(Q35015781)

5 August 2017

title

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

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Arabidopsis thaliana root

5 August 2017

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6

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5 August 2017

Elena A Vidal

1

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Gabriel Krouk

Gabriel Krouk

3

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Milos Tanurdzic

Milos Tanurdzic

5

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Rodrigo A Gutiérrez

Rodrigo A Gutiérrez

8

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Gloria Coruzzi

7

Gloria M Coruzzi

1 reference

5 August 2017

Tomás C Moyano

2

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5 August 2017

Manpreet S Katari

4

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5 August 2017

language of work or name

English

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publication date

11 October 2013

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5 August 2017

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5 August 2017

volume

14

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5 August 2017

page(s)

701

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describes a project that uses

5 August 2017

DESeq2

DESeq

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CZ Software Mentions: A large dataset of software mentions in the biomedical literature

affy

affy package

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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Qualitative network models and genome-wide expression data define carbon/nitrogen-responsive molecular machines in Arabidopsis

8 July 2018

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A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana

8 July 2018

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Functionality of intergenic transcription: an evolutionary comparison

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant

8 July 2018

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Differential roles of Arabidopsis heterotrimeric G-protein subunits in modulating cell division in roots

8 July 2018

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The diversity of RNA silencing pathways in plants

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Sweating the small stuff: microRNA discovery in plants

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis

8 July 2018

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Arabidopsis phosphoenolpyruvate carboxylase genes encode immunologically unrelated polypeptides and are differentially expressed in response to drought and salt stress.

8 July 2018

1 reference

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Arabidopsis TCP20 links regulation of growth and cell division control pathways

8 July 2018

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microRNA-directed phasing during trans-acting siRNA biogenesis in plants

8 July 2018

1 reference

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Genome-wide prediction and identification of cis-natural antisense transcripts in Arabidopsis thaliana

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Dark matter in the genome: evidence of widespread transcription detected by microarray tiling experiments

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

The developmental role of microRNA in plants

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Computational prediction of miRNAs in Arabidopsis thaliana

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Global identification of human transcribed sequences with genome tiling arrays

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Fast and effective prediction of microRNA/target duplexes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Genome-wide reprogramming of primary and secondary metabolism, protein synthesis, cellular growth processes, and the regulatory infrastructure of Arabidopsis in response to nitrogen

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Computational identification of plant microRNAs and their targets, including a stress-induced miRNA

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

A gene expression map of the Arabidopsis root

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Exploration, normalization, and summaries of high density oligonucleotide array probe level data

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Identification and expression analysis of a gene encoding a bacterial-type phosphoenolpyruvate carboxylase from Arabidopsis and rice

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Negative feedback regulation of Dicer-Like1 in Arabidopsis by microRNA-guided mRNA degradation.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

The beta-subunit of the Arabidopsis G protein negatively regulates auxin-induced cell division and affects multiple developmental processes.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Cleavage of Scarecrow-like mRNA targets directed by a class of Arabidopsis miRNA

8 July 2018

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8 July 2018

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Nitrate regulation of metabolism and growth

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Nitrate: nutrient and signal for plant growth

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Microarray analysis of the nitrate response in Arabidopsis roots and shoots reveals over 1,000 rapidly responding genes and new linkages to glucose, trehalose-6-phosphate, iron, and sulfate metabolism

8 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

Genomic analysis of the nitrate response using a nitrate reductase-null mutant of Arabidopsis

21 January 2018

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Nitrite acts as a transcriptome signal at micromolar concentrations in Arabidopsis roots

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

Dissecting Arabidopsis thaliana DICER function in small RNA processing, gene silencing and DNA methylation patterning

21 January 2018

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https://api.crossref.org/works/10.1186%2F1471-2164-14-701

Regulation of phosphate homeostasis by MicroRNA in Arabidopsis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

A miRNA involved in phosphate-starvation response in Arabidopsis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

Sulphur starvation induces the expression of microRNA-395 and one of its target genes but in different cell types

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

Identification of nutrient-responsive Arabidopsis and rapeseed microRNAs by comprehensive real-time polymerase chain reaction profiling and small RNA sequencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

A high-resolution root spatiotemporal map reveals dominant expression patterns.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

A toolkit for analysing large-scale plant small RNA datasets

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

BTB and TAZ domain scaffold proteins perform a crucial function in Arabidopsis development.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

BT2, a BTB protein, mediates multiple responses to nutrients, stresses, and hormones in Arabidopsis.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Eukaryotic transcription factors in plastids--Bioinformatic assessment and implications for the evolution of gene expression machineries in plants

25 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

PCF1 and PCF2 specifically bind to cis elements in the rice proliferating cell nuclear antigen gene

25 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3906980

Specific Effects of MicroRNAs on the Plant Transcriptome

25 October 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-14-701

21 January 2018

Identifiers

DOI

10.1186/1471-2164-14-701

1 reference

Dimensions Publication ID

5 August 2017

0 references

1 reference

5 August 2017

1 reference