Results 11 to 20 of about 2,380,938 (249)

Combining spatial transcriptomics with tissue morphology

Nature Communications
Spatial transcriptomics has transformed our understanding of tissue architecture by preserving the spatial context of gene expression patterns. Simultaneously, advances in imaging AI have enabled extraction of morphological features describing the tissue.
Eduard Chelebian, Christophe Avenel, Carolina Wählby   +2 more
doaj   +2 more sources

Advances in spatial transcriptomics and its applications in cancer research

Molecular Cancer
Malignant tumors have increasing morbidity and high mortality, and their occurrence and development is a complicate process. The development of sequencing technologies enabled us to gain a better understanding of the underlying genetic and molecular ...
Yang Jin, Yuanli Zuo, Gang Li, Wenrong Liu, Yitong Pan, Ting Fan, Xin Fu, Xiaojun Yao, Yong Peng   +8 more
doaj   +2 more sources

A Meta-Review of Spatial Transcriptomics Analysis Software

Cells
Spatial transcriptomics combines gene expression data with spatial coordinates to allow for the discovery of detailed RNA localization, study development, investigating the tumor microenvironment, and creating a tissue atlas.
Jessica Gillespie, Maciej Pietrzak, Min-Ae Song, Dongjun Chung   +3 more
doaj   +2 more sources

scDOT: optimal transport for mapping senescent cells in spatial transcriptomics

Genome Biology
The low resolution of spatial transcriptomics data necessitates additional information for optimal use. We developed scDOT, which combines spatial transcriptomics and single cell RNA sequencing to improve the ability to reconstruct single cell resolved ...
Nam D. Nguyen, Lorena Rosas, Timur Khaliullin, Peiran Jiang, Euxhen Hasanaj, Jose A. Ovando-Ricardez, Marta Bueno, Irfan Rahman, Gloria S. Pryhuber, Dongmei Li, Qin Ma, Toren Finkel, Melanie Königshoff, Oliver Eickelberg, Mauricio Rojas, Ana L. Mora, Jose Lugo-Martinez, Ziv Bar-Joseph   +17 more
doaj   +2 more sources

Application of Spatial Transcriptomics in Digestive System Tumors

Biomolecules
In the field of digestive system tumor research, spatial transcriptomics technologies are used to delve into the spatial structure and the spatial heterogeneity of tumors and to analyze the tumor microenvironment (TME) and the inter-cellular interactions
Bowen Huang, Yingjia Chen, Shuqiang Yuan
doaj   +2 more sources

Spatial Transcriptomics: Emerging Technologies in Tissue Gene Expression Profiling [PDF]

, 2023
Spatial transcriptomics technologies are providing new insights to study gene expression, allowing researchers to investigate the spatial organization of transcriptomes in cells and tissues.
Rosario M., Sanchez-Martin, Juan J., Diaz-Mochon*, Agustín, Robles-Remacho*   +2 more
core   +3 more sources

Harnessing Single-Cell and Spatial Transcriptomics for Crop Improvement

Plants
Single-cell and spatial transcriptomics technologies have significantly advanced our understanding of the molecular mechanisms underlying crop biology. This review presents an update on the application of these technologies in crop improvement.
Yuzhao Hu, Linkan Dash, Gregory May, Nagesh Sardesai, Stéphane Deschamps   +4 more
doaj   +2 more sources

Computational solutions for spatial transcriptomics [PDF]

, 2022
Transcriptome level expression data connected to the spatial organization of the cells and molecules would allow a comprehensive understanding of how gene expression is connected to the structure and function in the biological systems.
Elo Laura L, Suomi Tomi, Kleino Iivari, Frolovaitė Paulina   +3 more
core   +1 more source

Computation Foundations of Spatial Transcriptomics [PDF]

, 2023
Single-cell and spatial transcriptomics have come of age in the past few years; datasets and data analysis software packages have proliferated. With the increasing sizes of datasets, proliferating new data collection technologies, and mainstreaming of ...
Moses, Lambda
core   +1 more source

ScialdoneLab/Spatial-Transcriptomics: mouse3Dnose

, 2022
This release contains the scripts used for the analysis presented in the article "A 3D transcriptomics atlas of the mouse nose sheds light into the anatomical logic of smell", as well as the code for the shiny app for 3D visualisation of gene expression ...
Mayra L. Ruiz Tejada Segura
core   +1 more source