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Solving Combinatorial Counting Problems with Weighted First-Order Model Counting

arXiv:2605.24845v1 Announce Type: new Abstract: Combinatorial counting problems pervade artificial intelligence, statistics, and discrete mathematics. Whether the task is enumerating subsets, multisets, permutations, partitions, or compositions under structural and arithmetic constraints, solving it remains a stubbornly manual exercise. Closed-form derivations are powerful but brittle, while naive encodings to propositional model counting or constraint satisfaction destroy the exchangeability that makes counting tractable in the first place. We present Cofola (COmbinatorial counting LAnguage with First-Order logic), a typed declarative language whose primitives are the combinatorial objects that recur in everyday counting questions, including sets, bags, tuples, sequences, circles, partitions, and compositions, together with natural relational and arithmetic constraints over them. A denotational semantics maps every Cofola program to a well-defined combinatorial counting problem, and a three-phase compilation pipeline (preprocessing, decomposition, and symmetry-preserving encoding) reduces this problem to a weighted first-order model counting (WFOMC) instance augmented with coefficient-extraction constraints. To stay inside known domain-liftable fragments whenever possible, the encoding groups indistinguishable entities, breaks the symmetry of unordered groupings lexicographically, and encodes sequences and circles via order axioms. On a suite of representative combinatorial counting problems, ranging from textbook math problems to multi-object scenarios that the closest prior framework cannot express, Cofola produces concise specifications and a uniform solving pipeline that is practical end-to-end.
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Liver-specific <i>SIRT1</i> knockout-induced hyperglycemia promotes spontaneous lung adenocarcinomas through HSF1-MDM2

Oncogene, Published online: 24 May 2026; doi:10.1038/s41388-026-03826-5

Liver-specific SIRT1 knockout-induced hyperglycemia promotes spontaneous lung adenocarcinomas through HSF1-MDM2
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Multi-omics analysis of glutamine and fish collagen peptides in alleviating post-antibiotic Streptococcus pneumoniae injury in feline lung cells

Exp Ther Med. 2026 Mar 30;31(6):148. doi: 10.3892/etm.2026.13143. eCollection 2026 Jun.

ABSTRACT

Streptococcus pneumoniae (SP) infection often leads to persistent lung injury even after antibiotic treatment. Despite this phenomenon, the mechanisms underlying host cell recovery remain poorly understood. Upon breaching the epithelial barrier, SP primarily targets the pulmonary interstitial cells, which constitute the major mesenchymal component of the lung. These cells serve as essential effectors of tissue repair, extracellular matrix remodeling and epithelial restoration. Therefore, a feline pulmonary interstitial cell (FCA-L2) model of SP infection was established to investigate the protective effects of glutamine (GLU) and fish collagen peptides (FCP) through integrated transcriptomic and metabolomic analyses. Cells were infected with SP (0.05 McFarland units for 4 h) and then treated with doxycycline (7.5 µg/ml for 18 h) followed by GLU (40 mM) or FCP (500 µg/ml). Notably, SP infection increased lactate dehydrogenase (LDH) release by 3.5-fold, induced secretion of IL-1β, TNF-α and IL-8, disrupted tight-junction proteins (claudin, ZO-1 and occludin) and caused oxidative imbalance and apoptosis despite antibiotic (doxycycline) treatment. However, treatment with GLU or FCP significantly reduced LDH release by ~40%, restored junctional proteins, suppressed inflammatory cytokines and enhanced antioxidant enzyme activities. Multi-omics analysis revealed that GLU promoted amino acid biosynthesis and energy metabolism and suppressed aminoacyl-tRNA synthetases and cell-cycle regulators, thereby enhancing metabolic adaptability. By contrast, FCP activated amino and nucleotide sugar metabolism, increased polyunsaturated fatty-acid synthesis and supported glycocalyx repair and membrane reconstruction. GLU and FCP provided complementary metabolic and structural protection, which mitigated post-infectious stress and promoted cellular recovery. The findings of the present study underscore the potential of bioactive food-derived compounds as adjunctive therapies that may accelerate lung tissue repair and enhance the efficacy of conventional antibiotics.

PMID:41988354 | PMC:PMC13077270 | DOI:10.3892/etm.2026.13143

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Pan-neurodegeneration proteomics reveals disease subtypes and molecular signatures

A pan-neurodegeneration atlas built from multilayer, deep proteomics of 2,279 brain samples across 6 major diseases integrates whole proteome, detergent-insoluble proteome, and posttranslational modifications to enable intra- and inter-disease comparisons to reveal disease-specific subtypes and dysregulated pathways, while identifying shared changes such as GPNMB upregulation and NPTX2 downregulation.
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