Spatial transcriptomics data and analytical methods: an updated perspective

S Khan, JJ Kim - Drug Discovery Today, 2024 - Elsevier
Spatial transcriptomics (ST) is a newly emerging field that integrates high-resolution imaging
and transcriptomic data to enable the high-throughput analysis of the spatial localization of …

Spatial transcriptomics: emerging technologies in tissue gene expression profiling

A Robles-Remacho, RM Sanchez-Martin… - Analytical …, 2023 - ACS Publications
In this Perspective, we discuss the current status and advances in spatial transcriptomics
technologies, which allow high-resolution mapping of gene expression in intact cell and …

GeneViT: Gene vision transformer with improved DeepInsight for cancer classification

M Gokhale, SK Mohanty, A Ojha - Computers in Biology and Medicine, 2023 - Elsevier
Abstract Analysis of gene expression data is crucial for disease prognosis and diagnosis.
Gene expression data has high redundancy and noise that brings challenges in extracting …

Fragment-sequencing unveils local tissue microenvironments at single-cell resolution

K Handler, K Bach, C Borrelli, S Piscuoglio… - Nature …, 2023 - nature.com
Cells collectively determine biological functions by communicating with each other—both
through direct physical contact and secreted factors. Consequently, the local …

Amyotrophic lateral sclerosis, FUS and protein synthesis defects

AF Assoni, F Foijer, M Zatz - Stem Cell Reviews and Reports, 2023 - Springer
Amyotrophic lateral sclerosis (ALS) is a neurodegenerative disease that mainly affects the
motor system. It is a very heterogeneous disorder, so far more than 40 genes have been …

Spatial transcriptomics and the anatomical pathologist: Molecular meets morphology

JMB Pang, DJ Byrne, ART Bergin, F Caramia… - …, 2024 - Wiley Online Library
In recent years anatomical pathology has been revolutionised by the incorporation of
molecular findings into routine diagnostic practice, and in some diseases the presence of …

Genetic and Gene Expression Resources for Osteoporosis and Bone Biology Research

S Kaya, T Alliston, DS Evans - Current osteoporosis reports, 2023 - Springer
Abstract Purpose of Review The integration of data from multiple genomic assays from
humans and non-human model organisms is an effective approach to identify genes …

Spatial transcriptomics in human biomedical research and clinical application

W Hu, Y Zhang, J Mei, X Fang - Current Medicine, 2023 - Springer
Over the past 15 years, single-cell RNA sequencing (scRNA-seq) technology, in
combination with other omics, has revealed the mechanisms of human development …

Joint Bayesian estimation of cell dependence and gene associations in spatially resolved transcriptomic data

A Chakrabarti, Y Ni, BK Mallick - Scientific Reports, 2024 - nature.com
Recent technologies such as spatial transcriptomics, enable the measurement of gene
expressions at the single-cell level along with the spatial locations of these cells in the …

Single-cell transcriptomics in tissue engineering and regenerative medicine

A Ruta, K Krishnan, JH Elisseeff - Nature Reviews Bioengineering, 2024 - nature.com
Regenerative medicine and tissue engineering aim to promote functional rebuilding of
damaged tissue. Comprehensively profiling cell identity, function and interaction in healthy …