(Q36197912)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27862469%20AND%20SRC:MED&resulttype=core&format=json

27 March 2020

title

Araport11: a complete reannotation of the Arabidopsis thaliana reference genome (English)

1 reference

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27 March 2020

0 references

1 reference

2

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27 March 2020

Seth Schobel

5

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27 March 2020

Francoise Thibaud-Nissen

4

object named as

Françoise Thibaud-Nissen

1 reference

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27 March 2020

author name string

Chia-Yi Cheng

1

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27 March 2020

Agnes P Chan

3

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27 March 2020

Christopher D Town

6

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27 March 2020

publication date

10 February 2017

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27 March 2020

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27862469%20AND%20SRC:MED&resulttype=core&format=json

27 March 2020

volume

89

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27 March 2020

issue

4

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27 March 2020

page(s)

789-804

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A survey of the sorghum transcriptome using single-molecule long reads

27 March 2020

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Seeing the forest for the trees: annotating small RNA producing genes in plants

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Comprehensive Annotation of Physcomitrella patens Small RNA Loci Reveals That the Heterochromatic Short Interfering RNA Pathway Is Largely Conserved in Land Plants.

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Antisense COOLAIR mediates the coordinated switching of chromatin states at FLC during vernalization

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Unique functionality of 22-nt miRNAs in triggering RDR6-dependent siRNA biogenesis from target transcripts in Arabidopsis

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Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

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Complete reannotation of the Arabidopsis genome: methods, tools, protocols and the final release

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Identifying small interfering RNA loci from high-throughput sequencing data

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An atlas of over 90,000 conserved noncoding sequences provides insight into crucifer regulatory regions.

21 January 2018

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Identification of novel conserved peptide uORF homology groups in Arabidopsis and rice reveals ancient eukaryotic origin of select groups and preferential association with transcription factor-encoding genes

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21 January 2018

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Uncovering small RNA-mediated responses to phosphate deficiency in Arabidopsis by deep sequencing

21 January 2018

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Genome-wide analysis of alternative pre-mRNA splicing in Arabidopsis thaliana based on full-length cDNA sequences

21 January 2018

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Genome and transcriptome of the porcine whipworm Trichuris suis

21 January 2018

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21 January 2018

The plant immune system

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The impact of Arabidopsis on human health: diversifying our portfolio

21 January 2018

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Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis

21 January 2018

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Expressed pseudogenes in the transcriptional landscape of human cancers

21 January 2018

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Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis.

21 January 2018

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miRBase: annotating high confidence microRNAs using deep sequencing data

21 January 2018

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Araport: the Arabidopsis information portal

21 January 2018

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An upstream open reading frame is essential for feedback regulation of ascorbate biosynthesis in Arabidopsis.

21 January 2018

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The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

21 January 2018

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Polymerase IV occupancy at RNA-directed DNA methylation sites requires SHH1

21 January 2018

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Web Apollo: a web-based genomic annotation editing platform

21 January 2018

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Integrated detection of natural antisense transcripts using strand-specific RNA sequencing data

21 January 2018

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Detection of Pol IV/RDR2-dependent transcripts at the genomic scale in Arabidopsis reveals features and regulation of siRNA biogenesis

21 January 2018

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21 January 2018

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Highly integrated single-base resolution maps of the epigenome in Arabidopsis

21 January 2018

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Genome-wide analysis uncovers regulation of long intergenic noncoding RNAs in Arabidopsis.

21 January 2018

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Translational landscape of photomorphogenic Arabidopsis

21 January 2018

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Function annotation of the rice transcriptome at single-nucleotide resolution by RNA-seq

21 January 2018

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Maternal siRNAs as regulators of parental genome imbalance and gene expression in endosperm of Arabidopsis seeds

21 January 2018

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Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis

21 January 2018

1 reference

Unmasking alternative splicing inside protein-coding exons defines exitrons and their role in proteome plasticity.

21 January 2018

1 reference

Cutadapt removes adapter sequences from high-throughput sequencing reads

21 January 2018

1 reference

Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array

21 January 2018

1 reference

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

21 January 2018

1 reference

Paired-end analysis of transcription start sites in Arabidopsis reveals plant-specific promoter signatures

21 January 2018

1 reference

The transcriptional landscape of the yeast genome defined by RNA sequencing

21 January 2018

1 reference

Intron retention is a major phenomenon in alternative splicing in Arabidopsis.

21 January 2018

1 reference

Genome-wide analysis of endogenous abscisic acid-mediated transcription in dry and imbibed seeds of Arabidopsis using tiling arrays

21 January 2018

1 reference

Alternative splicing of pre-mRNAs of Arabidopsis serine/arginine-rich proteins: regulation by hormones and stresses.

21 January 2018

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Auxin receptors: a new role for F-box proteins

21 January 2018

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How data analysis affects power, reproducibility and biological insight of RNA-seq studies in complex datasets

21 January 2018

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Pseudogenes: pseudo-functional or key regulators in health and disease?

21 January 2018

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Transcribed dark matter: meaning or myth?

21 January 2018

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50 years of Arabidopsis research: highlights and future directions

21 January 2018

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NCBI Reference Sequences (RefSeq): current status, new features and genome annotation policy

21 January 2018

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BEDTools: a flexible suite of utilities for comparing genomic features

21 January 2018

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Unique features of long non-coding RNA biogenesis and function

21 January 2018

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Arabidopsis as a genetic tool

21 January 2018

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

21 January 2018

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Arabidopsis ribosomal proteins control developmental programs through translational regulation of auxin response factors

21 January 2018

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Hyperosmotic priming of Arabidopsis seedlings establishes a long-term somatic memory accompanied by specific changes of the epigenome.

21 January 2018

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The upstream open reading frame of the Arabidopsis AtMHX gene has a strong impact on transcript accumulation through the nonsense-mediated mRNA decay pathway

21 January 2018

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A gene expression map of Arabidopsis thaliana development

21 January 2018

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Improved annotation of 3' untranslated regions and complex loci by combination of strand-specific direct RNA sequencing, RNA-Seq and ESTs.

21 January 2018

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A single-molecule long-read survey of the human transcriptome

21 January 2018

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Unique Aspects of Plant Nonsense-Mediated mRNA Decay

21 January 2018

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Direct sequencing of Arabidopsis thaliana RNA reveals patterns of cleavage and polyadenylation.

21 January 2018

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BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

21 January 2018

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Alternative splicing at the intersection of biological timing, development, and stress responses

21 January 2018

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21 January 2018

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21 January 2018

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Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots

21 January 2018

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21 January 2018

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21 January 2018

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21 January 2018

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21 January 2018

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Unveiling the complexity of the maize transcriptome by single-molecule long-read sequencing

21 January 2018

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Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution

21 January 2018

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21 January 2018

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21 January 2018

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21 January 2018

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Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays

21 January 2018

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A One Precursor One siRNA Model for Pol IV-Dependent siRNA Biogenesis

21 January 2018

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21 January 2018

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Evolutionary and expression signatures of pseudogenes in Arabidopsis and rice

21 January 2018

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Primary transcripts of microRNAs encode regulatory peptides

21 January 2018

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21 January 2018

Identifiers

DOI

10.1111/TPJ.13415

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27862469%20AND%20SRC:MED&resulttype=core&format=json

27 March 2020

1 reference