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November 2019
QCBio Seminar Series: Aly Khan
Research Assistant Professor Principal Investigator, Laboratory for Computational Immunology Department of Pathology University of Chicago “New computational approaches to understand immune function”
Find out more »W7: ChiP-seq Analysis
This workshop aims to provide skills needed to address experimental reproducibility, sequencing depth, data reporting and quality assessment of ChIP-seq data. Students will have opportunities to practice hands-on with state-of-the-art analytical tools.
Find out more »W20: Single-Cell RNA-Seq Analysis
This workshop aims to provide an entry-level introduction to the basic concepts and data analysis tools for single-cell RNA-seq techniques. It will help the attenders obtain a better idea of the important applications of scRNA-seq, the important considerations in designing a scRNA-seq experiment, the major differences between popular technical platforms, and the main steps in preliminary data analysis. It can serve as a starting point to conceive a scRNA-seq study or to analyze a scRNA-seq dataset.
Find out more »W21: Digital Imaging Processing in Python
Imaging datasets are becoming easier to acquire and more difficult to analyze. This workshop will provide an introduction to some of the computational tools available for manipulating images and extracting quantitative information from them. The main focus of this workshop will be on cellular imaging however much of the techniques are broadly applicable to other data types. We will cover image conversion and handling in python, different methods for normalizing, aligning and segmenting images and finally work on applying these…
Find out more »October 2019
QCBio Seminar Series: Professor Takashi Suzuki
Center for Mathematical Modeling and Data Science (MMDS) Osaka, Japan “Mathematical Structure of NF-kB Signaling Pathways and its Biological Meanings” http://www-mmds.sigmath.es.osaka-u.ac.jp/faculty/personal/suzuki/english/index.html
Find out more »W5b: RNA-Seq II Analysis
RNA-seq II aims to provide tools for analysis of gene expression data from read counts to biology using R. To facilitate learning, the workshop will use a real case study based approach appropriate for Illumina read data (same as RNA-seq I).
Find out more »W16: Library Prep for NGS
This workshop will cover the basis of Next-Gen Sequencing Library Preparation for Illumina Sequencers. Different Library Preparation Techniques (DNA-seq, ChIP-seq, RNA-seq, Methyl-seq) are explained the first and second day in class. The third day, Quality Control steps of the starting input material and final libraries are performed in the Lab (TapeStation). Purification from Primer Dimers (using AMPure beads) and Library Submission is also performed on the same day.
Find out more »QCBio Seminar Series: Elisa Franco
Associate Professor Department of Mechanical and Aerospace Engineering University of California, Los Angeles “Ultrasensitive components enable adaptation in molecular feedback systems” https://samueli.ucla.edu/people/elisa-franco/
Find out more »W5a: RNA-seq I Analysis
RNA-seq I aims to provide an introduction and the basics tools to process raw RNA-seq data on a cluster machine (Hoffman2). The workshop can serve also as a starting point to develop a gene expression project. This workshop is divided in three days that will cover major steps of processing RNA-seq.
Find out more »W12: Intro to MATLAB
MATLAB is a powerful, high-level programing language for numerical computation, visualization, and application development. This workshop will start by introducing the MATLAB environment and then cover working with arrays and matrices, loops and conditional statements, writing your own functions, working with files and visualizing your data. The final day will briefly introduce utilizing MATLAB to solve differential equations and the basics of computational systems biology modeling using MATLAB. The course is supplemented with many hands-on exercises. The workshop is suitable…
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