Search bioRxiv⌕ Search

Biology subjects

Khenmedekh, G.-O.

Publications and source records attributed to Khenmedekh, G.-O..

2 recordsLinked to original sources

Complementary remodeling strategies distinguish human subcutaneous and omental adipose tissue

BackgroundSubcutaneous adipose tissue (SAT) and visceral adipose tissue (VAT) differ in their metabolic risk, but whether they retain distinct transcriptional identities and remodeling programs in adult humans remains unclear. MethodsBulk RNA sequencing was performed on 29 adipose specimens from 19 patients, including 10 paired SAT-VAT samples, along with baseline CT-derived depot area and attenuation measurements. The findings were compared with Masson trichrome staining and CD68 histology in an independent cohort of 30 patients and validated using GTEx adipose tissue data and an external human single-nucleus atlas. ResultsSAT and VAT showed distinct transcriptomic identities. SAT was enriched for a mesenchymal patterning program characterized by TBX15 and SHOX2, whereas omental VAT exhibited a mesothelial-stromal signature marked by UPK3B. These depot-specific identity signals remained significant after adjusting for BMI, age, and measured cellular signatures. SAT area correlated with extracellular matrix remodeling, whereas VAT area correlated with vascular-hypoxia signaling. These associations were attenuated after BMI adjustment, indicating that remodeling was linked to overall adiposity. In an independent histological cohort, SAT exhibited substantially greater fractional fibrosis than VAT, whereas VAT demonstrated a markedly higher storage-to-scaffold index. Depot-associated transcriptional effects were independently reproduced in the external datasets. ConclusionsHuman SAT and omental VAT retain distinct tissue identities and exhibit complementary remodeling strategies. SAT preferentially adopts a mesenchymal-ECM scaffold program, whereas VAT favors mesothelial-stromal and vascular remodeling programs. These findings support a storage-versus-scaffold framework for adaptation of human adipose tissue to chronic excess energy.

developmental biology↗

Desktop-Scale Hit-Point Discovery for Intrinsically Disordered α-Synuclein Using State-Space Compression and a Discrete Phase-Interference Search Operator

The accessible chemical space dwarfs any tractable screening budget, and most artificial intelligence drug discovery pipelines respond by docking and ranking a small sublibrary. The resulting hit list is agnostic to selectivity, brain penetration, toxicity, synthetic accessibility, and chemical novelty. We present ISTP-DPISO DrugEngine, an end-to-end engine developed by ISTP Tech that integrates the Local Information Criticality Principle (LICP) with a Discrete Phase-Interference Search Operator (DPISO). We demonstrate the engine on the intrinsically disordered protein (IDP) -synuclein, whose non-amyloid-component (NAC, residues 61-95) drives Parkinson-associated aggregation. The resulting LICP active set focuses the expensive LICP-DPISO scoring: in a production-scale run, the engine compressed a ~8.46x108-molecule mirror to a 10,000,000-molecule active set (~85-fold) before scoring, then converged to a compact, safety-gated shortlist plus de novo designs. The entire campaign ran on a single desktop workstation, without any high-performance-computing cluster. Three engine-prioritized, commercially available candidates (2-D08, Uralenol, Herbacetin) and an (-)-epigallocatechin gallate (EGCG) positive control were then tested in a thioflavin-T (ThT) aggregation assay at 100 {micro}M: all three engine-nominated candidates suppressed -synuclein aggregation, giving perfect prospective inhibitor-call concordance (3/3 nominated); together with the EGCG positive control, all four assayed compounds inhibited aggregation (4/4 total), two by [≤]80% plateau reduction. ISTP-DPISO DrugEngine reframes virtual screening from post-hoc score fusion to a single, state-space-compressed, safety-gated, experimentally validated discovery pipeline.

bioinformatics↗