Nuclear Speckle RNA Binding Proteins Remodel Alternative Splicing and the Non-coding Arabidopsis Transcriptome to Regulate a Cross-Talk Between Auxin and Immune Responses

Splicing regulation by long noncoding RNAs

(2018) Natali Romero-Barrios et al.   NUCLEIC ACIDS RESEARCH

Plant Ribonomics: Proteins in Search of RNA Partners

(2018) Tino Köster et al.   TRENDS IN PLANT SCIENCE

Indole-3-acetaldehyde dehydrogenase-dependent auxin synthesis contributes to virulence of Pseudomonas syringae strain DC3000

(2018) Sheri A. McClerklin et al.   PLoS Pathogens

RNA-binding proteins and their role in the regulation of gene expression in Trypanosoma cruzi and Saccharomyces cerevisiae

(2017) Camila Oliveira et al.   GENETICS AND MOLECULAR BIOLOGY

The Landscape of Isoform Switches in Human Cancers

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A high quality Arabidopsis transcriptome for accurate transcript-level analysis of alternative splicing

(2017) Runxuan Zhang et al.   NUCLEIC ACIDS RESEARCH

RNA structure, binding, and coordination in Arabidopsis

(2017) Shawn W. Foley et al.   Wiley Interdisciplinary Reviews-RNA

Emerging Roles of RNA-Binding Proteins in Plant Growth, Development, and Stress Responses

(2016)   MOLECULES AND CELLS

Near-optimal probabilistic RNA-seq quantification

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High-quality reference transcript datasets hold the key to transcript-specific RNA-sequencing analysis in plants

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Detection of generic differential RNA processing events from RNA-seq data

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Dissecting the expression relationships between RNA-binding proteins and their cognate targets in eukaryotic post-transcriptional regulatory networks

(2016) Sneha Nishtala et al.   Scientific Reports

The RNA-binding protein repertoire of Arabidopsis thaliana

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Ethylene response factors in Arabidopsis immunity

(2015) Pin-Yao Huang et al.   JOURNAL OF EXPERIMENTAL BOTANY

Long Noncoding RNA Modulates Alternative Splicing Regulators in Arabidopsis

(2014) Florian Bardou et al.   DEVELOPMENTAL CELL

Noncoding Transcription by Alternative RNA Polymerases Dynamically Regulates an Auxin-Driven Chromatin Loop

(2014) Federico Ariel et al.   MOLECULAR CELL

Functional Consequences of Splicing of the Antisense Transcript COOLAIR on FLC Transcription

(2014) Sebastian Marquardt et al.   MOLECULAR CELL

Selective mRNA sequestration by OLIGOURIDYLATE-BINDING PROTEIN 1 contributes to translational control during hypoxia inArabidopsis

(2014) Reed Sorenson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The SERRATE protein is involved in alternative splicing in Arabidopsis thaliana

(2013) K. D. Raczynska et al.   NUCLEIC ACIDS RESEARCH

Auxin promotes susceptibility toPseudomonas syringaevia a mechanism independent of suppression of salicylic acid-mediated defenses

(2013) Andrew M. Mutka et al.   PLANT JOURNAL

Software for Computing and Annotating Genomic Ranges

(2013) Michael Lawrence et al.   PLoS Computational Biology

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

MYC2: The Master in Action

(2012) Kemal Kazan et al.   Molecular Plant

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Genome-Wide Analysis Uncovers Regulation of Long Intergenic Noncoding RNAs in Arabidopsis

(2012) J. Liu et al.   PLANT CELL

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

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TheArabidopsisprotein kinase Pto-interacting 1-4 is a common target of the oxidative signal-inducible 1 and mitogen-activated protein kinases

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The Spen Family Protein FPA Controls Alternative Cleavage and Polyadenylation of RNA

(2010) Csaba Hornyik et al.   DEVELOPMENTAL CELL

MAPK phosphatase MKP2 mediates disease responses in Arabidopsis and functionally interacts with MPK3 and MPK6

(2010) Victoria Lumbreras et al.   PLANT JOURNAL

Involvement of the nuclear cap-binding protein complex in alternative splicing in Arabidopsis thaliana

(2009) Katarzyna Dorota Raczynska et al.   NUCLEIC ACIDS RESEARCH

The Role of WRKY Transcription Factors in Plant Immunity

(2009) S. P. Pandey et al.   PLANT PHYSIOLOGY

Targeted 3' Processing of Antisense Transcripts Triggers Arabidopsis FLC Chromatin Silencing

(2009) F. Liu et al.   SCIENCE

Getting the message across: cytoplasmic ribonucleoprotein complexes

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