Spatial transcriptomics data and analytical methods

Spatial transcriptomics data and analytical methods - PubMed

Spatial transcriptomics (ST) is a newly emerging field that integrates high-resolution imaging and transcriptomic data to enable the high-throughput ...

Spatial transcriptomics data and analytical methods: An updated ...

In this review, we briefly discuss the ST-related databases and current deep-learning-based models for spatial transcriptome data analyses.

Advances in spatial transcriptomics and related data analysis ...

Feasible methods for obtaining a fine-grained assessment of spatial transcriptome can be generally classified into four primary categories ...

Advances in spatial transcriptomic data analysis - PMC

First, sequential fluorescent in situ hybridization (FISH)–based methods use a targeted approach, which is based on predesigned probes. By introducing clever ...

Analysis and Visualization of Spatial Transcriptomic Data - Frontiers

Spatial transcriptomic data can be generated in several ways. RNA molecules are measured by in situ sequencing, in situ hybridization, or spatial barcoding to ...

Spatial Transcriptomic Data Analysis: A Beginner's Guide

The goal of many spatial transcriptomic analyses is to identify transcriptomically similar areas of tissue and group these into features such as ...

Statistical and machine learning methods for spatially resolved ...

A spatial transcriptomics data analysis workflow typically includes multiple phases (Fig. 1E). The first step is data preprocessing, which ...

Theranostics Spatial Transcriptomics

Researchers have conducted an analysis integrating ST with histopathological methods to scrutinize molecular and cellular changes within the ...

Museum of spatial transcriptomics | Nature Methods

In the past decade, high-throughput technologies have been developed to quantify gene expression in space, and computational methods have been ...

STOmicsDB: a comprehensive database for spatial transcriptomics ...

In brief, STOmicsDB is a spatial transcriptomics database to analyze and visualize existing datasets and comparative analysis of user data, ...

10x Visium spatial transcriptomics data analysis with STdeconvolve ...

I'm trying out different video styles to teach students about bioinformatics analyses for spatially resolved transcriptomics data.

Spatial transcriptomics data and analytical methods - ResearchGate

While single-cell RNA-seq (scRNA-seq) offers comprehensive profiling of cells within a tissue, it fails to capture spatial context. Conversely, ...

Spatial Omics Methods and Applications | GigaScience

Spatial transcriptomics (ST) combines stained tissue images with spatially resolved high-throughput RNA sequencing. The spatial transcriptomic analysis includes ...

MUSTANG: Multi-sample spatial transcriptomics data analysis with ...

Spatial transcriptomics (ST) enables the localization of cell types and their associated gene expression within tissue samples.

Spatial transcriptomic data analysis for beginners : r/bioinformatics

look at gene expression relationships. Metrics like Moran's I can tell you the spatial autocorrelation of a gene or even 2 (bivariate). This ...

Integrative analysis methods for spatial transcriptomics - Nature

Analysis tools for spatially resolved transcriptomics usually take a data-first approach to understanding biology, sometimes described as ' ...

Live R Coding Session - Spatial transcriptomics data analysis with ...

I record myself coding in the R programming language to perform an exploratory bioinformatics analysis of multi-cellular pixel resolution ...

Mapping the transcriptome: Realizing the full potential of spatial data ...

Single-cell RNA sequencing (scRNA-seq) has proven invaluable as a method for generating relatively unbiased, hypothesis-free data at single-cell ...

Spatial transcriptomics data and analytical methods - SciSpace

TL;DR: The ST-related databases and current deep-learning-based models for spatial transcriptome data analyses are discussed and their roles and future ...

Spatial transcriptomics data and analytical methods - OUCI

Spatial transcriptomics data and analytical methods: An updated perspective · List of references · Publications that cite this publication. Transcriptomics in ...