AIMC Topic: HEK293 Cells
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Human protein interaction networks of ancestral and variant SARS-CoV-2 in organ-specific cells and bodily fluids.
Nature communications
Jul 1, 2025
Understanding SARS-CoV-2 human protein-protein interactions (PPIs) and the host response to infection is essential for developing effective COVID-19 antivirals. However, how the ancestral virus and its variants remodel virus-host protein assemblies i...
Substrate Specificity of the Organic Cation Transporters MATE1 and MATE2K and Functional Overlap with OCT1 and OCT2.
Journal of medicinal chemistry
Jun 13, 2025
The multidrug and toxin extrusion proteins MATE1 and MATE2K may determine the pharmacokinetics and drug-drug interactions of many drugs. However, their substrate spectrum and synergy with organic cation transporters OCT1 and OCT2 remain incompletely ...
Stem loop binding protein promotes SARS-CoV-2 replication via -1 programmed ribosomal frameshifting.
Signal transduction and targeted therapy
Jun 13, 2025
The -1 programmed ribosomal frameshifting (-1 PRF) in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is crucial for keeping the balance between pp1a and pp1ab polyproteins. To date, the host factors influencing this process remain poorl...
Prime editor with rational design and AI-driven optimization for reverse editing window and enhanced fidelity.
Nature communications
Jun 3, 2025
Prime editing (PE) is a precise tool for introducing genetic mutations in eukaryotes. Extending the efficient editing scope and mitigating undesired byproducts are possible. We introduce reverse PE (rPE), a SpCas9-directed variant that enabled DNA ed...
Toxicological evaluation of Artocarpus lacucha ethyl acetate extract: in vitro and in vivo assessment.
Journal of ethnopharmacology
Apr 12, 2025
ETHNOPHARMACOLOGICAL RELEVANCE: Artocarpus lacucha Buch. -Ham. (syn. Artocarpus lakoocha) (A. lacucha), is a tropical fruit tree and a member of the Moraceae family. Fruit, bark, foliage, and roots of A. lacucha are broadly utilized in folklore medic...
PeptideForest: Semisupervised Machine Learning Integrating Multiple Search Engines for Peptide Identification.
Journal of proteome research
Jan 22, 2025
The first step in bottom-up proteomics is the assignment of measured fragmentation mass spectra to peptide sequences, also known as peptide spectrum matches. In recent years novel algorithms have pushed the assignment to new heights; unfortunately, d...
A synthetic protein-level neural network in mammalian cells.
Science (New York, N.Y.)
Dec 12, 2024
Artificial neural networks provide a powerful paradigm for nonbiological information processing. To understand whether similar principles could enable computation within living cells, we combined de novo-designed protein heterodimers and engineered v...
Cyto-Safe: A Machine Learning Tool for Early Identification of Cytotoxic Compounds in Drug Discovery.
Journal of chemical information and modeling
Dec 11, 2024
Cytotoxicity is essential in drug discovery, enabling early evaluation of toxic compounds during screenings to minimize toxicological risks. assays support high-throughput screening, allowing for efficient detection of toxic substances while conside...
Effective genome editing with an enhanced ISDra2 TnpB system and deep learning-predicted ωRNAs.
Nature methods
Sep 23, 2024
Transposon (IS200/IS605)-encoded TnpB proteins are predecessors of class 2 type V CRISPR effectors and have emerged as one of the most compact genome editors identified thus far. Here, we optimized the design of Deinococcus radiodurans (ISDra2) TnpB ...
Machine Learning-Driven Discovery and Evaluation of Antimicrobial Peptides from Mucus Proteome.
Marine drugs
Aug 26, 2024
Marine antimicrobial peptides (AMPs) represent a promising source for combating infections, especially against antibiotic-resistant pathogens and traditionally challenging infections. However, traditional drug discovery methods face challenges such a...
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