Taking inspiration from nature about how to design materials has been a fruitful approach, used by humans for millennia. In this paper we report a method that allows us to discover how patterns in disparate domains can be reversibly related using a computationally rigorous approach, the AttentionCrossTranslation model. The algorithm discovers cycle- and self-consistent relationships and offers a bidirectional translation of information across disparate knowledge domains. The approach is validated with a set of known translation problems, and then used to discover a mapping between musical data-based on the corpus of note sequences in J.S. Bach's Goldberg Variations created in 1741-and protein sequence data-information sampled more recently. Using protein folding algorithms, 3D structures of the predicted protein sequences are generated, and their stability is validated using explicit solvent molecular dynamics. Musical scores generated from protein sequences are sonified and rendered into audible sound.
Download full-text PDF |
Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10028431 | PMC |
| http://dx.doi.org/10.1016/j.patter.2023.100692 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
Quantitative Analysis of Pseudogene-Associated Errors During Germline Variant Calling.
Int J Mol Sci
January 2025
Federal Research Center for Innovator and Emerging Biomedical and Pharmaceutical Technologies, 125315 Moscow, Russia.
A pseudogene is a non-functional copy of a protein-coding gene. Processed pseudogenes, which are created by the reverse transcription of mRNA and subsequent integration of the resulting cDNA into the genome, being a major pseudogene class, represent a significant challenge in genome analysis due to their high sequence similarity to the parent genes and their frequent absence in the reference genome. This homology can lead to errors in variant identification, as sequences derived from processed pseudogenes can be incorrectly assigned to parental genes, complicating correct variant calling.
View Article and Find Full Text PDFDevelopment of Peptide Mimics of the Human Acetylcholine Receptor Main Immunogenic Region for Treating Myasthenia Gravis.
Int J Mol Sci
December 2024
Department of Neurology, Davis School of Medicine, University of California, 1515 Newton Court, Davis, CA 95618, USA.
We have designed and produced 39 amino acid peptide mimics of the and human acetylcholine receptors' (AChRs) main immunogenic regions (MIRs). These conformationally sensitive regions consist of three non-contiguous segments of the AChR α-subunits and are the target of 50-70% of the anti-AChR autoantibodies (Abs) in human myasthenic serum and in the serum of rats with a model of that disease, experimental autoimmune myasthenia gravis (EAMG), induced by immunizing the rats with the electric organ AChR. These MIR segments covalently joined together bind a significant fraction of the monoclonal antibodies (mAbs) raised in rats against electric organ AChR.
View Article and Find Full Text PDFIsolation of a Novel Low-Temperature-Active and Organic-Solvent-Stable Mannanase from the Intestinal Metagenome of .
Int J Mol Sci
December 2024
Metabolic Engineering Division, National Institute of Agricultural Sciences, Rural Development Administration, Wanju 55365, Republic of Korea.
The black soldier fly, , is a voracious scavenger of various organic materials; therefore, it could be exploited as a biological system for processing daily food waste. In order to survey novel hydrolytic enzymes, we constructed a fosmid metagenome library using unculturable intestinal microorganisms from . Through functional screening of the library on carboxymethyl cellulose plates, we identified a fosmid clone, the product of which displayed hydrolytic activity.
View Article and Find Full Text PDFRoles of Mature Domain Targeting Signals (MTSs) for Protein Translocation and Secretion in .
Int J Mol Sci
December 2024
Institute of Food Technology, Department of Food Science and Technology, BOKU University, 1190 Vienna, Austria.
is a potential bacterial cell factory to develop delivery systems for vaccines and therapeutic proteins. Much progress has been made in applications using engineered against, e.g.
View Article and Find Full Text PDFStrategic Optimization of the Middle Domain IIIA in RBP-Albumin IIIA-IB Fusion Protein to Enhance Productivity and Thermostability.
Int J Mol Sci
December 2024
Department of Biomedical Sciences, College of Medicine, Korea University, Seoul 02841, Republic of Korea.
The protein therapeutics market, including antibody and fusion proteins, has experienced steady growth over the past decade, underscoring the importance of optimizing amino acid sequences. In our previous study, we developed a fusion protein, R31, which combines retinol-binding protein (RBP) with albumin domains IIIA and IB, linked by a sequence (AAAA), and includes an additional disulfide bond (N227C-V254C) in IIIA. This fusion protein effectively inhibited hepatic stellate cell activation.
View Article and Find Full Text PDFWant AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!