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Map** cellular interactions from spatially resolved transcriptomics data
Cell–cell communication (CCC) is essential to how life forms and functions. However,
accurate, high-throughput map** of how expression of all genes in one cell affects …
accurate, high-throughput map** of how expression of all genes in one cell affects …
A bird's eye view of fibroblast heterogeneity: a pan‐disease, pan‐cancer perspective
Fibroblasts, custodians of tissue architecture and function, are no longer considered a
monolithic entity across tissues and disease indications. Recent advances in single‐cell …
monolithic entity across tissues and disease indications. Recent advances in single‐cell …
Sprod for de-noising spatially resolved transcriptomics data based on position and image information
Spatially resolved transcriptomics (SRT) provide gene expression close to, or even superior
to, single-cell resolution while retaining the physical locations of sequencing and often also …
to, single-cell resolution while retaining the physical locations of sequencing and often also …
Comparative analysis of dimension reduction methods for cytometry by time-of-flight data
While experimental and informatic techniques around single cell sequencing (scRNA-seq)
are advanced, research around mass cytometry (CyTOF) data analysis has severely lagged …
are advanced, research around mass cytometry (CyTOF) data analysis has severely lagged …
CanCellVar: a database for single-cell variants map in human cancer
C Yang, Y Liu, C Lv, M Xu, K Xu, J Shi, T Tan… - The American Journal of …, 2024 - cell.com
Numerous variants, including both single-nucleotide variants (SNVs) in DNA and A> G RNA
edits in mRNA as essential drivers of cellular proliferation and tumorigenesis, are commonly …
edits in mRNA as essential drivers of cellular proliferation and tumorigenesis, are commonly …
[HTML][HTML] Immunotherapy of cancer in single-cell RNA sequencing era: A precision medicine perspective
Immunotherapy has revolutionized cancer treatment and brought new aspects into tumor
immunology. Effective immunotherapy will require using the suitable target antigens …
immunology. Effective immunotherapy will require using the suitable target antigens …
SpotGF: Denoising spatially resolved transcriptomics data using an optimal transport-based gene filtering algorithm
L Du, J Kang, Y Hou, HX Sun, B Zhang - Cell Systems, 2024 - cell.com
Spatially resolved transcriptomics (SRT) combines gene expression profiles with the
physical locations of cells in their native states but suffers from unpredictable spatial noise …
physical locations of cells in their native states but suffers from unpredictable spatial noise …
Benchmarking bulk and single-cell variant-calling approaches on Chromium scRNA-seq and scATAC-seq libraries
Single-cell sequencing methodologies such as scRNA-seq and scATAC-seq have become
widespread and effective tools to interrogate tissue composition. Increasingly, variant callers …
widespread and effective tools to interrogate tissue composition. Increasingly, variant callers …
Netie: inferring the evolution of neoantigen–T cell interactions in tumors
Neoantigens are the key targets of antitumor immune responses from cytotoxic T cells and
play a critical role in affecting tumor progressions and immunotherapy treatment responses …
play a critical role in affecting tumor progressions and immunotherapy treatment responses …
A novel graph-based k-partitioning approach improves the detection of gene-gene correlations by single-cell RNA sequencing
Background Gene expression is regulated by transcription factors, cofactors, and epigenetic
mechanisms. Coexpressed genes indicate similar functional categories and gene networks …
mechanisms. Coexpressed genes indicate similar functional categories and gene networks …