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Basic Helix-Loop-Helix Transcription Factors

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Integrating bioinformatics and machine learning to identify AhR-related gene signatures for prognosis and tumor microenvironment modulation in melanoma.

Frontiers in immunology 39835132
BACKGROUND: The Aryl Hydrocarbon Receptor (AhR) pathway significantly influences immune cell regulation, impacting the effectiveness of immunotherapy and patient outcomes in melanoma. However, the specific downstream targets and mechanisms by which A...
Animals Basic Helix-Loop-Helix Transcription Factors Biomarkers, Tumor Computational Biology Databases, Genetic Gene Expression Profiling Gene Expression Regulation, Neoplastic Humans Lymphocytes, Tumor-Infiltrating Machine Learning Melanoma Mice Prognosis Receptors, Aryl Hydrocarbon Skin Neoplasms Transcriptome Tumor Microenvironment
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An interpretable bimodal neural network characterizes the sequence and preexisting chromatin predictors of induced transcription factor binding.

Genome biology 33413545
BACKGROUND: Transcription factor (TF) binding specificity is determined via a complex interplay between the transcription factor's DNA binding preference and cell type-specific chromatin environments. The chromatin features that correlate with transc...
Basic Helix-Loop-Helix Transcription Factors Binding Sites Chromatin DNA-Binding Proteins Gene Expression Regulation Genome Histones Humans Neural Networks, Computer Protein Binding Transcription Factors
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Reconstruction of ARNT PAS-B Unfolding Pathways by Steered Molecular Dynamics and Artificial Neural Networks.

Journal of chemical theory and computation 33780250
Several experimental studies indicated that large conformational changes, including partial domain unfolding, have a role in the functional mechanisms of the basic helix loop helix Per/ARNT/SIM (bHLH-PAS) transcription factors. Recently, single-molec...
Basic Helix-Loop-Helix Transcription Factors Microscopy, Atomic Force Molecular Dynamics Simulation Neural Networks, Computer Protein Conformation Protein Unfolding
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bHLHDB: A next generation database of basic helix loop helix transcription factors based on deep learning model.

Journal of bioinformatics and computational biology 35881019
The basic helix loop helix (bHLH) superfamily is a large and diverse protein family that plays a role in various vital functions in nearly all animals and plants. The bHLH proteins form one of the largest families of transcription factors found in pl...
Amino Acid Sequence Animals Basic Helix-Loop-Helix Transcription Factors Deep Learning Phylogeny Plants Transcription Factors
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Interpretable predictive models of genome-wide aryl hydrocarbon receptor-DNA binding reveal tissue-specific binding determinants.

Toxicological sciences : an official journal of the Society of Toxicology 37707797
The aryl hydrocarbon receptor (AhR) is an inducible transcription factor whose ligands include the potent environmental contaminant 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD). Ligand-activated AhR binds to DNA at dioxin response elements (DREs) conta...
Basic Helix-Loop-Helix Transcription Factors Genome, Human Humans Machine Learning Organ Specificity Receptors, Aryl Hydrocarbon
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