Small RNA and transcriptome deep sequencing proffers insight into floral gene regulation in Rosa cultivars (Q28710256)

2

0 references

Chan Ju Lim

3

0 references

Jae Yun Lim

4

0 references

Jee-Youn Ryu

5

0 references

Bong-Woo Lee

6

0 references

Jae-Pil Choi

7

0 references

Woong Bom Kim

8

0 references

Ha Yeon Lee

9

0 references

Yourim Choi

10

0 references

Donghyun Kim

11

0 references

Cheol-Goo Hur

12

0 references

Sukweon Kim

13

0 references

Yoo-Sun Noh

14

0 references

Chanseok Shin

15

0 references

Suk-Yoon Kwon

Apple miRNAs and tasiRNAs with novel regulatory networks

16

0 references

language of work or name

English

0 references

publication date

21 November 2012

0 references

published in

BMC Genomics

0 references

volume

13

0 references

issue

1

0 references

page(s)

657

0 references

cites work

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Deep sequencing of tomato short RNAs identifies microRNAs targeting genes involved in fruit ripening

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Discovering microRNAs from deep sequencing data using miRDeep

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MicroRNAS and their regulatory roles in plants

17 March 2017

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The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs

17 March 2017

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MicroRNA-directed regulation of Arabidopsis AUXIN RESPONSE FACTOR17 is essential for proper development and modulates expression of early auxin response genes

17 March 2017

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17 March 2017

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Modulation of floral development by a gibberellin-regulated microRNA

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

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

17 March 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Genetic and functional diversification of small RNA pathways in plants

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

17 March 2017

Plant snoRNA database

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

CAP3: A DNA sequence assembly program

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Next-generation DNA sequencing

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

NCBI Reference Sequences: current status, policy and new initiatives

7 April 2017

1 reference

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The significance of digital gene expression profiles

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Regulation of flowering time and floral organ identity by a MicroRNA and its APETALA2-like target genes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Genomic approach to study floral development genes in Rosa sp

7 April 2017

1 reference

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High-throughput sequencing of RNA silencing-associated small RNAs in olive (Olea europaea L.).

3 June 2018

1 reference

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Construction and EST sequencing of full-length, drought stress cDNA libraries for common beans (Phaseolus vulgaris L.).

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

EST sequencing and gene expression profiling of defence-related genes from Persea americana infected with Phytophthora cinnamomi

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

High-resolution experimental and computational profiling of tissue-specific known and novel miRNAs in Arabidopsis

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

miRDeep-P: a computational tool for analyzing the microRNA transcriptome in plants

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Deep sequencing on genome-wide scale reveals the unique composition and expression patterns of microRNAs in developing pollen of Oryza sativa

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

An autotetraploid linkage map of rose (Rosa hybrida) validated using the strawberry (Fragaria vesca) genome sequence

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

psRNATarget: a plant small RNA target analysis server

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Identification of tissue-specific, abiotic stress-responsive gene expression patterns in wine grape (Vitis vinifera L.) based on curation and mining of large-scale EST data sets

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Analysis of anther transcriptomes to identify genes contributing to meiosis and male gametophyte development in rice

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

miRanalyzer: an update on the detection and analysis of microRNAs in high-throughput sequencing experiments

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Deep sequencing of grapevine flower and berry short RNA library for discovery of novel microRNAs and validation of precise sequences of grapevine microRNAs deposited in miRBase

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Global analysis of gene-level microRNA expression in Arabidopsis using deep sequencing data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Characterization of statistical features for plant microRNA prediction.

3 June 2018

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Evolution and functional diversification of MIRNA genes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

An EST-based analysis identifies new genes and reveals distinctive gene expression features of Coffea arabica and Coffea canephora

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Genetic engineering of flavonoid pigments to modify flower color in floricultural plants

3 June 2018

1 reference

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Towards a unified genetic map for diploid roses

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

MYB transcription factors in Arabidopsis

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

mirTools: microRNA profiling and discovery based on high-throughput sequencing

3 June 2018

1 reference

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Discovery and comparative profiling of microRNAs in a sweet orange red-flesh mutant and its wild type

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

An R2R3 MYB transcription factor associated with regulation of the anthocyanin biosynthetic pathway in Rosaceae

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Identification of grapevine microRNAs and their targets using high-throughput sequencing and degradome analysis

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

In-depth sequencing of the siRNAs associated with peach latent mosaic viroid infection

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

miRExpress: analyzing high-throughput sequencing data for profiling microRNA expression

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

MicroRNA expression profiles in conventional and micropropagated strawberry (Fragaria x ananassa Duch.) plants

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

New resources for studying the rose flowering process

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

A miRacle in plant development: role of microRNAs in cell differentiation and patterning.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

The Genome Sequencer FLX System--longer reads, more applications, straight forward bioinformatics and more complete data sets

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Multiple models for Rosaceae genomics

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5' terminal nucleotide

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

InterPro and InterProScan: tools for protein sequence classification and comparison

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

GDR (Genome Database for Rosaceae): integrated web-database for Rosaceae genomics and genetics data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Construction of small RNA cDNA libraries for deep sequencing

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Large-scale identification of microRNAs from a basal eudicot (Eschscholzia californica) and conservation in flowering plants

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Analysis of gene expression in rose petals using expressed sequence tags.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Rose scent: genomics approach to discovering novel floral fragrance-related genes

3 June 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

Criteria for annotation of plant MicroRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

The beet R locus encodes a new cytochrome P450 required for red betalain production

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

Negative regulation of anthocyanin biosynthesis in Arabidopsis by a miR156-targeted SPL transcription factor

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

Arabidopsis microRNA167 controls patterns of ARF6 and ARF8 expression, and regulates both female and male reproduction.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

Differential expression of MYB gene (OgMYB1) determines color patterning in floral tissue of Oncidium Gower Ramsey

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

RNA extraction from various recalcitrant plant tissues with a cethyltrimethylammonium bromide-containing buffer followed by an acid guanidium thiocyanate-phenol-chloroform treatment

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

Specific Effects of MicroRNAs on the Plant Transcriptome

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-13-657

Using the Arabidopsis information resource (TAIR) to find information about Arabidopsis genes.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Biosynthesis of plant pigments: anthocyanins, betalains and carotenoids

27 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3527192

Control of root cap formation by MicroRNA-targeted auxin response factors in Arabidopsis

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23171001

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Using the KEGG database resource

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23171001

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Sorting out small RNAs

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23171001