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Characterization of a putative orexin receptor in Ciona intestinalis sheds light on the evolution of the orexin/hypocretin system in chordates
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VirtuousPocketome: a computational tool for screening protein–ligand complexes to identify similar binding sites
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Characterizing conformational states in GPCR structures using machine learning
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A repertoire of candidate effector proteins of the fungus Ceratocystis cacaofunesta
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AiKPro: deep learning model for kinome-wide bioactivity profiling using structure-based sequence alignments and molecular 3D conformer ensemble descriptors
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Rare variant contribution to cholestatic liver disease in a South Asian population in the United Kingdom
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Coenzyme A binding sites induce proximal acylation across protein families
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Accurate prediction by AlphaFold2 for ligand binding in a reductive dehalogenase and implications for PFAS (per- and polyfluoroalkyl substance) biodegradation
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Optimizing variant-specific therapeutic SARS-CoV-2 decoys using deep-learning-guided molecular dynamics simulations
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Pan-kinome of Legionella expanded by a bioinformatics survey
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Structural informatic study of determined and AlphaFold2 predicted molecular structures of 13 human solute carrier transporters and their water-soluble QTY variants
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The effect of mutations on binding interactions between the SARS-CoV-2 receptor binding domain and neutralizing antibodies B38 and CB6
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Parallel functional annotation of cancer-associated missense mutations in histone methyltransferases
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Improving protein succinylation sites prediction using embeddings from protein language model
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De novo metatranscriptomic exploration of gene function in the millipede holobiont
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ProteinGLUE multi-task benchmark suite for self-supervised protein modeling
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Identification and expression of functionally conserved circadian clock genes in lichen-forming fungi
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Exploring the medicinally important secondary metabolites landscape through the lens of transcriptome data in fenugreek (Trigonella foenum graecum L.)
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Gene function prediction in five model eukaryotes exclusively based on gene relative location through machine learning
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AlphaFold2 models indicate that protein sequence determines both structure and dynamics
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Multi-task learning to leverage partially annotated data for PPI interface prediction
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A novel method for assessing and measuring homophily in networks through second-order statistics
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Dynamic insights into the effects of nonsynonymous polymorphisms (nsSNPs) on loss of TREM2 function
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Non-covalent Fc-Fab interactions significantly alter internal dynamics of an IgG1 antibody
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LM-GVP: an extensible sequence and structure informed deep learning framework for protein property prediction
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LIM domain-wide comprehensive virtual mutagenesis provides structural rationale for cardiomyopathy mutations in CSRP3
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Interactions of Co, Cu, and non-metal phthalocyanines with external structures of SARS-CoV-2 using docking and molecular dynamics
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A deep learning model to detect novel pore-forming proteins
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Extracting phylogenetic dimensions of coevolution reveals hidden functional signals
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In-silico phenotype prediction by normal mode variant analysis in TUBB4A-related disease
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Protein embeddings and deep learning predict binding residues for various ligand classes
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ACP-MHCNN: an accurate multi-headed deep-convolutional neural network to predict anticancer peptides
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Apoplastic effector candidates of a foliar forest pathogen trigger cell death in host and non-host plants
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Autoencoder-based detection of the residues involved in G protein-coupled receptor signaling
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Theoretical and experimental study of interaction of macroheterocyclic compounds with ORF3a of SARS-CoV-2
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Computational identification of multiple lysine PTM sites by analyzing the instance hardness and feature importance
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Insights into the substrate binding mechanism of SULT1A1 through molecular dynamics with excited normal modes simulations
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A deep learning based approach for prediction of Chlamydomonas reinhardtii phosphorylation sites
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Critical assessment of coiled-coil predictions based on protein structure data
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Predicting MHC I restricted T cell epitopes in mice with NAP-CNB, a novel online tool
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Difference of binding modes among three ligands to a receptor mSin3B corresponding to their inhibitory activities
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An in silico deep learning approach to multi-epitope vaccine design: a SARS-CoV-2 case study
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Improved prediction and characterization of anticancer activities of peptides using a novel flexible scoring card method
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Comparative transcriptomics and host-specific parasite gene expression profiles inform on drivers of proliferative kidney disease
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Embeddings from deep learning transfer GO annotations beyond homology
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In silico analysis of epitope-based vaccine candidate against tuberculosis using reverse vaccinology
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Bioinformatic mapping of a more precise Aspergillus niger degradome
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Structural insights and evaluation of the potential impact of missense variants on the interactions of SLIT2 with ROBO1/4 in cancer progression
- Debmalya Sengupta
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AnOxPePred: using deep learning for the prediction of antioxidative properties of peptides
- Tobias Hegelund Olsen
- , Betül Yesiltas
- & Paolo Marcatili
CCDC58 is a potential biomarker for diagnosis, prognosis, immunity, and genomic heterogeneity in pan-cancer