Events under 'Seminar'

UPSC Extra Seminar

Speaker
Wolfgang Dröge-Laser
Department of Pharmaceutical Biology
Biozentrum Universität Würzburg

Title:
Low energy signalling in plants: the SnRK1- bZIP connection

Host: Johannes Hanson

UPSC Seminar

Speaker:
Fikret Isik
North Carolina State University, USA

Title:
Genomic selection in trees


Host: Harry X.Wu

Room: Stora hörsalen KB3B1, KBC

Speaker:
Paul C. Rogers

Director, Western Aspen Alliance
Department of Wildland Resources
Utah State University

http://www.western-aspen-alliance.org/

Title: North American Quaking Aspen: functional effects of elk, fire, and climate on long-term resilience

Host: Lars Edenius (VFM, SLU)
Contact: This email address is being protected from spambots. You need JavaScript enabled to view it.

Place: Skogis

NOTE CHANGED DAY: WEDNESDAY

UPSC Cutting Edge Seminar

Speaker:
Daniel Cosgrove
Department of Biology

The Pennsylvania State University, University Park, PA, USA

Title: Rethinking the architecture and mechanics of growing plant cell walls and mechanisms of cell wall loosening. Insights from biomechanics, atomic force microscopy and the actions of wall-loosening enzymes.



Host: Stephanie Robert

Place: Lilla Hörsalen, KB3A9

UPSC Seminar

Speaker:
Mikko Sillanpää
Helsinki University, Finland

Title:
An efficient genome-wide multilocus epistasis search

Room: Lilla hörsalen, KB3A9

Host: Rosario Garcia Gil


Abstract

High-throughput laboratory techniques are producing vast amount of genomic marker data – discrete predictors to association studies. Linear regression model is often considered to link study phenotypes and these marker measurements to each other. Number of predictors in multi-marker regression models can easily be much larger than number of observations. Therefore, one needs application of variable selection to find small subset of important predictors out of large number of candidates. Such models can occasionally include also all pairwise locus-by-locus (epistasis) interactions which increases dimensionality of the model very rapidly.

We consider variable selection problem of linear model containing large amount of predictors and all of their pairwise interactions in the model jointly. Our suggested approach (Kärkkäinen et al. 2015) use sure-independence-screening to first drop dimension of the problem by considering marginal importance of each interaction term within the huge loop. Subsequent estimation step then consider Bayesian variable selection approach (Extended Bayesian LASSO – Mutshinda and Sillanpää 2010). We also show that it is important to separate search of main and interaction effects in the algorithm to control number of false positives. Examples illustrates superior performance of our method over PLINK in terms of computation time and empirical power. Our successful examples consider even problem of originally of order of 280,000,000 interactions within a reasonable time frame.

REFERENCES

Mutshinda CM, Sillanpää MJ (2010) Extended Bayesian LASSO for multiple quantitative trait loci mapping and unobserved phenotype prediction. Genetics 186: 1067-1075.

Kärkkäinen HP, Li Z, Sillanpää MJ (2015) An efficient genome-wide multilocus epistasis search. Genetics 201: 865-870.

UPSC Seminar

Speaker:
Zander Myburg

Department of Genetics
Forestry and Agricultural Biotechnology Institute (FABI)
Genomics Research Institute
University of Pretoria
South-Africa

Title:
Systems genetics of cell wall biology in Eucalyptus: Fine-scale dissection of gene regulation during xylogenesis

Room: Lilla hörsalen, KB3A9

Host: Hannele Tuominen

UPSC Monday Seminar 2016

Speakers:

David Sundell (PhD student)
Supervisor: Nathaniel Street, Torgeir R Hvidsten

Federica Brunoni (Postdoc)
Supervisor: Karin Ljung, Catherine Bellini

Cutting Edge Seminar

Speaker: Jean-Pierre Jacquot

University of Lorraine, Nancy, France

Title: Redox regulation of chloroplast enzymes: molecular and evolutionary aspects

Host: Gunnar Wingsle and Göran Samuelsson

Room: KB3A9 Lilla hörsalen

UPSC Monday Seminar 2016

Speakers:

Bastian Schiffthaler (PhD student)
Supervisor: Nathaniel Street

John Baison (Postdoc)
Supervisor: Totte Niittylä

UPSC Monday Seminar 2016

Speakers:

Noemi Skorzinski  (PhD student)
Supervisor: Markus Schmid

Jihua Ding (Postdoc)
Supervisor: Ove Nilsson, Markus Grebe

Speaker: Peter Marhavy

Department of Plant Molecular Biology (DBMV)
University of Lausanne
Switzerland

Title:
Call for help - or - Short distance cell-to-cell communication in response to wound stress in Arabidopsis root.

Host: Karin Ljung
Place: KB3A9 Lilla hörsalen
Time: 22 september kl 10-11

UPSC Monday Seminar 2016

Speakers:

Haleh Hayatgheibi (PhD student)
Supervisor: Harry Wu

Hardy Hall (Postdoc)
Supervisor: Hannele Tuominen

Speaker: Daniel Kierzkowski

Max Planck Institute for Plant Breeding Research,
Department of Comparative Development and Genetics,
Cologne, Germany

Title: Understanding morphogenesis: control of organ growth at cellular level

Host: Karin Ljung
Place: KB3B1 Stora hörsalen
Time: 28 september kl 10.30-11.30

Speaker: Anne-Lise Routier-Kierzkowska

Max Planck Institute for Plant Breeding Research,
Department of Comparative Development and Genetics,
Cologne, Germany

Title: A new insight into plant mechanics from computational modelling and force measurements.

Host: Karin Ljung
Place: KB3B1 Stora hörsalen
Time: 28 september kl 14-15

UPSC Monday Seminar 2016

Speakers:

Umut Rende (PhD student)
Supervisor: Totte Niittylä

Suman Paul (Postdoc)
Supervisor: Göran Samuelsson

Cutting Edge Seminar

Speaker: Andrew Millar

Centre for Synthetic and Systems Biolgy, University of Edinburgh, Scotland, UK

Title: Biological timing, from rhythmic phosphoproteomics to predicting carbon biomass.

Host: Maria Eriksson and Johannes Hanson

Room: KB3A9 Lilla hörsalen

Speaker: Dominique Loqué

Director of Cell Wall Engineering at the Joint BioEnergy Institute, UC Berkeley, CA, USA

Title: Synthetic Biology and Bioengineering to Optimize Energy Crops

Host: Totte Niittylä

Room: KB3B1 Stora hörsalen

UPSC Monday Seminar 2016

Speakers:

Johanna Carlsson (PhD student)
Supervisor: Ulrika Egertsdotter

Hailiang Mao (Postdoc)
Supervisor: Markus Grebe, Ove Nilsson

UPSC Seminar

Speaker: Marek Mutwil

Max-Planck-Institut für Molekulare Pflanzenphysiologie Golm, Potsdam, Germany 

Title: Beyond genomics: studying evolution with gene networks.

Host: Totte Niittylä

Room: KB3A9 Lilla hörsalen

UPSC Monday Seminar 2016

Speakers:

Chanaka Mannapperuma (PhD student)
Supervisor: Nathaniel Street

Bo Zhang (Postdoc)
Supervisor: Ove Nilsson

UPSC Seminar

Honory doctor lecture by Norman Hüner
Department of Biology, Western University, Ontario, Canada

Honorary doctor at Umeå University

Title: Photosynthesis, cold acclimation and crop productivity

Host: Gunnar Öquist

Room: KB.E3.01 Lilla hörsalen (formerly KB3A9)

More information about Norman Hüner

UPSC Monday Seminar 2016

Speakers: 

Daniel Decker (PhD student)
Supervisor: Leszek Kleczkowski

Kerstin Richau (Postdoc) 
Supervisor: Nathaniel Street

UPSC Monday Seminar 2016

Speakers: 

Linghua Zhou (PhD student)
Supervisor: Rosario Garcia Gil

Anirban Baral (Postdoc) 
Supervisor: Rishikesh Bhalerao

Cutting Edge Seminar

Speaker: Toshiaki Mitsui

Department of Applied Biological Chemistry, Niigata University, Japan 

Title: The Cell Biological Study of Rice alpha-Amylase - Plastid-targeting of glycoproteins through secretory pathway

Host: Leszek Kleczkowski 

Room: Stora Hörsalen KB.E3.02 (KB3B1)

UPSC Seminar

Speaker: George Newcombe

Department of Forest, Rangeland, and Fire Sciences, University of Idaho, USA

Title: Plant Pathogens and Endophytes

Host: Benedicte Albrectsen.

Room: KB.E3.01 (KB3A9)

UPSC Monday Seminar 2016

Speakers: 

Sanaria Abbas Alallaq (PhD student)
Supervisor: Catherine Bellini

Izabela Dobrowolska (Postdoc) 
Supervisor: Ulrika Egertsdotter

UPSC Monday Seminar 2016

Speakers: 

Thomas Vain (PhD student)
Supervisor: Stéphanie Robert

Peter Grones (Postdoc) 
Supervisor: Stéphanie Robert

UPSC Seminar

Speaker: Christian Meyer

Institut Jean-Pierre Bourgin, UMR 1318 INRA AgroParisTech, Saclay Plant Sciences, Versailles, France

Title: The roles of the conserved TOR kinase in the regulation of plant growth and metabolism

Host: Johannes Hanson

Room: KB.E3.01 (formerly KB3A9)

UPSC Monday Seminar 2016

Speakers: 

Julia Haas (PhD student)
Supervisor: Vaughan Hurry

Joanne Lee (Postdoc) 
Supervisor: Markus Schmid