Results 51 to 60 of about 2,380,938 (249)

Spatial Transcriptomics for Tumor Heterogeneity Analysis

Frontiers in Genetics, 2022
The molecular heterogeneity of cancer is one of the major causes of drug resistance that leads to treatment failure. Thus, better understanding the heterogeneity of cancer will contribute to more precise diagnosis and improved patient outcomes.
Qiongyu Li, Xinya Zhang, Rongqin Ke
doaj   +1 more source

ConvNet learning strategy for Spatial Transcriptomics Analysis (CoSTA)

, 2020
The rise of spatial transcriptomics technologies is leading to new insights about how gene regulation happens in a spatial context. Here, we present the code for a ConvNet learning strategy for Spatial Transcriptomics Analysis (CoSTA)- a novel approach ...
Xu, Yang, McCord, Rachel Patton
core   +1 more source

Ligand‐dependent transcriptional heterogeneity in cell cycle gene expression delays G1/S entry

FEBS Letters, EarlyView.
EGF and HRG induce distinct G1/S progression programs in ErbB2‐amplified BT474 breast cancer cells. Despite activating the potent ErbB2–ErbB3 heterodimer, HRG does not accelerate cell‐cycle entry. Instead, EGF promotes earlier restriction‐point passage via ERK–FOS signaling, whereas HRG activates the AKT–MYC axis, driving transcriptional heterogeneity ...
Ririn Rahmala Febri, Ayaka Nagasato‐Ichikawa, Keita Iida, Shuhei Kimura, Akira Imamoto, Mariko Okada   +5 more
wiley   +1 more source

Goldfish telencephalon spatial transcriptomics

, 2023
Table of gene expression from goldfish telencephalon spatial transcriptomics experiment. Coronal sections from goldfish telencephalon were measured using Visium (10Xgenomics) platform. Each coloumn represents the gene expression of a single spot.
Amit Zeisel (13183653)
core   +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

L‐aspartate oxidase provides new insights into fumarate reduction in anaerobic darkness in Synechocystis sp. PCC6803

FEBS Letters, EarlyView.
Synechocystis strains deficient in succinate dehydrogenase (SDH) secrete more succinate than the WT under dark anaerobic conditions, supporting that SDH then primarily acts as SDH, not as a fumarate reductase. L‐aspartate oxidase (Laspo) from Synechocystis is functional under anaerobic conditions, reducing fumarate to succinate.
Kateryna Kukil, Jeffrey A. Hawkes, Cecilia Blikstad, Pia Lindberg   +3 more
wiley   +1 more source

HiSTaR: identifying spatial domains with hierarchical spatial transcriptomics variational autoencoder

Journal of Translational Medicine
Background The development of spatial transcriptomics (ST) has enabled biologists to measure transcriptome data on an entire tissue and retain spatial information.
Junhua Yu, Jiaqi Yuan, Qianbei Yi, Zheng Ye, Peng Xu, Wenbin Liu   +5 more
doaj   +1 more source

Nova-ST: Nano-patterned ultra-dense platform for spatial transcriptomics

Cell Reports: Methods
Summary: Spatial transcriptomics workflows using barcoded capture arrays are commonly used for resolving gene expression in tissues. However, existing techniques are either limited by capture array density or are cost prohibitive for large-scale atlasing.
Suresh Poovathingal, Kristofer Davie, Lars E. Borm, Roel Vandepoel, Nicolas Poulvellarie, Annelien Verfaillie, Nikky Corthout, Stein Aerts   +7 more
doaj   +1 more source

Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples

Nature Communications, 2023
Spatial transcriptomics relies on RNA quality, which is variable and dependent on sample handling, storage, and/or intrinsic factors. Here, authors present a genome-wide spatial gene expression profiling method called RNA Rescue Spatial Transcriptomics ...
Reza Mirzazadeh, Zaneta Andrusivova, Ludvig Larsson, Phillip T. Newton, Leire Alonso Galicia, Xesús M. Abalo, Mahtab Avijgan, Linda Kvastad, Alexandre Denadai-Souza, Nathalie Stakenborg, Alexandra B. Firsova, Alia Shamikh, Aleksandra Jurek, Niklas Schultz, Monica Nistér, Christos Samakovlis, Guy Boeckxstaens, Joakim Lundeberg   +17 more
doaj   +1 more source

Detection of differentially expressed genes in spatial transcriptomics data by spatial analysis of spatial transcriptomics: A novel method based on spatial statistics

Frontiers in Neuroscience, 2022
BackgroundSpatial transcriptomics (STs) simultaneously obtains the location and amount of gene expression within a tissue section. However, current methods like FindMarkers calculated the differentially expressed genes (DEGs) based on the classical ...
Zhihua Qiu, Zhihua Qiu, Shaojun Li, Ming Luo, Shuanggen Zhu, Yongjun Jiang, Zhijian Wang   +6 more
doaj   +1 more source