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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 ↗1374 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.
- OpenAlex · Published · First archived
Polydeoxyribonucleotide attenuates dexamethasone-induced skeletal muscle atrophy by suppressing oxidative stress and regulating muscle protein turnover ↗
Glucocorticoid-induced muscle atrophy is characterized by excessive oxidative stress and disrupted muscle protein homeostasis. Polydeoxyribonucleotide (PDRN) exerts tissue-protective and regenerative effects; however, its therapeutic potential in muscle atrophy remains unclear. This study investigated the protective effects of PDRN against dexamethasone (DEX)-induced muscle atrophy in vitro and in vivo. Differentiated C2C12 myotubes were treated with PDRN in the presence or absence of DEX (100 µM). PDRN showed no cytotoxicity, and concentrations of 10, 25, and 50 µg/mL were selected for subseq…
- OpenAlex · Published · First archived
GRETA: a results database for whole-genome sequencing studies ↗
Whole-genome sequencing in large cohorts generates vast numbers of genetic association results, but integrating and querying them alongside public reference data remains a challenge for the diverse stakeholders involved. To address this challenge, we developed the Genetic REsults daTAbase (GRETA), a relational database that stores in-house association results alongside public reference data and functional annotation resources, facilitating their integration, querying and analysis. Following a requirements-engineering process grounded in user-centred design, we defined product specifications sp…
- OpenAlex · Published · First archived
Mapping Functional Transitions across Protein Homologues from a Single Simulation: Application of gEDES-HM to Adenylate Kinases ↗
Abstract Proteins fluctuate across different conformational states, which constitute a dynamic ensemble that regulates their interaction networks and functions. Predicting the conformational landscape remains a computational challenge, and even more difficult is capturing the link between state distributions and specific functions within protein homologues. Here, we present gEDES-HM (generalized Ensemble Docking with Enhanced sampling of pocket Shape-Homology Modeling), a scalable computational protocol enabling us to remap conformational ensembles obtained from enhanced sampling simulations o…
- OpenAlex · Published · First archived
A trick of the tail: How electrostatics helps a DNA repair enzyme to localize on nucleosomes ↗
Electrostatic interactions are key to the recognition processes of proteins and DNA and have been previously documented for the action of repair enzymes. Uracil-DNA glycosylase (UDG) is the first in a sequence of enzymes that act in the base-excision repair process and whose task is the extraction of uracil bases from nuclear DNA. The question of how the molecule targets uracil bases in chromatin, in particular in the condensed protein-DNA complexes of nucleosomes, has only recently become a subject of detailed studies. Here, we predict that the presence of an arginine anchor motif on the N-te…
- Europe PMC · Published · First archived
A possible role for the kinetochore COMA complex in sensing the damage in stn1-sz2, a mutant of the Cdc13-Stn1-Ten1 telomeric complex ↗
Telomeres, the ends of linear chromosomes, form a cap composed of specific telomeric DNA associated with specialized proteins that ensures efficient protection against chromosome degradation and, consequently, overall genome instability. Three main complexes have been implicated in chromosome end protection, namely telomerase, shelterin, and the CST complex (CTC1/Cdc13-STN1-TEN1). In a recent study, we uncovered mutants of the S. cerevisiae CST in which damage was sensed both by the two major spindle checkpoints and the major DNA damage checkpoint. In the best-studied of these mutants, stn1-sz
- Europe PMC · Published · First archived
CropStabDB: a protein stability resource and Engineering Atlas of orthologue-supported substitutions for 30 plant proteomes ↗
Protein stability, the capacity to maintain a folded structure and function, matters as much for transporters and regulators as for enzymes, and heat erodes it. Wheat, rice, maize and soybean supply two-thirds of human caloric intake, and warming reduces yields. Rubisco activase variants selected for thermostability increased photosynthesis, biomass and yield under heat. They came from gene shuffling; no method proposes residues at proteome scale. Genome editing has made such changes routine, yet predictors estimate melting temperature, name no residue, and have not been reported for a plant p
- Europe PMC · Published · First archived
Genetic Mapping Reveals a Major Locus for Boron Exclusion in Wild Vitis ↗
Boron toxicity constrains grapevine (Vitis) production in irrigated arid and semi-arid regions, yet most available rootstocks are sensitive to excessive boron. Although underutilized Vitis species may harbor sources of adaptation, the genetic basis of natural variation in boron exclusion remains poorly understood, limiting the development of boron-tolerant rootstocks. We screened 267 wild Vitis accessions representing 16 species for their ability to limit leaf boron accumulation under excess boron conditions. Leaf boron concentration varied 190-fold among accessions and was highly heritable (e
- Europe PMC · Published · First archived
Revisiting AXL as a therapeutic target in soft tissue sarcoma: dubermatinib and bemcentinib effects are largely independent of AXL inhibition ↗
Soft tissue sarcomas (STS) are a heterogeneous group of mesenchymal malignancies with generally poor prognosis, raising a continued interest in novel therapeutic targets. The TAM-family receptor tyrosine kinase AXL has been proposed as a therapeutic target across several cancer types, including STS. Here we revisit the clinical relevance of AXL in STS by combining in silico analyses with functional and transcriptomic characterisation of two representative AXL inhibitors, dubermatinib and bemcentinib, in the HT-1080 and SK-LMS-1 STS-derived cell models. STS ranked among the tumour types with th
- Europe PMC · Published · First archived
Genetic control of leaf carbon- and water-related traits in grapevine under greenhouse and field conditions ↗
Understanding the genetic architecture of ecophysiological traits related to carbon gain and water loss is crucial to develop cultivars tolerant to abiotic stresses and that maintain productivity in the context of climate change. This can be achieved both through experiments in the greenhouse on potted plants under controlled conditions and in the field. However, the stability of genetic determinism of ecophysiological traits across environmental conditions has rarely been evaluated. We studied a grapevine diversity panel grown both in a greenhouse and in the field, to investigate the impact o
- Europe PMC · Published · First archived
Scalable and semi-automated Boolean network inference from multi-condition single-cell transcriptomes with scBOLT ↗
Predictive logical models have made substantial contributions to biomedical research by facilitating the identification of regulatory mechanisms driving biological processes. Yet, their construction remains a major bottleneck, as it typically relies on extensive prior knowledge at the genome scale. The emergence of high-throughput omics technologies has opened new opportunities for data-driven logical model construction by providing high-resolution observations of biological states. In parallel, formal constraint-based approaches have emerged, reformulating executable model inference as a cons
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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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