Results 61 to 70 of about 68,356 (275)

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

Unraveling Heterogeneity in Epithelial Cell Fates of the Mammary Gland and Breast Cancer. [PDF]

, 2019
Fluidity in cell fate or heterogeneity in cell identity is an interesting cell biological phenomenon, which at the same time poses a significant obstacle for cancer therapy.
Doh, Hanna, Kessenbrock, Kai, Roose, Jeroen P, Samocha, Alexandr   +3 more
core   +1 more source

Potential therapeutic targeting of BKCa channels in glioblastoma treatment

Molecular Oncology, EarlyView.
This review summarizes current insights into the role of BKCa and mitoBKCa channels in glioblastoma biology, their potential classification as oncochannels, and the emerging pharmacological strategies targeting these channels, emphasizing the translational challenges in developing BKCa‐directed therapies for glioblastoma treatment.
Kamila Maliszewska‐Olejniczak, Karolina Pytlak, Sandra Jaworowska, Bogusz Kulawiak, Piotr Bednarczyk   +4 more
wiley   +1 more source

Research progress of spatial transcriptomics and its applications in bone research

Kouqiang hemian waike zazhi
The structural and functional heterogeneity of cells in bone tissue is closely related to their spatial location. Spatial transcriptomics can simultaneously obtain location information and transcriptome changes of spatial units within tissues.
CHEN Yongliang, WANG Zuolin
doaj   +1 more source

Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-seq and ESTs [PDF]

, 2013
The reference annotations made for a genome sequence provide the framework for all subsequent analyses of the genome. Correct annotation is particularly important when interpreting the results of RNA-seq experiments where short sequence reads are mapped ...
A Derti, A Dobin, A Sherstnev, AI Reid, Alexander Sherstnev, B Langmead, BJ Haas, BJ Haas, BS Yoon, C Burge, C Cole, C Luo, C Trapnell, CE Joyce, CH Jan, Christian Cole, Céline Duc, D Brawand, DM Church, F Ozsolak, F Ozsolak, F Ozsolak, Geoffrey J. Barton, Gordon G. Simpson, H Stroud, H Zou, HK Saini, I Ulitsky, J Bracht, J Harrow, JE Collins, JH Yang, Junfang Song, Kate G. Storey, L Jiang, M Fujii, M Garber, M Yandell, MB Gerstein, Nicholas J. Schurch, P Lamesch, PE Boardman, Sara J. Brown, T Pelissier, Thomas Preiss, TS Becker, V Curwen, V Hamburger, W. H. Irwin McLean, X Cai, Y Kurihara, Y Lee, Z Moqtaderi   +52 more
core   +5 more sources

Peroxidasin enables melanoma immune escape by inhibiting natural killer cell cytotoxicity

Molecular Oncology, EarlyView.
Peroxidasin (PXDN) is secreted by melanoma cells and binds the NK cell receptor NKG2D, thereby suppressing NK cell activation and cytotoxicity. PXDN depletion restores NKG2D signaling and enables effective NK cell–mediated melanoma killing. These findings identify PXDN as a previously unrecognized immune evasion factor and a potential target to improve
Hsu‐Min Sung, David Bickel, Lena C. M. Krause, Daria Ezeriņa, Christian Ickes, Julian Wojtachnia, Christine S. Gibhardt, Magdalena Shumanska, Khadija Wahni, Andrea Paluschkiwitz, Julia Malo Pueyo, Ekaterina Baranova, Wim Vranken, Hedwig Stanisz, Ioana Stejerean‐Todoran, Michael P. Schön, Joris Messens, Ivan Bogeski   +17 more
wiley   +1 more source

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   +1 more source

Correlation of the differential expression of PIK3R1 and its spliced variant, p55α, in pan‐cancer

Molecular Oncology, EarlyView.
PIK3R1 undergoes alternative splicing to generate the isoforms, p85α and p55α. By combining large patient datasets with laboratory experiments, we show that PIK3R1 spliced variants shape cancer behavior. While tumors lose the protective p85α isoform, p55α is overexpressed, changes linked to poorer survival and more pronounced in African American ...
Ishita Gupta, Yang Song, Madeleine Ndahayo, Anirudh Saxena, Theresa Guo, Dylan Z. Kelley, Jessica Gore, Andrew Hennigan, Alexa Anderson, John C. Papadimitriou, Daria A. Gaykalova   +10 more
wiley   +1 more source

Graph attention automatic encoder based on contrastive learning for domain recognition of spatial transcriptomics

Communications Biology
Spatial transcriptomics is an emerging technology that enables the profiling of gene expression in tissues while preserving spatial location information.
Tianqi Wang, Huitong Zhu, Yunlan Zhou, Weihong Ding, Weichao Ding, Liangxiu Han, Xueqin Zhang   +6 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