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Review Sep 2026

Benchmarking reference-based cellular deconvolution algorithms to predict cell proportions.

Computational cellular deconvolution enables researchers to estimate the proportions of distinct cell types in bulk RNA-sequencing (RNA-seq) samples using single-cell RNA-seq (scRNA-seq) as a reference. This offers a scalable and cost-effective alternative to physical cell separation. Despite recent advancements in cel...

Ayesha A. Malik, Muhtasim Noor Alif, Ayla Bratton et al. · 0 citations
Open access Aug 2026

SPIDER: spatially integrated denoising via embedding regularization with single cell supervision

SPIDER is introduced, a semi-supervised framework that leverages independently generated, annotated single-cell RNA-seq (scRNA-seq) references to guide ST denoising, providing a generalizable solution for robust ST data denoising.

Md. Istiaq Ansari, Muhtasim Noor Alif, Wei Zhang · 2 citations

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