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January 2020

W18: Advanced Python

January 14 @ 1:30 pm - January 16 @ 4:30 pm
529 Boyer Hall, 611 Charles E Young Dr E,
Los Angeles, CA 90095 United States
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This workshop will cover some more advanced topics in python including an overview of object-oriented python (this will not be an in-depth course on object-oriented programming), use of the numpy and pandas libraries (python libraries for efficient handling of large numeric and heterogenous datasets, and matplotlib for plotting results. At the end of this workshop, students will better understand the python data structures for handling large datasets and will have some knowledge of how to manipulate these data and plot…

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W2: Using NGS Analysis Tools

January 14 @ 9:00 am - January 16 @ 12:00 pm
529 Boyer Hall, 611 Charles E Young Dr E,
Los Angeles, CA 90095 United States
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High-throughput sequencing technology involves a number of concepts and techniques that shape a project before application-specific processes are utilized. First, this workshop introduces the more “universal” aspects of high-throughput sequence analysis—from experimental design to sequencing and alignment methods. Next, this workshop covers common file formats for sequence data and limitations of sequencing technologies. We will explore a hands-on exercise using the Hoffman2 cluster and will use programs designed to analyze read data, clean artifact and low-quality sequences, and align short…

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QCB Research Lunch – David Pan (Pajukanta Lab)

January 10 @ 12:30 pm - 1:00 pm
Boyer 159, 611 Charles E. Young Dr. E.
Los Angeles, CA 90095 United States
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“Subcutaneous adipose transcriptomes reveal a novel master trans regulator, TBX15, controlling a co-expression network with a high polygenic risk for abdominal obesity” (P

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QCB Research Lunch – Soo Bin Kwon (Ernst Lab)

January 10 @ 12:00 pm - 12:30 pm
Boyer 159, 611 Charles E. Young Dr. E.
Los Angeles, CA 90095 United States
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"Learning a genome-wide score of evidence for conservation between human and mouse from large-scale functional genomic annotations"

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W9: Intro to Python

January 8 @ 1:30 pm - January 10 @ 4:30 pm
529 Boyer Hall,, 611 Charles E Young Dr E,
Los Angeles, CA 90095
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This workshop will cover the basic concepts of Python programming. The course is supplemented with many hands-on exercises with emphasis given towards computational biology use cases.

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W1: Intro to Unix command line

January 7 @ 9:00 am - January 9 @ 12:00 pm
529 Boyer Hall,, 611 Charles E Young Dr E,
Los Angeles, CA 90095
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Unix is a command-line-based platform that is a highly powerful and flexible tool for data management and analysis. First, this workshop introduces the basic concepts of UNIX operating system and shell scripting. We will explore essential hands-on skills to confidently use the command line interface on either a local (laptop) or a remote (hoffman2 cluster) computer running the Unix system. Next, this workshop covers how to navigate around the Unix file system from the command line and use a number…

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December 2019

W7: ChIP-seq Analysis

December 18, 2019 @ 1:30 pm - December 20, 2019 @ 4:30 pm
529 Boyer Hall, 611 Charles E Young Dr E,
Los Angeles, CA 90095 United States
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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.

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W16: Library Prep for NGS

December 12, 2019 @ 8:00 am - 5:00 pm
529 Boyer Hall, 611 Charles E Young Dr E,
Los Angeles, CA 90095 United States
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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. The third day is optional, sign-up is required.

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W12: Intro to Matlab

December 12, 2019 @ 8:00 am - 5:00 pm
529 Boyer Hall, 611 Charles E Young Dr E,
Los Angeles, CA 90095 United States
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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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QCBio Seminar Series: Zeba Wunderlich

December 6, 2019 @ 11:00 am - 12:00 pm
Boyer Hall 159

Assistant Professor Department of Developmental and Cell Biology Institute for Immunology University of California, Irvine "The Connections Between Enhancer Architecture and Function" https://devcell.bio.uci.edu/faculty/zeba-wunderlich/

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