2 articles published in JoVE
Quantifying Fibrillar Collagen Organization with Curvelet Transform-Based Tools Yuming Liu1, Kevin W. Eliceiri1,2,3 1Laboratory for Optical and Computational Instrumentation, Center for Quantitative Cell Imaging, University of Wisconsin-Madison, 2Departments of Medical Physics and Biomedical Engineering, University of Wisconsin-Madison, 3Morgridge Institute for Research, Madison, Wisconsin, 4test, test Here, we present a protocol to use a curvelet transform-based, open-source MATLAB software tool for quantifying fibrillar collagen organization in the extracellular matrix of both normal and diseased tissues. This tool can be applied to images with collagen fibers or other types of line-like structures.
Single Read and Paired End mRNA-Seq Illumina Libraries from 10 Nanograms Total RNA Srikumar Sengupta1, Jennifer M. Bolin1, Victor Ruotti1, Bao Kim Nguyen1, James A. Thomson1,2,3, Angela L. Elwell1, Ron Stewart1 1Regenerative Biology, Morgridge Institute for Research, 2Department of Cell & Regenerative Biology, University of Wisconsin, 3Department of Molecular, Cellular, & Regenerative Biology, University of California Here we describe a method for preparation of both single read and paired end Illumina mRNA-Seq sequencing libraries for gene expression analysis based on T7 linear RNA amplification. This protocol requires only 10 nanograms of starting total RNA and generates highly consistent libraries representing whole transcripts.