Transfer learning for clustering single-cell RNA-seq data crossing-species and batch, case on uterine fibroids

YM Wang, Y Sun, B Wang, Z Wu, XY He… - Briefings in …, 2024 - academic.oup.com
Due to the high dimensionality and sparsity of the gene expression matrix in single-cell RNA-
sequencing (scRNA-seq) data, coupled with significant noise generated by shallow …

Understanding Fibroblast Heterogeneity in Form and Function

JB Parker, C Valencia, D Akras, SE DiIorio, MF Griffin… - Biomedicines, 2023 - mdpi.com
Historically believed to be a homogeneous cell type that is often overlooked, fibroblasts are
more and more understood to be heterogeneous in nature. Though the mechanisms behind …

[HTML][HTML] Solute carrier (SLC) expression reveals skeletogenic cell diversity

Y Lee, E Tjeerdema, S Kling, N Chang… - Developmental …, 2023 - Elsevier
Within the developing embryo is a microcosm of cell type diversity. Single cell RNA-
sequencing (scRNA-seq) is used to reveal cell types, typically by grouping cells according to …

Tumor-associated macrophage subtypes on cancer immunity along with prognostic analysis and SPP1-mediated interactions between tumor cells and macrophages

L Xu, Y Chen, L Liu, X Hu, C He, Y Zhou, X Ding… - Plos …, 2024 - journals.plos.org
Tumor-associated macrophages (TAM) subtypes have been shown to impact cancer
prognosis and resistance to immunotherapy. However, there is still a lack of systematic …

The core role of macrophages in hepatocellular carcinoma: the definition of molecular subtypes and the prognostic risk system

Q Wang, Y Lin, W Yu, X Chen, Q He… - Frontiers in Pharmacology, 2023 - frontiersin.org
Background: In patients with hepatocellular carcinoma (HCC), the tumor microenvironment
(TME) is resistant to immunotherapy because of its specificity. It is meaningful to explore the …

BRAQUE: Bayesian reduction for amplified quantization in UMAP embedding

L Dall'Olio, M Bolognesi, S Borghesi, G Cattoretti… - Entropy, 2023 - mdpi.com
Single-cell biology has revolutionized the way we understand biological processes. In this
paper, we provide a more tailored approach to clustering and analyzing spatial single-cell …

[HTML][HTML] Evaluation of pulmonary single‐cell identity specificity in scRNA‐seq analysis

X Liu, G Xu, C Chen, Y Song, W Wang… - Clinical and …, 2022 - ncbi.nlm.nih.gov
Dear Editor, The single cell RNA sequencing (scRNA-seq) technology provides new insights
into understanding of single-cell transcriptomic atlas and intercellular communication. 1 …

Application of Multi-Perspectives in Tea Breeding and the Main Directions

H Li, K Song, X Zhang, D Wang, S Dong, Y Liu… - International Journal of …, 2023 - mdpi.com
Tea plants are an economically important crop and conducting research on tea breeding
contributes to enhancing the yield and quality of tea leaves as well as breeding traits that …

Ushering in a new era of single-cell transcriptomics in bacteria

C Homberger, L Barquist, J Vogel - Microlife, 2022 - academic.oup.com
Transcriptome analysis of individual cells by single-cell RNA-seq (scRNA-seq) has become
routine for eukaryotic tissues, even being applied to whole multicellular organisms. In …

[HTML][HTML] Single-cell and spatial sequencing application in pathology

YS Kim, J Choi, SH Lee - Journal of Pathology and Translational …, 2023 - ncbi.nlm.nih.gov
Traditionally, diagnostic pathology uses histology representing structural alterations in a
disease's cells and tissues. In many cases, however, it is supplemented by other …