroptosis and modulates lipid metabolism in infected cells, leading to lipid droplet formation and syncytium formation.

This study identifies KLRG1+ cytotoxic CD4+ T cells in tumors that retain immunosuppressive function, derived from Tregs, and suggests KLRG1-targeted depletion may be more effective than blockade in cancer therapy.

This study shows non-coding RNA disrupts enhancer-promoter interactions when increased, and stabilizes them when decreased, independent of transcription initiation.

The paper investigates how intron lariats, especially those with transposable elements, trigger immune responses in cancer cells and shows that RNA editing and DBR1 depletion can be used to enhance anti-tumor effects.

This study shows MmuPV1 and HPV16 E6 oncoproteins disrupt NF-κB signaling by increasing nuclear IKKα localization, suggesting a shared mechanism in papillomavirus persistence.

This study shows hypoxia induces LARP1-driven stress granules that protect mRNAs from decay, sustaining mitotic progression in cancer cells.

This study shows that haemoglobin from haemolysed plasma interferes with bioluminescence assays in ciPTECs, but does not severely injure the cells.

The paper identifies three classes of palindromic regions in RNA based on structural context and availability, and evaluates their self-interaction stability using simulations.

The paper identifies the CCAAT-binding complex (CBC) as a key regulator that overrides genetic sterility in Candida albicans by integrating environmental stress signals to enable mating.

This study shows that cyanobacteria respond to yeast partners only when co-localized, not just through metabolite exchange.

This paper demonstrates how alpha-amylase hydrolyzes starch to generate reducing sugars, causing osmotic stress that remodels giant unilamellar vesicles.

This study identifies mechanotransduction pathways involved in chicken tendon development and shows how paralysis disrupts these processes.

This study evaluates the effects of anorectal care products on mucosal epithelial models, finding that hyperosmolar and surfactant-containing products cause inflammation and barrier disruption, while isotonic formulations are less harmful.

This study shows that RyR2-mediated Ca2+ leak causes arrhythmias and progressive cardiomyopathy in rabbits, identifying RyR2 as a therapeutic target.

This study shows HER3 drives glycolysis in liver metastases of CRC and PDAC, and HER3 inhibition increases OXPHOS dependency, which can be targeted with combined therapy.

This study identifies TREM2's role in atherosclerosis regression by enhancing efferocytosis in lipid-experienced macrophages, suggesting TREM2 as a therapeutic target for plaque stabilization.

This study investigates synergistic effects of kinase inhibitor combinations by analyzing phosphoproteomics and transcriptomics data to identify molecular mechanisms and pathway interactions.

This study shows that PAK4 promotes pancreatic cancer metastasis by reducing E-cadherin, and its loss inhibits tumor progression and metastasis.

This study identifies a distal super-enhancer near CCNG2 that drives aberrant CXCL13 expression in cancer cells, leading to growth promotion and p53 dysregulation via the CXCR5-CXCL13 axis.

This study shows ADARs prevent RNAi from targeting self-produced dsRNA by reducing siRNA production and interfering with RNAi processing in C. elegans.

This study tracks the temporal changes in the tumor microenvironment after nanobody-based CAR-T therapy, revealing dynamic gene expression shifts and identifying potential therapeutic targets.

This paper tests the neuroprotective effects of MNP-021 against diabetes-induced glucotoxicity and neuroinflammation in neurons and glial cells, finding it restores glucose handling, mitochondrial function, and pro-resolving signaling.

This study shows that cells decode calcium oscillation frequency through a multi-kinase network that regulates transcription via NF-κB and MYC.

This study shows UV radiation increases ribosome levels and translation capacity in filamentous fungi after filament formation, enhancing UV survival and repair through mechanisms involving TOR signaling and gene expression modules.

This study identifies IKKβ activation as a transient upstream signal triggered by efferocytosis that promotes tissue resolution through multiple downstream pathways.

This study identifies an NF-κB-driven anti-apoptotic network in PC3 prostate cancer cells that contributes to resistance against oncolytic VSV, suggesting combination therapies may enhance virotherapy efficacy.