Results 71 to 80 of about 68,356 (275)

Integration of Computational Analysis and Spatial Transcriptomics in Single-cell Studies

Genomics, Proteomics & Bioinformatics, 2023
Recent advances of single-cell transcriptomics technologies and allied computational methodologies have revolutionized molecular cell biology. Meanwhile, pioneering explorations in spatial transcriptomics have opened up avenues to address fundamental ...
Ran Wang, Guangdun Peng, Patrick P.L. Tam, Naihe Jing   +3 more
doaj   +1 more source

RaMBat: Accurate identification of medulloblastoma subtypes from diverse data sources with severe batch effects

Molecular Oncology, EarlyView.
To integrate multiple transcriptomics data with severe batch effects for identifying MB subtypes, we developed a novel and accurate computational method named RaMBat, which leveraged subtype‐specific gene expression ranking information instead of absolute gene expression levels to address batch effects of diverse data sources.
Mengtao Sun, Jieqiong Wang, Shibiao Wan
wiley   +1 more source

Schistosomes and snails: A molecular encounter [PDF]

, 2014
Copyright © 2014 Knight, Arican-Goktas, Ittiprasert, Odoemelam, Miller and Bridger. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY).
Arican-Goktas, HD, Bridger, JM, Ittiprasert, W, Knight, M, Miller, AN, Odoemelam, EC   +5 more
core   +3 more sources

Colorectal cancer‐derived FGF19 is a metabolically active serum biomarker that exerts enteroendocrine effects on mouse liver

Molecular Oncology, EarlyView.
Meta‐transcriptome analysis identified FGF19 as a peptide enteroendocrine hormone associated with colorectal cancer prognosis. In vivo xenograft models showed release of FGF19 into the blood at levels that correlated with tumor volumes. Tumoral‐FGF19 altered murine liver metabolism through FGFR4, thereby reducing bile acid synthesis and increasing ...
Jordan M. Beardsley, Michael W. Rohr, Joseph A. Goode, Sai Preethi Nakkina, Jignesh G. Parikh, Deborah A. Altomare   +5 more
wiley   +1 more source

Integrating multiple spatial transcriptomics data using community-enhanced graph contrastive learning.

PLoS Computational Biology
Due to the rapid development of spatial sequencing technologies, large amounts of spatial transcriptomic datasets have been generated across various technological platforms or different biological conditions (e.g., control vs. treatment).
Wenqian Tu, Lihua Zhang
doaj   +1 more source

Spatial transcriptomics in breast cancer: providing insight into tumor heterogeneity and promoting individualized therapy

Frontiers in Immunology
A comprehensive understanding of tumor heterogeneity, tumor microenvironment and the mechanisms of drug resistance is fundamental to advancing breast cancer research. While single-cell RNA sequencing has resolved the issue of “temporal dynamic expression”
Junsha An, Junsha An, Junsha An, Yajie Lu, Yuxi Chen, Yuling Chen, Zhaokai Zhou, Jianping Chen, Cheng Peng, Ruizhen Huang, Fu Peng, Fu Peng   +11 more
doaj   +1 more source

SiGra: single-cell spatial elucidation through an image-augmented graph transformer

Nature Communications, 2023
Recent advances in high-throughput molecular imaging have pushed spatial transcriptomics technologies to subcellular resolution, which surpasses the limitations of both single-cell RNA-seq and array-based spatial profiling.
Ziyang Tang, Zuotian Li, Tieying Hou, Tonglin Zhang, Baijian Yang, Jing Su, Qianqian Song   +6 more
doaj   +1 more source

Salivary biomarker development using genomic, proteomic and metabolomic approaches. [PDF]

, 2012
The use of saliva as a diagnostic sample provides a non-invasive, cost-efficient method of sample collection for disease screening without the need for highly trained professionals.
Bonne, Nicolai J, Wong, David Tw
core   +1 more source

Network divergence analysis identifies adaptive gene modules and two orthogonal vulnerability axes in pancreatic cancer

Molecular Oncology, EarlyView.
Tumors contain diverse cellular states whose behavior is shaped by context‐dependent gene coordination. By comparing gene–gene relationships across biological contexts, we identify adaptive transcriptional modules that reorganize into distinct vulnerability axes.
Brian Nelson, Lyanne Delgado‐Coka, Natalia Marchenko, Luisa F. Escobar‐Hoyos, Kenneth R. Shroyer, Alisa Yurovsky, Trey Ideker, Gabor Balázsi, Thomas MacCarthy, Scott Powers   +9 more
wiley   +1 more source

Molecular landscape of the mouse adrenal gland and adjacent adipose tissue by spatial transcriptomics

Folia Histochemica et Cytobiologica
INTRODUCTION: . The adrenal glands are central regulators of endocrine homeostasis and stress adaptation. Despite decades of research, the molecular mechanisms governing adrenal zonation and cortical renewal remain incompletely understood.
Malgorzata Blatkiewicz, Szymon Hryhorowicz, Marta Szyszka, Joanna Suszynska-Zajczyk, Andrzej Plawski, Adam Plewinski, Andrea Porzionato, Ludwik K. Malendowicz, Marcin Rucinski   +8 more
doaj   +1 more source