Zobrazeno 1 - 10
of 135
pro vyhledávání: '"Stephanie C. Hicks"'
Autor:
Carrie Wright, Qier Meng, Michael R. Breshock, Lyla Atta, Margaret A. Taub, Leah R. Jager, John Muschelli, Stephanie C. Hicks
Publikováno v:
Journal of Statistics and Data Science Education, Pp 1-14 (2024)
With unprecedented and growing interest in data science education, there are limited educator materials that provide meaningful opportunities for learners to practice statistical thinking, as defined by Wild and Pfannkuch, with messy data addressing
Externí odkaz:
https://doaj.org/article/18a4cc5a04f84d3ea84a0a06222a2ced
Autor:
Sean K. Maden, Sang Ho Kwon, Louise A. Huuki-Myers, Leonardo Collado-Torres, Stephanie C. Hicks, Kristen R. Maynard
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-26 (2023)
Abstract Deconvolution of cell mixtures in “bulk” transcriptomic samples from homogenate human tissue is important for understanding disease pathologies. However, several experimental and computational challenges impede transcriptomics-based deco
Externí odkaz:
https://doaj.org/article/934d17d7f4b148708efb8c0435e4ba59
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-21 (2023)
Abstract Pseudotime analysis with single-cell RNA-sequencing (scRNA-seq) data has been widely used to study dynamic gene regulatory programs along continuous biological processes. While many methods have been developed to infer the pseudotemporal tra
Externí odkaz:
https://doaj.org/article/16c2bac5be1b45d4a1d754a571ed624c
Autor:
Louise A. Huuki-Myers, Kelsey D. Montgomery, Sang Ho Kwon, Stephanie C. Page, Stephanie C. Hicks, Kristen R. Maynard, Leonardo Collado-Torres
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-21 (2023)
Abstract We define and identify a new class of control genes for next-generation sequencing called total RNA expression genes (TREGs), which correlate with total RNA abundance in cell types of different sizes and transcriptional activity. We provide
Externí odkaz:
https://doaj.org/article/461899ba8b9642eaaa65922cbc7e25e9
Autor:
Ariel A. Hippen, Dalia K. Omran, Lukas M. Weber, Euihye Jung, Ronny Drapkin, Jennifer A. Doherty, Stephanie C. Hicks, Casey S. Greene
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-27 (2023)
Abstract Background Single-cell gene expression profiling provides unique opportunities to understand tumor heterogeneity and the tumor microenvironment. Because of cost and feasibility, profiling bulk tumors remains the primary population-scale anal
Externí odkaz:
https://doaj.org/article/0091f1d2fe894823bbb230a110d2d561
Publikováno v:
Nature Communications, Vol 14, Iss 1, Pp 1-12 (2023)
Abstract Feature selection to identify spatially variable genes or other biologically informative genes is a key step during analyses of spatially-resolved transcriptomics data. Here, we propose nnSVG, a scalable approach to identify spatially variab
Externí odkaz:
https://doaj.org/article/9f82e351a422401083590e8ca63707fe
Autor:
Brenda Pardo, Abby Spangler, Lukas M. Weber, Stephanie C. Page, Stephanie C. Hicks, Andrew E. Jaffe, Keri Martinowich, Kristen R. Maynard, Leonardo Collado-Torres
Publikováno v:
BMC Genomics, Vol 23, Iss 1, Pp 1-5 (2022)
Abstract Background Spatially-resolved transcriptomics has now enabled the quantification of high-throughput and transcriptome-wide gene expression in intact tissue while also retaining the spatial coordinates. Incorporating the precise spatial mappi
Externí odkaz:
https://doaj.org/article/fd7c7cc7b496491490ee36657df60094
Autor:
Madhavi Tippani, Heena R. Divecha, Joseph L. Catallini, Sang H. Kwon, Lukas M. Weber, Abby Spangler, Andrew E. Jaffe, Thomas M. Hyde, Joel E. Kleinman, Stephanie C. Hicks, Keri Martinowich, Leonardo Collado-Torres, Stephanie C. Page, Kristen R. Maynard
Publikováno v:
Biological Imaging, Vol 3 (2023)
Spatially resolved transcriptomics (SRT) is a growing field that links gene expression to anatomical context. SRT approaches that use next-generation sequencing (NGS) combine RNA sequencing with histological or fluorescent imaging to generate spatial
Externí odkaz:
https://doaj.org/article/7340b1102c004b1bb09838cdf6156fe8
Autor:
Chaichontat Sriworarat, Annie Nguyen, Nicholas J. Eagles, Leonardo Collado-Torres, Keri Martinowich, Kristen R. Maynard, Stephanie C. Hicks
Publikováno v:
Biological Imaging, Vol 3 (2023)
High-resolution and multiplexed imaging techniques are giving us an increasingly detailed observation of a biological system. However, sharing, exploring, and customizing the visualization of large multidimensional images can be a challenge. Here, we
Externí odkaz:
https://doaj.org/article/eae8bdc7fb7b49d9b405ab84a0327b5c
Publikováno v:
Journal of Statistics and Data Science Education, Vol 29, Iss 3, Pp 267-276 (2021)
Teaching data analysis by providing students with real-world problems and datasets allows students to integrate a variety of skills in a situation that mirrors how data analysis actually works. However, whole data analyses may obscure the individual
Externí odkaz:
https://doaj.org/article/70a9b846e2734cccbbf3aebe44177898