GREENC


34723326	GreeNC 2.0: a comprehensive database of plant long non-coding RNAs. [PMID: 34723326] Di Marsico M, Paytuvi Gallart A, Sanseverino W, Aiese Cigliano R. Abstract The Green Non-Coding Database (GreeNC) is one of the reference databases for the study of plant long non-coding RNAs (lncRNAs). Here we present our most recent update where 16 species have been updated, while 78 species have been added, resulting in the annotation of more than 495 000 lncRNAs. Moreover, sequence clustering was applied providing information about sequence conservation and gene families. The current version of the database is available at: http://greenc.sequentiabiotech.com/wiki2/Main_Page. Nucleic Acids Res. 2022:50(D1) \| 25 Citations (from Europe PMC, 2025-03-15)
30945200	A Walkthrough to the Use of GreeNC: The Plant lncRNA Database. [PMID: 30945200] Paytuvi-Gallart A, Sanseverino W, Aiese Cigliano R. Abstract Experimentally validated plant lncRNAs have been shown to regulate important agronomic traits such as phosphate starvation response, flowering time, and interaction with symbiotic organisms, making them of great interest in plant biology and in breeding. We developed a pipeline to annotate lncRNAs and applied it to 37 plant species and 6 algae, resulting in the annotation of more than 120,000 lncRNAs. To facilitate the study of lncRNAs for the plant research community, the information gathered is organized in the Green Non-Coding Database (GreeNC, http://greenc.sciencedesigners.com/) . This chapter contains a detailed explanation of the content of GreeNC and how to access both programmatically and with a web browser. Methods Mol Biol. 2019:1933() \| 6 Citations (from Europe PMC, 2025-03-15)
26578586	GREENC: a Wiki-based database of plant lncRNAs. [PMID: 26578586] Paytuví Gallart A, Hermoso Pulido A, Anzar Martínez de Lagrán I, Sanseverino W, Aiese Cigliano R. Abstract Long non-coding RNAs (lncRNAs) are functional non-translated molecules greater than 200 nt. Their roles are diverse and they are usually involved in transcriptional regulation. LncRNAs still remain largely uninvestigated in plants with few exceptions. Experimentally validated plant lncRNAs have been shown to regulate important agronomic traits such as phosphate starvation response, flowering time and interaction with symbiotic organisms, making them of great interest in plant biology and in breeding. There is still a lack of lncRNAs in most sequenced plant species, and in those where they have been annotated, different methods have been used, so making the lncRNAs less useful in comparisons within and between species. We developed a pipeline to annotate lncRNAs and applied it to 37 plant species and six algae, resulting in the annotation of more than 120 000 lncRNAs. To facilitate the study of lncRNAs for the plant research community, the information gathered is organised in the Green Non-Coding Database (GreeNC, http://greenc.sciencedesigners.com/). © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research. Nucleic Acids Res. 2016:44(D1) \| 101 Citations (from Europe PMC, 2025-03-15)

GreeNC 2.0: a comprehensive database of plant long non-coding RNAs. [PMID: 34723326]

Di Marsico M, Paytuvi Gallart A, Sanseverino W, Aiese Cigliano R.

The Green Non-Coding Database (GreeNC) is one of the reference databases for the study of plant long non-coding RNAs (lncRNAs). Here we present our most recent update where 16 species have been updated, while 78 species have been added, resulting in the annotation of more than 495 000 lncRNAs. Moreover, sequence clustering was applied providing information about sequence conservation and gene families. The current version of the database is available at: http://greenc.sequentiabiotech.com/wiki2/Main_Page.

Nucleic Acids Res. 2022:50(D1) | 25 Citations (from Europe PMC, 2025-03-15)

A Walkthrough to the Use of GreeNC: The Plant lncRNA Database. [PMID: 30945200]

Paytuvi-Gallart A, Sanseverino W, Aiese Cigliano R.

Abstract

Experimentally validated plant lncRNAs have been shown to regulate important agronomic traits such as phosphate starvation response, flowering time, and interaction with symbiotic organisms, making them of great interest in plant biology and in breeding. We developed a pipeline to annotate lncRNAs and applied it to 37 plant species and 6 algae, resulting in the annotation of more than 120,000 lncRNAs. To facilitate the study of lncRNAs for the plant research community, the information gathered is organized in the Green Non-Coding Database (GreeNC, http://greenc.sciencedesigners.com/) . This chapter contains a detailed explanation of the content of GreeNC and how to access both programmatically and with a web browser.

Methods Mol Biol. 2019:1933() | 6 Citations (from Europe PMC, 2025-03-15)

GREENC: a Wiki-based database of plant lncRNAs. [PMID: 26578586]

Paytuví Gallart A, Hermoso Pulido A, Anzar Martínez de Lagrán I, Sanseverino W, Aiese Cigliano R.

Abstract

Long non-coding RNAs (lncRNAs) are functional non-translated molecules greater than 200 nt. Their roles are diverse and they are usually involved in transcriptional regulation. LncRNAs still remain largely uninvestigated in plants with few exceptions. Experimentally validated plant lncRNAs have been shown to regulate important agronomic traits such as phosphate starvation response, flowering time and interaction with symbiotic organisms, making them of great interest in plant biology and in breeding. There is still a lack of lncRNAs in most sequenced plant species, and in those where they have been annotated, different methods have been used, so making the lncRNAs less useful in comparisons within and between species. We developed a pipeline to annotate lncRNAs and applied it to 37 plant species and six algae, resulting in the annotation of more than 120 000 lncRNAs. To facilitate the study of lncRNAs for the plant research community, the information gathered is organised in the Green Non-Coding Database (GreeNC, http://greenc.sciencedesigners.com/). © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

Nucleic Acids Res. 2016:44(D1) | 101 Citations (from Europe PMC, 2025-03-15)

URL:	http://greenc.sequentiabiotech.com/wiki2/Main_Page
Full name:	the green non-coding database
Description:	GreeNC is one of the reference databases for the study of plant long non-coding RNAs (lncRNAs). In version 2.0, 16 species have been updated, 78 species have been added, resulting in the annotation of more than 495,000 lncRNAs. Moreover, sequence clustering was applied providing information about sequence conservation and gene families.
Year founded:	2016
Last update:	2021-11-08
Version:	v2.0
Accessibility:	Accessible
Country/Region:	Spain

Data type:	RNA
Data object:	Plant
Database category:	Gene genome and annotation
Major species:	Aegilops tauschii Brassica napus Camelina sativa Gossypium darwinii Gossypium tomentosum Hordeum vulgare Rosa chinensis Triticum dicoccoides
Keywords:	lncRNA orthogroup

University/Institution:	Sequentia Biotech SL
Address:	Calle Comte D’Urgell 240, Barcelona, Spain
City:	Barcelona
Province/State:
Country/Region:	Spain
Contact name (PI/Team):	Riccardo Aiese Cigliano
Contact email (PI/Helpdesk):	raiesecigliano@sequentiabiotech.com

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Database Commons a catalog of worldwide biological databases