nicolasdelhomme Goto Github PK

algalacclimatization

Algal acclimatization project

arabidopsis-aphids

PECTIN ACETYLESTERASE9 affects the transcriptome and metabolome and delays aphid feeding

arabidopsis-nutrition-tor

Arabidopsis-nutrition-tor

arabidopsis-prn2-hub2

Arabidopsis prn2 hub2 mutants analysis

aspen-seasonal-senescence

aspen-seasonal-senescence

berlin2022

bioqaexample

Biological Quality Assessment Example

differentialexpressionexample

An example of a Differential Expression analysis

docker-light-baseimage

A container base image to build reliable single or multiprocess images quickly 🐳✨🌴

docker-openldap

OpenLDAP container image 🐳🌴

downstreamanalysisexample

fg-course

Functional Genomics course website

forskarfredag2020

A shiny app for Forskar Fredag (Researcher's night) 2020

forskarfredag2021

A shiny app for Forskar Fredag (Researcher's night) 2021

fungal-trans

A Snakemake workflow for fungal metatranscriptomics

genenetworksexample

Introduction to gene networks and example usage of seidr, a tool for ensemble gene network construction, manipulation and analysis

gni_predictors

kraken2

The second version of the Kraken taxonomic sequence classification system

laccariabicolorecmdev

The molecular timecourse of hybrid aspen/Laccaria bicolor ectomycorrhiza development

loafer

Node.js/Express.js front end for Gofer2

nf-radseq

NextFlow pipeline for RAD-Seq analyses

pasapipeline

PASA software

plncpro

Prediction of lncRNAs using machine learning (Singh et. al NAR 2017)

poplar-early-bud-break

Bud-break after winter dormancy is economically and environmentally important process in trees and shrubs from boreal and temperate latitudes but its molecular mechanisms are poorly understood. Previously we have reported the isolation and characterization of the EARLY BUD BREAK 1 (EBB1) gene, encoding an AP2/ERF transcription factor. We show here that EBB1 directly represses the poplar SVL (SHORT VEGETATIVE PHASE-LIKE), a MADS-box protein which was recently found to negatively regulate bud-break in Populus. We also report the identification and characterization of the EARLY BUD-BREAK 3 (EBB3) gene, which encodes another AP2/ERF transcription factor. We demonstrate that EBB3 is a positive regulator of bud-break and acts downstream of EBB1 and SVL. EBB3’s effect on bud-break is mediated via control of cell cycle by directly and positively regulating CYCLIND3.1 gene. Our results show the molecular architecture of a novel regulatory module that controls bud-break in poplar by controlling progression of cell cycle.

poplarcambium

poplarft

FLOWERING LOCUS T Paralogs Control the Annual Growth Cycle in Populus Trees

preprocessingjournalclub

HTS preprocessing journal club

presentation-template

Reveal template

project-template

r-formulas

Intro to R formulas