arXiv subjects

Shreyan Gupta

Publications and source records attributed to Shreyan Gupta.

4 recordsLinked to original sources

arXiv2026

QuantumXCT: Learning Interaction-Induced State Transformation in Cell-Cell Communication via Quantum Entanglement and Generative Modeling

Inferring cell-cell communication (CCC) from single-cell transcriptomics remains fundamentally limited by reliance on curated ligand-receptor databases, which primarily capture co-expression rather than the system-level effects of signaling on cellular states. Here, we introduce QuantumXCT, a hybrid quantum-classical generative framework that reframes CCC as a problem of learning interaction-induced state transformations between cellular state distributions. By encoding transcriptomic profiles into a high-dimensional Hilbert space, QuantumXCT trains parameterized quantum circuits to learn a unitary transformation that maps a baseline non-interacting cellular state to an interacting state. This approach enables the discovery of communication-driven changes in cellular state distributions without requiring prior biological assumptions. We validate QuantumXCT using both synthetic data with known ground-truth interactions and single-cell RNA-seq data from ovarian cancer-fibroblast co-culture model. The QuantumXCT model accurately recovered complex regulatory dependencies, including feedback structures, and identified dominant communication hubs such as the PDGFB-PDGFRB-STAT3 axis. Importantly, the learned quantum circuit is interpretable: its entangling topology was translated into biologically meaningful interaction networks, while post hoc contribution analysis quantified the relative influence of individual interactions on the observed state transitions. Notably, by shifting CCC inference from static interaction lookup to learning data-driven state transformations, QuantumXCT provides a generative framework for modeling intercellular communication. This work establishes a new paradigm for de novo discovery of communication programs in complex biological systems and highlights the potential of quantum machine learning in the context of single-cell biology.

cs.ET↗

arXiv2025

CCESAR: Coastline Classification-Extraction From SAR Images Using CNN-U-Net Combination

In this article, we improve the deep learning solution for coastline extraction from Synthetic Aperture Radar (SAR) images by proposing a two-stage model involving image classification followed by segmentation. We hypothesize that a single segmentation model usually used for coastline detection is insufficient to characterize different coastline types. We demonstrate that the need for a two-stage workflow prevails through different compression levels of these images. Our results from experiments using a combination of CNN and U-Net models on Sentinel-1 images show that the two-stage workflow, coastline classification-extraction from SAR images (CCESAR) outperforms a single U-Net segmentation model.

cs.CV↗

arXiv2024

Quantum Annealing for Enhanced Feature Selection in Single-Cell RNA Sequencing Data Analysis

Feature selection is a machine learning technique for identifying relevant variables in classification and regression models. In single-cell RNA sequencing (scRNA-seq) data analysis, feature selection is used to identify relevant genes that are crucial for understanding cellular processes. Traditional feature selection methods often struggle with the complexity of scRNA-seq data and suffer from interpretation difficulties. Quantum annealing presents a promising alternative approach. In this study, we implement quantum annealing-empowered quadratic unconstrained binary optimization (QUBO) for feature selection in scRNA-seq data. Using data from a human cell differentiation system and an anticancer drug resistance study, we demonstrate that QUBO feature selection effectively identifies genes whose expression patterns reflect critical cell state transitions associated with differentiation and drug resistance development. Our findings indicate that quantum annealing-powered QUBO reveals complex gene expression patterns potentially missed by traditional methods, thereby enhancing scRNA-seq data analysis and interpretation.

q-bio.GN↗

arXiv2019

Placeto: Learning Generalizable Device Placement Algorithms for Distributed Machine Learning

We present Placeto, a reinforcement learning (RL) approach to efficiently find device placements for distributed neural network training. Unlike prior approaches that only find a device placement for a specific computation graph, Placeto can learn generalizable device placement policies that can be applied to any graph. We propose two key ideas in our approach: (1) we represent the policy as performing iterative placement improvements, rather than outputting a placement in one shot; (2) we use graph embeddings to capture relevant information about the structure of the computation graph, without relying on node labels for indexing. These ideas allow Placeto to train efficiently and generalize to unseen graphs. Our experiments show that Placeto requires up to 6.1x fewer training steps to find placements that are on par with or better than the best placements found by prior approaches. Moreover, Placeto is able to learn a generalizable placement policy for any given family of graphs, which can then be used without any retraining to predict optimized placements for unseen graphs from the same family. This eliminates the large overhead incurred by prior RL approaches whose lack of generalizability necessitates re-training from scratch every time a new graph is to be placed.

cs.LG↗