Gaurav Ahuja
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View article: Deep learning reveals endogenous sterols as allosteric modulators of the GPCR–Gα interface
Deep learning reveals endogenous sterols as allosteric modulators of the GPCR–Gα interface Open
Endogenous intracellular allosteric modulators of GPCRs remain largely unexplored, with limited binding and phenotype data available. This gap arises from the lack of robust computational methods for unbiased cavity identification, cavity-…
View article: Mechanism-aware inference of response to targeted cancer therapies
Mechanism-aware inference of response to targeted cancer therapies Open
Targeted therapies like small-molecule inhibitors often work by blocking proteins that cancer cells rely on for survival. Omics based modeling of drug sensitivity alone lack mechanistic grounding. We propose FORGE (Factorization Of Respons…
View article: SynGlue: AI-Driven Designer for Clinically Actionable Multi-Target Therapeutics
SynGlue: AI-Driven Designer for Clinically Actionable Multi-Target Therapeutics Open
The rational design of multi-targeting compounds and targeted protein degraders, such as PROTACs, remains a significant challenge in drug discovery. Here, we introduce SynGlue, a modular generative AI platform that integrates fragment-base…
View article: Network based simultaneous embedding of cells and marker genes from scRNA-seq studies
Network based simultaneous embedding of cells and marker genes from scRNA-seq studies Open
The complexity of scRNA-sequencing datasets highlights the urgent need for enhanced clustering and visualization methods. Here, we propose Stardust, an iterative, force-directed graph layout algorithm that enables the simultaneous embeddin…
View article: Artificial intelligence driven tumor risk stratification from single-cell transcriptomics using phenotype algebra
Artificial intelligence driven tumor risk stratification from single-cell transcriptomics using phenotype algebra Open
Single-cell RNA-sequencing (scRNA-seq) coupled with robust computational analysis facilitates the characterization of phenotypic heterogeneity within tumors. Current scRNA-seq analysis pipelines are capable of identifying a myriad of malig…
View article: Deep learning reveals endogenous sterols as allosteric modulators of the GPCR–Gα interface
Deep learning reveals endogenous sterols as allosteric modulators of the GPCR–Gα interface Open
Endogenous intracellular allosteric modulators of GPCRs remain largely unexplored, with limited binding and phenotype data available. This gap arises from the lack of robust computational methods for unbiased cavity identification, cavity-…
View article: Deep Learning Reveals Endogenous Sterols as Allosteric Modulators of the GPCR-Gα Interface
Deep Learning Reveals Endogenous Sterols as Allosteric Modulators of the GPCR-Gα Interface Open
Endogenous intracellular allosteric modulators of GPCRs remain largely unexplored, with limited binding and phenotype data available. This gap arises from the lack of robust computational methods for unbiased cavity identification, cavity-…
View article: SCellBOW: AI-Driven Tumor Risk Stratification from Single-Cell Transcriptomics Using Phenotype Algebra
SCellBOW: AI-Driven Tumor Risk Stratification from Single-Cell Transcriptomics Using Phenotype Algebra Open
Single-cell RNA-sequencing (scRNA-seq) coupled with robust computational analysis facilitates the characterization of phenotypic heterogeneity within tumors. Current scRNA-seq analysis pipelines are capable of identifying a myriad of malig…
View article: scCamAge: A context-aware prediction engine for cellular age, aging-associated bioactivities, and morphometrics
scCamAge: A context-aware prediction engine for cellular age, aging-associated bioactivities, and morphometrics Open
Current deep-learning-based image-analysis solutions exhibit limitations in holistically capturing spatiotemporal cellular changes, particularly during aging. We present scCamAge, an advanced context-aware multimodal prediction engine that…
View article: Evaluation of In Vivo Efficacy and In Vitro Shear Bond Strength of Fluoride-Releasing Orthodontic Composite and Fluoride Varnish
Evaluation of In Vivo Efficacy and In Vitro Shear Bond Strength of Fluoride-Releasing Orthodontic Composite and Fluoride Varnish Open
Fluoride-releasing orthodontic composite and fluoridated varnish can be used to prevent plaque accumulation and demineralization and maintain gingival health during fixed orthodontic therapy.
View article: RCoxNet: deep learning framework for enhanced cancer survival prediction integrating random walk with restart with mutation and clinical data
RCoxNet: deep learning framework for enhanced cancer survival prediction integrating random walk with restart with mutation and clinical data Open
Cancer poses a significant global health challenge, characterized by a complex disease progression and disrupted growth regulation. A thorough understanding of cellular and molecular biological mechanisms is essential for developing novel …
View article: Artificial intelligence driven tumor risk stratification from single-cell transcriptomics using phenotype algebra
Artificial intelligence driven tumor risk stratification from single-cell transcriptomics using phenotype algebra Open
Single-cell RNA-sequencing (scRNA-seq) coupled with robust computational analysis facilitates the characterization of phenotypic heterogeneity within tumors. Current scRNA-seq analysis pipelines are capable of identifying a myriad of malig…
View article: Pseudo-grading of tumor subpopulations from single-cell transcriptomic data using Phenotype Algebra
Pseudo-grading of tumor subpopulations from single-cell transcriptomic data using Phenotype Algebra Open
Single-cell RNA-sequencing (scRNA-seq) coupled with robust computational analysis facilitates the characterization of phenotypic heterogeneity within tumors. Current scRNA-seq analysis pipelines are capable of identifying a myriad of malig…
View article: Intra-DNA k-mer Conservation Patterns Encode Evolutionary Selection of Variants
Intra-DNA k-mer Conservation Patterns Encode Evolutionary Selection of Variants Open
Evolution shapes the structure and content of genomes, yet the contribution of local sequence composition to variant selection remains poorly understood. While traditional models emphasize protein function or cross-species conservation, we…
View article: Integrative Functions of the Hypothalamus: Linking Cognition, Emotion and Physiology for Well-being and Adaptability
Integrative Functions of the Hypothalamus: Linking Cognition, Emotion and Physiology for Well-being and Adaptability Open
Background The hypothalamus, a small yet crucial neuroanatomical structure, integrates external (e.g., environmental) and internal (e.g., physiological/hormonal) stimuli. This integration governs various physiological processes and influen…
View article: Literature mining discerns latent disease–gene relationships
Literature mining discerns latent disease–gene relationships Open
Motivation Dysregulation of a gene’s function, either due to mutations or impairments in regulatory networks, often triggers pathological states in the affected tissue. Comprehensive mapping of these apparent gene–pathology relationships i…
View article: Issue Information
Issue Information Open
No abstract is available for this article.
View article: Integrative Functions of the Hypothalamus: Linking Cognition, Emotion, and Physiology for Well-being and Adaptability
Integrative Functions of the Hypothalamus: Linking Cognition, Emotion, and Physiology for Well-being and Adaptability Open
The hypothalamus, a diminutive yet vital neuroanatomical structure, plays a central role in integrating external (e.g., environmental) and internal (e.g., physiological/hormonal) stimuli that, in turn, govern diverse physiological processe…
View article: Artificial Intelligence Uncovers Evolutionarily Conserved Intracellular Allosteric Modulators of GPCR-Gα Interface
Artificial Intelligence Uncovers Evolutionarily Conserved Intracellular Allosteric Modulators of GPCR-Gα Interface Open
Traditionally, the exogenous allosteric modulators of G protein-coupled receptors (GPCRs) have been extensively investigated due to their pharmacological significance. However, to date, only a handful of endogenous intracellular allosteric…
View article: mRNA translational specialization by RBPMS presets the competence for cardiac commitment in hESCs
mRNA translational specialization by RBPMS presets the competence for cardiac commitment in hESCs Open
The blueprints of developing organs are preset at the early stages of embryogenesis. Transcriptional and epigenetic mechanisms are proposed to preset developmental trajectories. However, we reveal that the competence for the future cardiac…
View article: Deep Learning Reveals Endogenous Sterols as Allosteric Modulators of the GPCR-Gα Interface
Deep Learning Reveals Endogenous Sterols as Allosteric Modulators of the GPCR-Gα Interface Open
Endogenous intracellular allosteric modulators of GPCRs remain largely unexplored, with limited binding and phenotype data available. This gap arises from the lack of robust computational methods for unbiased cavity identification, cavity-…
View article: Salivary protein kinase C alpha and novel microRNAs as diagnostic and therapeutic resistance markers for oral squamous cell carcinoma in Indian cohorts
Salivary protein kinase C alpha and novel microRNAs as diagnostic and therapeutic resistance markers for oral squamous cell carcinoma in Indian cohorts Open
Oral squamous cell carcinoma (OSCC) is the second leading cause of cancer-related morbidity and mortality in India. Tobacco, alcohol, poor oral hygiene, and socio-economic factors remain causative for this high prevalence. Identification o…
View article: SCellBOW: AI-Driven Tumor Risk Stratification from Single-Cell Transcriptomics Using Phenotype Algebra
SCellBOW: AI-Driven Tumor Risk Stratification from Single-Cell Transcriptomics Using Phenotype Algebra Open
Single-cell RNA-sequencing (scRNA-seq) coupled with robust computational analysis facilitates the characterization of phenotypic heterogeneity within tumors. Current scRNA-seq analysis pipelines are capable of identifying a myriad of malig…