Next-generation yeast-two-hybrid analysis with Y2H-SCORES identifies novel interactors of the MLA immune receptor

A DnaJ protein that interacts with soybean mosaic virus coat protein serves as a key susceptibility factor for viral infection

(2020) Tingxuan Zong et al.   VIRUS RESEARCH

Evolution of resilience in protein interactomes across the tree of life

(2019) Marinka Zitnik et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reconstitution and structure of a plant NLR resistosome conferring immunity

(2019) Jizong Wang et al.   SCIENCE

A unique dynamin-related protein is essential for mitochondrial fission in Toxoplasma gondii

(2019) Carmen Melatti et al.   PLoS Pathogens

Kinesins and Myosins: Molecular Motors that Coordinate Cellular Functions in Plants

(2018) Andreas Nebenführ et al.   Annual Review of Plant Biology

Golgins

(2018) Nadine Muschalik et al.   CURRENT BIOLOGY

Determining the minimum number of protein-protein interactions required to support known protein complexes

(2018) Natsu Nakajima et al.   PLoS One

An extracellular network of Arabidopsis leucine-rich repeat receptor kinases

(2018) Elwira Smakowska-Luzan et al.   NATURE

A user-friendly platform for yeast two-hybrid library screening using next generation sequencing

(2018) Marie-Laure Erffelinck et al.   PLoS One

A chromosome conformation capture ordered sequence of the barley genome

(2017) Martin Mascher et al.   NATURE

CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping

(2017) Shelly A Trigg et al.   NATURE METHODS

High-throughput characterization of protein–protein interactions by reprogramming yeast mating

(2017) David Younger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pooled-matrix protein interaction screens using Barcode Fusion Genetics

(2016) N. Yachie et al.   Molecular Systems Biology

An E3 Ligase Affects the NLR Receptor Stability and Immunity to Powdery Mildew

(2016) Tao Wang et al.   PLANT PHYSIOLOGY

Cytosolic activation of cell death and stem rust resistance by cereal MLA-family CC–NLR proteins

(2016) Stella Cesari et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

(2016) Nicholas J. Schurch et al.   RNA

DEEPN as an Approach for Batch Processing of Yeast 2-Hybrid Interactions

(2016) Natasha Pashkova et al.   Cell Reports

PPIM: A Protein-Protein Interaction Database for Maize

(2015) Guanghui Zhu et al.   PLANT PHYSIOLOGY

Transcriptome dynamics of developing maize leaves and genomewide prediction ofciselements and their cognate transcription factors

(2015) Chun-Ping Yu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The wheat Sr50 gene reveals rich diversity at a cereal disease resistance locus

(2015) Rohit Mago et al.   Nature Plants

Next-Generation Sequencing for Binary Protein–Protein Interactions

(2015) Bernhard Suter et al.   Frontiers in Genetics

The Precision-Recall Plot Is More Informative than the ROC Plot When Evaluating Binary Classifiers on Imbalanced Datasets

(2015) Takaya Saito et al.   PLoS One

Expression-based network biology identifies immune-related functional modules involved in plant defense

(2014) Joel P Tully et al.   BMC GENOMICS

Convergent Targeting of a Common Host Protein-Network by Pathogen Effectors from Three Kingdoms of Life

(2014) Ralf Weßling et al.   Cell Host & Microbe

Normalization of RNA-seq data using factor analysis of control genes or samples

(2014) Davide Risso et al.   NATURE BIOTECHNOLOGY

A Y2H-seq approach defines the human protein methyltransferase interactome

(2013) Mareike Weimann et al.   NATURE METHODS

Barley MLA Immune Receptors Directly Interfere with Antagonistically Acting Transcription Factors to Initiate Disease Resistance Signaling

(2013) C. Chang et al.   PLANT CELL

Quantitative Interactor Screening with next-generation Sequencing (QIS-Seq) identifies Arabidopsis thaliana MLO2 as a target of the Pseudomonas syringae type III effector HopZ2

(2012) Jennifer D Lewis et al.   BMC GENOMICS

A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis

(2012) M.-A. Dillies et al.   BRIEFINGS IN BIOINFORMATICS

Conservation of NLR-triggered immunity across plant lineages

(2012) T. Maekawa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples

(2012) Günter P. Wagner et al.   THEORY IN BIOSCIENCES

Compartmentalized linkage of genes encoding interacting protein pairs

(2011) Saurabh R. Nirantar et al.   PROTEOMICS

Independently Evolved Virulence Effectors Converge onto Hubs in a Plant Immune System Network

(2011) M. S. Mukhtar et al.   SCIENCE

Diversity at theMlaPowdery Mildew Resistance Locus from Cultivated Barley Reveals Sites of Positive Selection

(2010) Sabine Seeholzer et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

The wheat Mla homologue TmMla1 exhibits an evolutionarily conserved function against powdery mildew in both wheat and barley

(2010) Tina Jordan et al.   PLANT JOURNAL

Protein–Protein Interactions Essentials: Key Concepts to Building and Analyzing Interactome Networks

(2010) Javier De Las Rivas et al.   PLoS Computational Biology

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Yeast Two-Hybrid, a Powerful Tool for Systems Biology

(2009) Anna Brückner et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Arabidopsis dynamin-related proteins DRP3A and DRP3B are functionally redundant in mitochondrial fission, but have distinct roles in peroxisomal fission

(2009) Masaru Fujimoto et al.   PLANT JOURNAL