From listmaster animalgenome.org Mon Dec 16 10:22:52 2024
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From: "DANIEL GIANOLA" <gianolaansci.wisc.edu>
Postmaster: submission approved by list moderator
To: Members of AnGenMap <angenmapanimalgenome.org>
Subject: COURSE: Prediction of Complex Traits Using Genomic
and Environmental Big Data
Date: Mon, 16 Dec 2024 10:22:52 -0600
INTERNATIONAL COURSE
Prediction of Complex Traits Using Genomic and Environmental Big Data:
Concepts, models, software and practicum.
March 10-14, 2025
Instituto Nacional de Investigación Agropecuaria (INIA)
Montevideo, Uruguay
Instructor:
Gustavo de los Campos
Professor, Departments of Epidemiology & Biostatistics, and Statistics &
Probability, Michigan State University, USA. Email: gustavocmsu.edu .
Course Description:
Would you like to learn how to predict complex agricultural (plants, trees,
animals) and disease phenotypes and risks in humans and animals using DNA
markers? In this five-day course, key concepts underlying prediction and the
most commonly used models will be introduced, including genomic BLUP,
penalized, and Bayesian linear regression, variable selection methods,
non-linear methods (kernel regressions, neural networks, and XGBoost).
Factors affecting prediction performance will be discussed.
The course consists of modules, each including a brief introduction,
followed by hands-on group work using publicly available data and
open-source software. Focus is primarily on genome-assisted prediction using
DNA markers but examples using environmental data are covered. A good
understanding of probability and inference in linear models and some
experience working with R is required. Please bring your laptop with a
current version of R installed.
Course Content:
1- Genomic Prediction of Complex Traits: Principles
2- Variable Selection using Single-Marker Regression
3- Shrinkage Estimation (Ridge Regression and Early Stopping)
4- Bayesian shrinkage and Variable Selection Models
5- Semi-parametric regression using Reproducing Kernel Hilbert Spaces
6- Genomic Prediction using XGBoost
7- Sparse GBLUP
8- Multi-trait/multi-environment Genomic Prediction
9- Integrating Environmental Covariates into Genomic Prediction
10- Transfer Learning
Language of instruction: English
Registration and accommodation:
Information will be forthcoming soon. The course will be free but there will
be a fee for coffee breaks and lunch.
Please indicate your intention of attending by sending an e-mail to each of
the contacts provided below. Since there will be a cap on the number of
participants, first come, first served.
VENUE: Institute Pasteur de Montevideo, Uruguay. https://pasteur.uy/en/
PARTICIPANTS: Must bring a laptop and arrange accommodation and travel.
CONTACT:
- Daniel Gianola (dgianolainia.org.uy)
- Olga Ravagnolo (mailto:oravagnoloinia.org.uy)
--
Daniel Gianola
Sewall Wright Professor Emeritus of Animal Breeding and Genetics
Department of Animal and Dairy Sciences
University of Wisconsin-Madison
256 Animal Sciences Building
1675 Observatory Dr.
Madison, WI 53706
USA
https://andysci.wisc.edu/...rectory/dan-gianola/
https://en.wikipedia.org/wiki/Daniel_Gianola
https://scholar.google.com/...l=en&oi=ao
https://qbi.wisc.edu/research/all-faculty/
"Nature is written in mathematical language (Galileo). If nothing else works,
try Bayes theorem"
"Bayesian methods with subjective priors may butcher the processes of science"
(adapted from Oscar Kempthorne)
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