Efficient, scalable, and near-nucleotide-resolution profiling of protein occupancy in the genome with deaminases.

Proc Natl Acad Sci U S A

Department of Cellular and Molecular Medicine, University of California, San Diego School of Medicine, La Jolla, CA 92093.

Published: February 2025


Category Ranking

98%

Total Visits

921

Avg Visit Duration

2 minutes

Citations

20

Article Abstract

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC11804588PMC
http://dx.doi.org/10.1073/pnas.2425203122DOI Listing

Publication Analysis

Top Keywords

efficient scalable
4
scalable near-nucleotide-resolution
4
near-nucleotide-resolution profiling
4
profiling protein
4
protein occupancy
4
occupancy genome
4
genome deaminases
4
efficient
1
near-nucleotide-resolution
1
profiling
1

Similar Publications

Tailoring Active Sites in Amorphous NiFe-MOFs through Pyridine Ligand Coordination for Enhanced Oxygen Evolution Performance.

ACS Appl Mater Interfaces

September 2025

Jiangsu Key Laboratory of Advanced Catalytic Materials and Technology, Advanced Catalysis and Green Manufacturing Collaborative Innovation Center, Changzhou University, Changzhou 213164, P. R. China.

The development of high-performance, cost-effective non-noble metal catalysts for the oxygen evolution reaction (OER) is critical to advancing sustainable hydrogen production via water electrolysis. Herein, we report a facile and mild strategy for synthesizing amorphous bimetallic organic framework materials (NiFe-MOFs) using pyridine-modified threonine (l-PyThr) as an organic ligand. The optimized NiFe-PyThr-4:1 catalyst exhibits remarkable OER activity, requiring low overpotentials of only 162 and 222 mV to achieve current densities of 10 and 100 mA cm, respectively, along with a small Tafel slope of 34.

View Article and Find Full Text PDF

Purpose: To develop and validate a deep learning-based model for automated evaluation of mammography phantom images, with the goal of improving inter-radiologist agreement and enhancing the efficiency of quality control within South Korea's national accreditation system.

Materials And Methods: A total of 5,917 mammography phantom images were collected from the Korea Institute for Accreditation of Medical Imaging (KIAMI). After preprocessing, 5,813 images (98.

View Article and Find Full Text PDF

The increasing demand for efficient recombinant insulin production necessitates the development of scalable, high-yield, and cost-effective bioprocesses. In this study, we engineered a novel mini-proinsulin (nMPI) with enhanced expression properties by shortening the C-peptide and incorporating specific residue substitutions to eliminate the need for enzymatic cleavage. To optimize its production, we applied a hybrid approach combining microscale high-throughput cultivation using the BioLector microbioreactor and statistical modeling via response surface methodology (RSM).

View Article and Find Full Text PDF

Extracellular vesicles (EVs) produced by stem cells are nanoscale carriers of bioactive compounds with regenerative and immunomodulatory capabilities similar to those of their parent cells. Their therapeutic potential outperforms traditional stem cell therapies by lowering hazards such tumorigenicity and allowing for precise delivery. To provide a high-efficiency platform for selectively isolating stem cell EVs from minimal serum quantities while overcoming the constraints of traditional approaches such as ultracentrifugation, we developed an immunoaffinity-based capture system utilizing SiO₂ wafers functionalized with gold nanoparticles (GNPs), polyethylene glycol (HS-PEG-COOH), and stem cell-specific antibodies.

View Article and Find Full Text PDF

Unveiling Ion-Transport Dynamics in 2D Nanofluidic Anion-Selective Membranes toward Osmotic Energy Harvesting.

Nano Lett

September 2025

State Key Laboratory of Materials Low-Carbon Recycling, College of Materials Science and Engineering, Beijing University of Technology, Beijing 100124, P. R. China.

Two-dimensional (2D) nanofluidic architectures with nanoconfined interlayer channels and excess surface charges have revolutionized membrane-based reverse electrodialysis systems, demonstrating highly efficient osmotic energy collection through strong electrostatic screening of electric double layer (EDL). However, the ion-transport dynamics in 2D nanofluidic anion-selective membranes (2D-NAMs) still remain unexplored. Here, we combine density functional theory and molecular dynamics (MD) simulations to systematically explore ion transport in the 2D-NAMs.

View Article and Find Full Text PDF