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October 2021

Bioinformatics/Human Genetics Seminar Series: Fabian Theis, Head of the Institute of Computational Biology at Gelmholtz Munich, Professor, Technical University of Munich

October 25 @ 11:00 am - 12:00 pm
ZOOM CA United States

TITLE: “Learning cellular state and dynamics in single cell genomics” Hosted by Jessica Li

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W16: Library Prep for NGS

October 19 @ 1:30 pm - October 21 @ 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 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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W3: Intro to R and Data Visualization

October 19 @ 9:00 am - October 21 @ 12:00 pm
529 Boyer Hall, 611 Charles E Young Dr E,
Los Angeles, CA 90095 United States
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R (www.r-project.org) is a free software environment for statistical computing and graphics. First, this workshop introduces basic concepts, syntax, and usage in R programming, statistical analysis, and visualization techniques. We will conduct hands-on tutorials throughout the session, giving attendees a chance to see R in action. This course is a pre-requisite for several other Collaboratory workshops. This workshop is geared towards researchers who have little or no experience with R who want to get started with importing data into R…

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Bioinformatics/Human Genetics Seminar Series: Doug Speed, Professor, Center for Quantitative Genetics and Genomics, Aarhus University

October 18 @ 11:00 am - 12:00 pm
ZOOM CA United States

“New methods for analyzing genome-wide association study data, including improved tools for computing polygenic risk scores” Hosted by Maria Izabel Cavassim

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W17: Machine Learning with Python

October 12 @ 1:30 pm - 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 the basic principles involved in the applications mentioned above, such as pattern recognition, linear and non-linear regression and cluster analysis. The workshop will be oriented towards hands-on activities, starting from the basics of how to load and prepare biological datasets in a Python environment.

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W12: Intro to Matlab

October 12 @ 9:30 am - October 14 @ 12:00 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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Bioinformatics/Human Genetics Seminar Series: Maria C. Avila Arcos, Assistant Professor, Internat. Laboratory for Human Genome Research, Universidad Nacional Autonoma de Mexico

October 11 @ 11:00 am - 12:00 pm
ZOOM CA United States

“The genetic legacy of the trans-atlantic slave trade into New Spain” Hosted by Kirk Lohmueller

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W18: Advanced Python

October 5 @ 1:30 pm - October 7 @ 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

October 5 @ 9:00 am - October 7 @ 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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Bioinformatics/Human Genetics Seminar Series: Abigail Bigham, Associate Professor, Anthropology, UCLA

October 4 @ 11:00 am - 12:00 pm
ZOOM CA United States

“Omic insights into Andean high-altitude adaptation” Hosted by Jason Ernst

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