Summary: Power analysis is essential to optimize the design of RNA-seq experiments and to assess and compare the power to detect differentially expressed genes in RNA-seq data. PowsimR is a flexible tool to simulate and evaluate differential expression from bulk and especially single-cell RNA-seq data making it suitable for a priori and posterior power analyses.
Availability And Implementation: The R package and associated tutorial are freely available at https://github.com/bvieth/powsimR.
Contact: vieth@bio.lmu.de or hellmann@bio.lmu.de.
Supplementary Information: Supplementary data are available at Bioinformatics online.
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http://dx.doi.org/10.1093/bioinformatics/btx435 | DOI Listing |
Nanotechnology
January 2025
Electronic Sci.&Eng., Xi'an Jiaotong University, 28 Xianning West Road,Beilin District, Xi 'an, Shaanxi Province, China, Xi'an, 710049, CHINA.
The accurate estimation of the temperature distribution of the GaN based power devices and optimization of the device structure is of great significance to possibly solve the self-heating problem, which hinders the further enhancement of the device performances. We present here the operando temperature measurement with high spatial resolution using Raman spectroscopy of AlGaN/GaN high electron mobility transistors (HEMTs) with different device structures and explore the optimization of the device thermal design accordingly. The lateral and depth temperature distributions of the single-finger HEMT were characterized.
View Article and Find Full Text PDFCien Saude Colet
January 2025
Programa de Pós-Graduação em Ciências do Movimento, Grupo de Pesquisa em Exercício e Nutrição na Saúde e Rendimento Esportivo (PENSARE), Universidade Federal de Mato Grosso do Sul (UFMS). Av. Costa e Silva s/n, Cidade Universitária. 79070-900 Campo Grande MS Brasil.
We investigated if Brazilian Olympic athletes live longer than the general population, and if there are differences between the types of sport. This is a retrospective cohort study with secondary data analysis. Data from Brazilian athletes of both sexes were included, from the 7th edition (1920) to the 25th edition (1992) of the Modern Olympic Games.
View Article and Find Full Text PDFBrief Bioinform
November 2024
Center for Artificial Intelligence Research, Wake Forest University School of Medicine, Winston-Salem, NC 27101, United States.
Pathway analysis plays a critical role in bioinformatics, enabling researchers to identify biological pathways associated with various conditions by analyzing gene expression data. However, the rise of large, multi-center datasets has highlighted limitations in traditional methods like Over-Representation Analysis (ORA) and Functional Class Scoring (FCS), which struggle with low signal-to-noise ratios (SNR) and large sample sizes. To tackle these challenges, we use a deep learning-based classification method, Gene PointNet, and a novel $P$-value computation approach leveraging the confusion matrix to address pathway analysis tasks.
View Article and Find Full Text PDFSci Adv
January 2025
Department of Crystallography, Mineralogy and Agricultural Chemistry, Faculty of Chemistry, University of Seville, Seville, Spain.
Excellent indicators of technology, social organization, exchange patterns, and even beliefs, beads are a topic of research in their own right. Findings made between 2010 and 2011 at the Montelirio tholos burial, part of the Valencina Copper Age mega-site, in south-western Spain, revealed what amounts to the largest single-burial ever-documented assemblage of beads. Furthermore, the Montelirio beads were part of unparalleled beaded attires worn by some of the people buried in the grave, mostly females.
View Article and Find Full Text PDFPLoS Comput Biol
January 2025
European Molecular Biology Laboratory, Cell Biology and Biophysics Unit, Heidelberg, Germany.
The characterization of phenotypes in cells or organisms from microscopy data largely depends on differences in the spatial distribution of image intensity. Multiple methods exist for quantifying the intensity distribution - or image texture - across objects in natural images. However, many of these texture extraction methods do not directly adapt to 3D microscopy data.
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