Plant Breeding an...
Follow
Find tag "webinar"
17.2K views | +7 today
Plant Breeding and Genomics News
Plant Breeding and Genomics News
Your new post is loading...
Scooped by Plant Breeding and Genomics News
Scoop.it!

Upcoming Webinar - Part Two of Field Phenomics: Data Analysis - eXtension

Upcoming Webinar - Part Two of Field Phenomics: Data Analysis - eXtension | Plant Breeding and Genomics News | Scoop.it
Thursday, October 31, 2013
1:00 PM - 2:00 PM EDT
Register Now  http://www1.gotomeeting.com/register/157353552This webinar is the second in a two part series on high throughput field phenotyping. This presentation describes how to handle data generated by a field-based sensor array. 
more...
No comment yet.
Scooped by Plant Breeding and Genomics News
Scoop.it!

Upcoming Webinar: Use of GAPIT in Genome-Wide Association Studies - eXtension

Upcoming Webinar: Use of GAPIT in Genome-Wide Association Studies - eXtension | Plant Breeding and Genomics News | Scoop.it

Register now. Thursday, October 3, 2013 at 1:00 pm EDT

 

This webinar given by Duke Pauli will demonstrate the use of the R package, GAPIT, in a barley genome-wide association study.

 

https://www1.gotomeeting.com/register/533600505

 

 

more...
No comment yet.
Scooped by Plant Breeding and Genomics News
Scoop.it!

Webinar Broadcast August 12-14: International Quinoa Research Symposium - eXtension

Webinar Broadcast August 12-14: International Quinoa Research Symposium - eXtension | Plant Breeding and Genomics News | Scoop.it

Join eOrganic for a live broadcast from the 2013 International Quinoa Research Symposium in Pullman, Washington on August 12-14, 2013. 

 

The USDA National Institute of Food and Agriculture in partnership with Washington State University are pleased to announce the upcoming International Quinoa Research Symposium. Researchers from around the world will be hosted by Washington State University in Pullman, Washington. The symposium will include hands-on demonstrations at area field trials, current research, and will coincide with the United Nations, International Year of the Quinoa (IYQ). The objective of the IYQ plan is to focus world's attention to the roles that quinoa's biodiversity and nutritional value play in providing food security and nutrition, in order to support the internationally agreed upon development goals of the eradication of poverty.

more...
No comment yet.
Scooped by Plant Breeding and Genomics News
Scoop.it!

Upcoming Webinar: Selective Sequencing Through Combinatorial Pooling - eXtension

Upcoming Webinar: Selective Sequencing Through Combinatorial Pooling - eXtension | Plant Breeding and Genomics News | Scoop.it

Wednesday 21 August 2013 at Noon EDT


Stefano Leonardi and Timothy Close will describe the use of combinatorial pooling to reconstruct gene sequences within BACs. Recent work in barley has shown that this level of sequence knowledge is sufficient to support critical end-point objectives such as map-based cloning and marker-assisted breeding.

more...
No comment yet.
Scooped by Plant Breeding and Genomics News
Scoop.it!

Genomic Estimated Breeding Values Using Genomic Relationship Matrices in a Cloned Population of Loblolly Pine

Abstract

Replacement of the average numerator relationship matrix derived from the pedigree with the realized genomic relationship matrix based on DNA markers might be an attractive strategy in forest tree breeding for predictions of genetic merit. We used genotypes from 3,461 single-nucleotide polymorphism loci to estimate genomic relationships for a population of 165 loblolly pine (Pinus taeda L.) individuals. Phenotypes of the 165 individuals were obtained from clonally-replicated field trials and were used to estimate breeding values for growth (stem volume). Two alternative methods, based on allele frequencies or regression, were used to generate the genomic relationship matrices. The accuracies of genomic estimated breeding values based on the genomic relationship matrices and breeding values estimated based on the average numerator relationship matrix were compared. On average, the accuracy of predictions based on genomic relationships ranged between 0.37 and 0.74 depending on the validation method. We did not detect differences in the accuracy of predictions based on genomic relationship matrices estimated by two different methods. Using genomic relationship matrices allowed modeling of Mendelian segregation within full-sib families, an important advantage over a traditional genetic evaluation system based on pedigree. We conclude that estimation of genomic relationships could be a powerful tool in forest tree breeding, because it accurately accounts both for genetic relationships among individuals and for nuisance effects such as location and replicate effects, and makes more accurate selection possible within full-sib crosses.

Plant Breeding and Genomics News's insight:

Register Now to Participate in our August 1 Webinar noon EDT on this Topic!

 

http://www.extension.org/pages/68019/upcoming-webinar:-gblup-for-genomic-predictions-in-trees

more...
No comment yet.
Scooped by Plant Breeding and Genomics News
Scoop.it!

Upcoming Webinar - Part One of Field Phenomics: Developing and Using a Sensor Array - eXtension

Upcoming Webinar - Part One of Field Phenomics: Developing and Using a Sensor Array - eXtension | Plant Breeding and Genomics News | Scoop.it
Thursday, October 24, 2013, 1:00 PM EDT

This webinar is the first in a two part series on high throughput field phenotyping. This presentation describes the development and use of a field-based sensor array.

 

http://www1.gotomeeting.com/register/782515976

more...
No comment yet.
Scooped by Plant Breeding and Genomics News
Scoop.it!

Upcoming Webinar: Fast Semi-Parallel Linear and Logistic Regression for Genome-Wide Association Studies - eXtension

Upcoming Webinar: Fast Semi-Parallel Linear and Logistic Regression for Genome-Wide Association Studies - eXtension | Plant Breeding and Genomics News | Scoop.it

September 12, 2013 at 1:00 pm EDT

This webinar will describe an R based approach to considerably speed GWAS computation time on a notebook book computer. 

Register now at http://www1.gotomeeting.com/register/237810425

more...
Scooped by Plant Breeding and Genomics News
Scoop.it!

Trends in Biotechnology - Does genomic selection have a future in plant breeding?

Summary

Plant breeding largely depends on phenotypic selection in plots and only for some, often disease-resistance-related traits, uses genetic markers. The more recently developed concept of genomic selection, using a black box approach with no need of prior knowledge about the effect or function of individual markers, has also been proposed as a great opportunity for plant breeding. Several empirical and theoretical studies have focused on the possibility to implement this as a novel molecular method across various species. Although we do not question the potential of genomic selection in general, in this Opinion, we emphasize that genomic selection approaches from dairy cattle breeding cannot be easily applied to complex plant breeding.

more...
No comment yet.
Scooped by Plant Breeding and Genomics News
Scoop.it!

BMC Bioinformatics | Abstract | GWAS on your notebook: fast semi-parallel linear and logistic regression for genome-wide association studies

Background Genome-wide association studies have become very popular in identifying genetic contributions to phenotypes. Millions of SNPs are being tested for their association with diseases and traits using linear or logistic regression models. This conceptually simple strategy encounters the following computational issues: a large number of tests and very large genotype files (many Gigabytes) which cannot be directly loaded into the software memory. One of the solutions applied on a grand scale is cluster computing involving large-scale resources. We show how to speed up the computations using matrix operations in pure R code.

Results We improve speed: computation time from 6 hours is reduced to 10-15 minutes. Our approach can handle essentially an unlimited amount of covariates efficiently, using projections. Data files in GWAS are vast and reading them into computer memory becomes an important issue. However, much improvement can be made if the data is structured beforehand in a way allowing for easy access to blocks of SNPs. We propose several solutions based on the R packages ff and ncdf.

We adapted the semi-parallel computations for logistic regression. We show that in a typical GWAS setting, where SNP effects are very small, we do not lose any precision and our computations are few hundreds times faster than standard procedures.

Conclusions We provide very fast algorithms for GWAS written in pure R code. We also show how to rearrange SNP data for fast access.

more...
No comment yet.