protein folding

When do protein-truncating variants and copy-number loss agree? A pre-specified, power-aware genome-wide audit of cross-perturbation effect equivalence in 885,362 gene-trait pairs

Toward a Transferable Representation of Protein Dynamics for Functional Prediction and Mechanistic Discovery

SCARSE: Small-sample Cross-validation-Anchored Regression Solution for low resource peptide Engineering

Overview In this Zenodo upload, we introduce both the code for SCARSE (scarse.zip) and the reproducability code (SCARSE-repro.zip). How SCARSE works SCARSE is designed for peptide property prediction in low-data regimes by combining protein language model embeddings with classical machine learning methods. The workflow...

Correction: Influence of diverse pH and temperatures on the gene expression of toxin-antitoxin systems in Klebsiella pneumoniae

This Correction refers to: Fatima J. Hassan, Mohammed F. Al-Marjani, Intesar N. Khelkal (2024). Influence of diverse pH and temperatures on the gene expression of toxin-antitoxin systems in Klebsiella pneumoniae. Advancements in Life Sciences, 11(4). https://doi.org/10.62940/als.v11i4.2836Following an internal audit co...

The Role of Endoplasmic Reticulum Stress in Extrinsic Skin Aging and Protective Strategies of Natural Plant Products.

BACKGROUND The complicated process of extrinsic skin aging is brought on by long-term exposure to ultraviolet (UV) radiation, air pollution, and other environmental stressors. Its primary manifestations include deep wrinkles, skin laxity, abnormal pigmentation, epidermal barrier dysfunction, chronic inflammation, and t...

Unravelling the synergy of curcumin and quercetin in the adipogenesis pathway: highlighting molecular dynamics and epigenetic reversibility.

Obesity, the global pandemic, has been observed to be associated with metabolic diseases, including cardiovascular diseases, type 2 diabetes mellitus, polycystic ovarian syndrome, hypothyroidism, arthritis, and even cancer. Conventional drugs, popular in weight management, have been reported to have several adverse eff...

Constructing nucleoside deaminase-assisted orthogonal DNA replication system for continuous evolution in prokaryotes.

Orthogonal DNA replication system-based continuous evolution enables user-defined genes to undergo a hypermutagenic evolutionary state through a replication process independent of the host genome, while maintaining overall cellular stability. However, its application is constrained by the relatively low mutation rate o...

Proteomic Stratification Across Human Male Vocal Fold Tissue Layers.

This exploratory study provides an initial descriptive comparison of protein expression across human vocal fold layers, with VL serving as a potential transitional zone between the immunomodulatory cover and contractile muscle.

Integrated analysis identifies dysregulated secretory proteins and crotonylation profiles associated with immune regulation in IgA nephropathy.

This study integrated renal tissue proteomics, peripheral blood mononuclear cell crotonylomics, public transcriptomics, and Human Protein Atlas annotations at the feature level across independent cohorts to suggest candidate hub proteins and upstream TFs potentially associated with immune dysregulation in IgAN.

Short-Term Dietary Exposures and Thrombin Generation in Tanzanian Men: Exploratory Coagulation-Focused Analysis of a Randomized Dietary-Switch Trial.

BACKGROUND Rapid dietary transitions in sub-Saharan Africa may alter coagulation profiles; however, this remains poorly characterized. METHODS An open-label dietary-intervention trial in Tanzania enrolled 77 healthy men aged 20 to 40 years. They underwent 1 of 3 interventions (n=22 per arm): heritage-to-Western-style...

Protein homeostasis and inter-organellar signaling under salt stress

Abstract Salinity is a major abiotic constraint on plant growth, productivity, and global food security. It disrupts cellular protein homeostasis (proteostasis) at every step, from synthesis to degradation. Plant survival under salt stress therefore depends on the coordinated regulation of protein synthesis, folding, p...

Ambient Discrete Diffusion: Using the Wrong Data at the Right Time for Data Efficient Learning

We introduce RefineMix, a framework for training discrete diffusion models under severe data scarcity, a common constraint in scientific applications. RefineMix uses out-of-distribution data at selected diffusion times to improve generalization without biasing the sampling distribution. Although this strategy has been...