All articles tagged with #gene regulation
A team used a new machine-learning tool called SIGNET to build a cell-type-specific map of gene regulation in brains from 272 Alzheimer's patients, identifying hub genes and thousands of causal interactions—especially in excitatory neurons—offering potential drug targets while noting that causality isn’t proven and comparisons with non-AD tissue are planned.
A new AI-based system called SIGNET maps causal gene regulatory networks across six brain cell types in Alzheimer's brains, revealing extensive gene rewiring—especially in excitatory neurons—and identifying hub genes that could serve as early diagnostic markers or therapeutic targets.
PARM, a cell-type-specific convolutional neural network trained on massively parallel reporter assays, predicts autonomous promoter activity from DNA sequences across multiple cell types and stimuli. It identifies functional TF motifs, uncovers a position-dependent regulatory grammar around the transcription start site, distinguishes activating and repressing factors, and can design synthetic promoters. The approach validates predictions with ISM and motif-insertion experiments, offering mechanistic insights into promoter regulation and potential applications in disease research and personalized medicine.
Google DeepMind unveils AlphaGenome, an AI that predicts how genetic mutations affect gene regulation across tissues, helping scientists pinpoint disease-driving variants and potentially guide new therapies; trained on public human and mouse data, it analyzes large DNA segments to map essential regulatory elements and their cell-type effects, with early praise from researchers but noting that real-world validation remains ongoing.
DeepMind’s AlphaGenome trains an AI on vast molecular data to forecast how mutations and regulatory DNA elements alter gene activity, extending the AlphaFold-era breakthrough from proteins to the genome; experts see it as a major engineering advance with potential for cancer and disease research, but stress it remains a predictive tool—its scope is limited to single mutations in a given genome, its predictions don’t capture all splice-site complexities, and clinical use still requires lab validation.
A US study finds eight psychiatric disorders—autism, ADHD, schizophrenia, bipolar disorder, major depressive disorder, Tourette syndrome, OCD, and anorexia—share genetic variants that affect brain development, with pleiotropic genes influencing multiple networks and developmental stages, suggesting shared targets for cross-disorder therapies.
Researchers have identified over 150 DNA control signals in brain cells called astrocytes that may influence Alzheimer's disease, using CRISPRi to study enhancer regions in non-coding DNA, which could lead to new insights and potential treatments for the disease.
Scientists at Northwestern University have created the most detailed 4D maps of the human genome's 3D organization over time, revealing how DNA folding influences gene activity and cell function, with implications for understanding diseases and developing targeted therapies.
Scientists have created a detailed 4D map of the human genome, revealing how its components interact over time in three dimensions, which could lead to advances in understanding gene regulation and developing new cancer therapies.
Researchers at the University of Navarra have developed RNACOREX, an open-source software that maps gene regulation networks in cancer, helping to understand tumor behavior and predict patient survival with clear, interpretable results, advancing personalized cancer treatment.
The study uncovers a human-specific regulatory mechanism involving endogenous retroviruses (ERVs), particularly HERVK LTR5Hs, which influence gene expression and lineage specification during early human development, using a stem cell-based blastoid model. Repression of LTR5Hs impairs blastoid formation, alters lineage allocation, and affects the expression of key genes like ZNF729, a human-specific gene regulated by a nearby LTR5Hs insertion that is essential for blastoid formation and proliferation. The work highlights the evolutionary role of ERVs as enhancers shaping human-specific developmental features.
A large-scale study reveals that Alzheimer's disease involves fundamental breakdowns in epigenomic control within brain cells, leading to gene expression dysregulation and cognitive decline, suggesting new treatment avenues targeting genome stability.
A new study suggests that remnants of ancient viruses embedded in our DNA, particularly transposable elements, play a crucial role in early human development and evolution by influencing gene regulation, with potential implications for understanding human diseases and genome innovation.
Researchers at CeMM and MedUni Vienna used a new combination of gene editing and machine learning to map the molecular processes that enable macrophages to quickly and precisely respond to pathogens, revealing a complex network of regulators involved in immune activation.
A new study reveals that ancient viruses embedded in our DNA, specifically transposable elements like MER11, play a crucial role in regulating gene activity, especially during early development, challenging the previous notion that these 'junk' DNA segments are nonfunctional.