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Earlier sources: Science
Science investigates the natural world through observation, experiments, and mathematical models. Explore papers and developments in biology, medicine, materials, neuroscience, physics, climate, and mathematics; a reported finding is not necessarily established consensus.
SYMTRI organizes observations from public sources into a living map. Connections reflect shared subject matter; they do not establish causation or endorse a source.
Open in the map ↗1330 classified signals in the fourteen-day window. Recent momentum: steady. These counts include signals awaiting readable evidence.
Earlier sources
Up to ten sources with readable evidence, ordered by their feed timestamp. These archive sources can be older than the live fourteen-day window. This list is a sample, not a measure of total activity. Dates distinguish paper publication, repository creation, model/dataset activity, Hacker News posts, and KEV catalog additions. “First archived” records when SYMTRI first stored the signal.
- Europe PMC · Published · First archived
Calpain-mediated regulation of WAVE tyrosine dephosphorylation by PTP61F promotes lamellipodia formation ↗
WAVE is a major driver of lamellipodial protrusions. Previous studies suggested that Abelson (Abl)-dependent tyrosine phosphorylation of WAVE promotes actin polymerization and lamellipodia formation. Here, we provide evidence that Abl tyrosine kinase rather restricts lamellipodial localization of WAVE and inhibits lamellipodial cell spreading. Additionally, overexpression of a cytoplasmic PTP61F phosphatase increases WAVE localization at lamellipodia tips. PTP61F overexpression or pharmacological inhibition of Abl/Src kinases even protects cells from lamellipodia disruption induced by pervanad
- Europe PMC · Published · First archived
Ethanol stress induces siRNA-mediated epimutations and phenotypic variability in fission yeast ↗
Epigenetic information is required for the maintenance of gene expression states through cell division. Some epigenetic information can also persist through generations, raising the possibility that epigenetic differences may arise in populations and contribute to evolutionary processes such as drift and natural selection. Evaluating this requires characterising the properties of such epimutations, so that their rate, stability and genome-wide distribution can be assessed. Recent experiments in many organisms have demonstrated that epimutations occur, but have limited stability relative to DNA
- Europe PMC · Published · First archived
Niche-dependent epistasis within the cancer genome shapes metastatic fitness ↗
Epistasis, the genetic interaction between loci, directs non-additive genotype-to-phenotype outcomes. Within a multicellular organism, how the tissue niche (E) shapes gene-by-gene epistasis (G×G) and its phenotypic consequences remains poorly studied. Using tumor lung metastasis as an experimental model, we mapped G×G×E through combinatorial CRISPR perturbation coupled with depletion of defined host myeloid populations in mice. The metastatic niche first selects disseminated tumor cells on G×G epistatic fitness, then drives transcriptome convergence regardless of genotype. Removing anatomicall
- Europe PMC · Published · First archived
High-throughput identification of chromatin-opening transcription factors ↗
Cell fate transitions involve major changes to the chromatin landscape, some of which are thought to deepen the basin around a newly adopted cell state, stabilizing gene expression programs that might otherwise be transient. Transcription factors (TFs) are central to this process, binding a subset of their genome-wide motif occurrences to create accessible regions that can act as cell type-specific enhancers. However, apart from a few well-studied cases, it is not clear which of the ~1,600 mammalian TFs, when newly expressed, can directly or indirectly initiate newly accessible sites, nor why
- Europe PMC · Published · First archived
A frameshift mutation in PRICKLE1 causes skeletal dysplasia in Cheviot sheep ↗
Skeletal dysplasias can occur in animals, including humans, and are attributed to both environmental and genetic causes. As our understanding of the distinguishing phenotypes of different skeletal dysplasias improves, alongside elucidation of the mechanisms and genetic networks that contribute to skeletal development, identifying and controlling genetic mutations in livestock populations has become increasingly possible, including approaches beyond selective breeding alone. Within Scotland an 'achondroplasia' syndrome that was first described in the South Country Cheviot breed of sheep (OMIA 0
- Europe PMC · Published · First archived
The replication checkpoint couples fork progression to the release of transcribed genes from nuclear pores ↗
The nuclear envelope contributes to chromatin compartmentalization in eukaryotes by anchoring heterochromatin to the lamina and active transcription sites to nuclear pore complexes (NPCs). During DNA replication, chromatin association with the nuclear envelope is thought to act as a topological barrier to DNA polymerases, potentially exacerbating transcription-replication conflicts (TRCs). While limited evidence suggests that the DNA replication checkpoint kinase Rad53/CHK1 promotes the release of genes from the NPC during replicative stress, the global scale and precise regulation of this pro
- Europe PMC · Published · First archived
Fine-tuning genomic models on rare splicing events identifies a novel biomarker of TDP-43 pathology ↗
Genomic foundation models (GFMs) are pretrained on large genomic datasets, but their ability to predict rare disease-associated events after fine-tuning remains unclear. We tested this using TDP-43 cryptic exons, well characterized splicing events linked to neurodegenerative disease that are poorly represented in standard annotations. We compared the state-of-the-art GFM AlphaGenome with OpenSpliceAI, a specialized splice site prediction model. Fine-tuned OpenSpliceAI detected held-out cryptic exons in human and mouse and captured allele-specific splicing effects at the disease-associated UNC1
- Europe PMC · Published · First archived
Cerberus: bidirectional state space blocks improve accuracy and efficiency of regulatory sequence models ↗
Sequence-to-function models predict regulatory activity and variant effects from DNA sequence alone, and leading models such as Borzoi compute long-range interactions with self-attention. The reference genome caps unique training sequences, and new assays add labels, not sequences. This constraint favors architectures that learn more from limited sequence diversity. We compared long-range blocks with the rest of the architecture and the training data held fixed, replacing Borzoi's transformer blocks with Hydra, a bidirectional state space block built on Mamba-2. Hydra blocks ran 5.7-fold faste
- Europe PMC · Published · First archived
Pannexin 1 Ablation Disrupts Cell Cycle Progression and Compromises the Structure of Melanoma Tumours ↗
Pannexin 1 (PANX1) is a channel-forming glycoprotein that has been implicated in regulating melanoma cell properties such as growth, migration, and invasion. Here we report that the CRISPR-Cas9 mediated ablation of PANX1 or channel inhibition with probenecid shifted A375-P cell cycle distribution towards G2/M, while channel inhibition with spironolactone stalled cell cycle progression at the G1/S checkpoint regardless of PANX1 expression. Bulk RNA sequencing revealed cell cycle related gene expression was downregulated with PANX1 targeting strategies and this was exacerbated when PANX1 deficie
- Europe PMC · Published · First archived
Distinct Strategies for Engineering Bioenergy Traits in Sorghum Drive Divergent Functional Shifts in the Rhizosphere Microbiome ↗
Engineering bioenergy crops for enhanced biomass digestibility and high-value co-products is a promising approach to sustainable biofuel production. However, the impact of these engineered crops on the belowground microbiome remains poorly understood. In this study, we characterized the composition and functional responses of the belowground microbiome associated with transgenic sorghum lines: one with reduced cell wall crosslinking (AT10) and another with elevated protocatechuic acid (PCA) production (Qsub). The lines were grown under field conditions with four irrigation levels, and samples
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How to assess evidence about Science
Check each original source for its methods, release status, limitations, and supporting data. A repository announcement, a preprint, and a published study provide different kinds of evidence. SYMTRI’s subject classification helps discovery; it does not independently validate the source’s claims.
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