Results 21 to 30 of about 71,340 (293)

Probabilistic embedding, clustering, and alignment for integrating spatial transcriptomics data with PRECAST

Nature Communications, 2023
Spatially resolved transcriptomics involves a set of emerging technologies that enable the transcriptomic profiling of tissues with the physical location of expressions. Although a variety of methods have been developed for data integration, most of them
Wei Liu, Xu Liao, Ziye Luo, Yi Yang, Mai Chan Lau, Yuling Jiao, Xingjie Shi, Weiwei Zhai, Hongkai Ji, Joe Yeong, Jin Liu   +10 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

Review of precision cancer medicine: Evolution of the treatment paradigm. [PDF]

, 2020
In recent years, biotechnological breakthroughs have led to identification of complex and unique biologic features associated with carcinogenesis. Tumor and cell-free DNA profiling, immune markers, and proteomic and RNA analyses are used to identify ...
Fountzilas, Elena, Kurzrock, Razelle, Nikanjam, Mina, Tsimberidou, Apostolia M   +3 more
core   +1 more source

Spatial transcriptomics deconvolution at single-cell resolution using Redeconve

Nature Communications, 2023
Computational deconvolution with single-cell RNA sequencing data as reference is pivotal to interpreting spatial transcriptomics data, but the current methods are limited to cell-type resolution.
Zixiang Zhou, Yunshan Zhong, Zemin Zhang, Xianwen Ren   +3 more
doaj   +1 more source

Inferring spatial and signaling relationships between cells from single cell transcriptomic data. [PDF]

, 2020
Single-cell RNA sequencing (scRNA-seq) provides details for individual cells; however, crucial spatial information is often lost. We present SpaOTsc, a method relying on structured optimal transport to recover spatial properties of scRNA-seq data by ...
Cang, Zixuan, Nie, Qing
core  

Physico-chemical foundations underpinning microarray and next-generation sequencing experiments [PDF]

, 2013
Hybridization of nucleic acids on solid surfaces is a key process involved in high-throughput technologies such as microarrays and, in some cases, next-generation sequencing (NGS).
A. Buhot, A. E. Pozhitkov, A. Halperin, A. Harrison, A. Ott, Amend, B. M. Pettitt, Berger, Binder, Binder, Binder, Binder, Bolstad, Bullard, Burden, Burden, C. Gibas, C. J. Burden, Chou, Chou, Czypionka, D. P. Kreil, D. Tautz, E. Carlon, Fasold, Fasold, Fiche, Fuchs, H. Binder, Halperin, Harr, Harrison, He, Heim, Held, Hooyberghs, Huettel, Iltumur, Irizarry, Irizarry, Irizarry, Irving, J. Hooyberghs, Kane, L. J. Gamble, Lee, Lee, Letowski, Li, Liebich, Lockhart, Luebke, Marshall, Matveeva, Mueckstein, Mulders, Naiser, Naiser, P. A. Noble, Pingel, Pozhitkov, R. Levicky, Relogio, Rouillard, Tanaka, Trapp, Upton, Vainrub, Wodicka, Yu, Zhang   +70 more
core   +3 more sources

Elucidating tumor heterogeneity from spatially resolved transcriptomics data by multi-view graph collaborative learning

Nature Communications, 2022
Multi-view graph approaches could enhance the analysis of tissue heterogeneity in spatial transcriptomics. Here, the authors develop the Spatial Transcriptomics data analysis by Multiple View Collaborative-learning - stMVC - framework, and apply it to ...
Chunman Zuo, Yijian Zhang, Chen Cao, Jinwang Feng, Mingqi Jiao, Luonan Chen   +5 more
doaj   +1 more source

Molecular profiling of resident and infiltrating mononuclear phagocytes during rapid adult retinal degeneration using single-cell RNA sequencing. [PDF]

, 2019
Neuroinflammation commonly accompanies neurodegeneration, but the specific roles of resident and infiltrating immune cells during degeneration remains controversial.
Burns, Marie E, Karlen, Sarah J, Miller, Eric B, Ronning, Kaitryn E   +3 more
core   +2 more sources

Celloscope: a probabilistic model for marker-gene-driven cell type deconvolution in spatial transcriptomics data

Genome Biology, 2023
Spatial transcriptomics maps gene expression across tissues, posing the challenge of determining the spatial arrangement of different cell types. However, spatial transcriptomics spots contain multiple cells.
Agnieszka Geras, Shadi Darvish Shafighi, Kacper Domżał, Igor Filipiuk, Alicja Rączkowska, Paulina Szymczak, Hosein Toosi, Leszek Kaczmarek, Łukasz Koperski, Jens Lagergren, Dominika Nowis, Ewa Szczurek   +11 more
doaj   +1 more source

Enabling precision medicine in neonatology, an integrated repository for preterm birth research. [PDF]

, 2018
Preterm birth, or the delivery of an infant prior to 37 weeks of gestation, is a significant cause of infant morbidity and mortality. In the last decade, the advent and continued development of molecular profiling technologies has enabled researchers to ...
Anderson, Rebecca, Banerjee, Payal, Butte, Atul J, Chappell, Joanne, Chubiz, Jessica, England, Sarah K, Grobman, William, Kim, Mara, Leite, Rita, Liu, Rebecca, March of Dimes Prematurity Research Centers, Parry, Samuel, Quaintance, Cecele C, Rokas, Antonis, Shaw, Gary M, Simpson, Joe Leigh, Sirota, Marina, Thomas, Cristel G, Thomson, Elizabeth, Wong, Ronald J, Zhang, Ge, Zuhl, Maya   +21 more
core   +4 more sources