GREENC
Names
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GREENC
metasource: Fairsharing.org
version: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
GreeNC
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
greenc
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
Names
More detailed information about this field from each metasource.
GREENC
metasource: Fairsharing.orgversion: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
GreeNC
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
greenc
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
Names
More detailed information about this field from each metasource.
GREENC
metasource: Fairsharing.orgversion: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
GreeNC
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
greenc
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
We developed a pipeline to annotate lncRNAs (Long non-coding RNAs) 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.
Description
More detailed information about this field from each metasource.
We developed a pipeline to annotate lncRNAs (Long non-coding RNAs) 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.
metasource: Fairsharing.orgversion: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Long non-coding RNAs (lncRNAs) are functional non-translated molecules longer than 200 nucleotides with diverse roles, such as chromatin modifications, transcriptional regulation, and conformational changes in proteins. The Green Non-Coding Database (GreeNC) is a repository of lncRNAs annotated in 37 plant species and six algae. By using the same pipeline to annotate lncRNAs and organizing them in a central database we aim to provide a tool for the scientific community that can boost the research on this class of transcripts. The GreeNC database provides information about sequence, genomic coordinates, coding potential and folding energy for all the identified lncRNAs.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
A comprehensive database of plant long non-coding RNAs.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
Webpage:
http://greenc.sequentiabiotech.com/wiki2/Main_PageWebpage
More detailed information about this field from each metasource.
http://greenc.sequentiabiotech.com/wiki2/Main_Page
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
http://greenc.sciencedesigners.com/
metasource: Fairsharing.orgversion: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
http://greenc.sciencedesigners.com/wiki/Main_Page
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Licence:
Name: MITLicence name
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Publications:
Publications
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GREENC: a Wiki-based database of plant lncRNAs
PMID: 26578586
metasource: Fairsharing.org
version: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
GreeNC 2.0: a comprehensive database of plant long non-coding RNAs
PMID: 34723326
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
http://dx.doi.org/10.1093/nar/gkv1215
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
GREENC: a Wiki-based database of plant lncRNAs
PMID: 26578586
metasource: Fairsharing.org
version: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
GreeNC 2.0: a comprehensive database of plant long non-coding RNAs
PMID: 34723326
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
http://dx.doi.org/10.1093/nar/gkv1215
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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GREENC: a Wiki-based database of plant lncRNAs
PubMed citations: 72.
72 articles citing: GREENC: a Wiki-based database of plant lncRNAs
Taxonomically Restricted Genes Are Associated With Responses to Biotic and Abiotic Stresses in Sugarcane (Saccharum spp.). PMID:35845637
Integrative mRNA and Long Noncoding RNA Analysis Reveals the Regulatory Network of Floral Bud Induction in Longan (Dimocarpus longan Lour.). PMID:35774802
Revealing the novel complexity of plant long non-coding RNA by strand-specific and whole transcriptome sequencing for evolutionarily representative plant species. PMID:35590257
Biogenesis, Functions, Interactions, and Resources of Non-Coding RNAs in Plants. PMID:35409060
Genome-wide identification and characterization of Fusarium circinatum-responsive lncRNAs in Pinus radiata. PMID:35264109
Genomic and functional conservation of lncRNAs: lessons from flies. PMID:35098341
Long Non-Coding RNAs as Emerging Regulators of Pathogen Response in Plants. PMID:35076574
Long Intergenic Noncoding RNA (lincRNA) Discovery from Non-Strand-Specific RNA-Seq Data. PMID:35037221
Identification of the Complex Interplay Between Nematode-Related lncRNAs and Their Target Genes in Glycine max L. PMID:34956274
GreeNC 2.0: a comprehensive database of plant long non-coding RNAs. PMID:34723326
Data integration and evolutionary analysis of long non-coding RNAs in 25 flowering plants. PMID:34649506
Global identification of long non-coding RNAs involved in the induction of spinach flowering. PMID:34587906
Genome-wide prediction of cauliflower miRNAs and lncRNAs and their roles in post-transcriptional gene regulation. PMID:34519918
Pan-transcriptome identifying master genes and regulation network in response to drought and salt stresses in Alfalfa (Medicago sativa L.). PMID:34446782
Non-Coding RNAs in Legumes: Their Emerging Roles in Regulating Biotic/Abiotic Stress Responses and Plant Growth and Development. PMID:34359842
Long Non-coding RNAs: Mechanisms, Experimental, and Computational Approaches in Identification, Characterization, and Their Biomarker Potential in Cancer. PMID:34276764
Transcriptomic Analysis of Changes in Gene Expression During Flowering Induction in Sugarcane Under Controlled Photoperiodic Conditions. PMID:34211482
LncRNAs and Available Databases. PMID:34160796
Interplay between miRNAs and lncRNAs: Mode of action and biological roles in plant development and stress adaptation. PMID:34025943
PlncRNA-HDeep: plant long noncoding RNA prediction using hybrid deep learning based on two encoding styles. PMID:33980138
Genome-Wide Changes of Regulatory Non-Coding RNAs Reveal Pollen Development Initiated at Ecodormancy in Peach. PMID:33968979
AlnC: An extensive database of long non-coding RNAs in angiosperms. PMID:33852582
Genome-wide identification and functional characterization of natural antisense transcripts in Salvia miltiorrhiza. PMID:33637790
Full-length annotation with multistrategy RNA-seq uncovers transcriptional regulation of lncRNAs in cotton. PMID:33631798
Barley Anther and Meiocyte Transcriptome Dynamics in Meiotic Prophase I. PMID:33510760
PCirc: random forest-based plant circRNA identification software. PMID:33407069
Long Non-Coding RNAs, the Dark Matter: An Emerging Regulatory Component in Plants. PMID:33374835
Nanopore RNA Sequencing Revealed Long Non-Coding and LTR Retrotransposon-Related RNAs Expressed at Early Stages of Triticale SEED Development. PMID:33348863
Lysine, Lysine-Rich, Serine, and Serine-Rich Proteins: Link Between Metabolism, Development, and Abiotic Stress Tolerance and the Role of ncRNAs in Their Regulation. PMID:33343588
Roles of Non-Coding RNAs in Response to Nitrogen Availability in Plants. PMID:33198163
NONCODEV6: an updated database dedicated to long non-coding RNA annotation in both animals and plants. PMID:33196801
Genome-wide analysis of long non-coding RNAs responsive to multiple nutrient stresses in Arabidopsis thaliana. PMID:33130916
NAMS webserver: coding potential assessment and functional annotation of plant transcripts. PMID:33080021
PLncDB V2.0: a comprehensive encyclopedia of plant long noncoding RNAs. PMID:33079992
A systematic evaluation of bioinformatics tools for identification of long noncoding RNAs. PMID:33055239
Long non-coding RNAs: emerging players regulating plant abiotic stress response and adaptation. PMID:33046001
PreLnc: An Accurate Tool for Predicting lncRNAs Based on Multiple Features. PMID:32842486
De novo transcriptome of Gymnema sylvestre identified putative lncRNA and genes regulating terpenoid biosynthesis pathway. PMID:31619732
Distinct types of short open reading frames are translated in plant cells. PMID:31387879
Deciphering the non-coding RNA-level response to arsenic stress in rice (Oryza sativa). PMID:31187662
An Overview of Methodologies in Studying lncRNAs in the High-Throughput Era: When Acronyms ATTACK! PMID:30945176
Genome-wide analysis of long non-coding RNAs unveils the regulatory roles in the heat tolerance of Chinese cabbage (Brassica rapa ssp.chinensis). PMID:30899041
Infrastructures of systems biology that facilitate functional genomic study in rice. PMID:30874968
mirtronDB: a mirtron knowledge base. PMID:30874795
Transcriptomic response of durum wheat to cold stress at reproductive stage. PMID:30798485
Cold Induced Antisense Transcription of FLOWERING LOCUS C in Distant Grasses. PMID:30774642
Diff isomiRs: Large-scale detection of differential isomiRs for understanding non-coding regulated stress omics in plants. PMID:30723229
Differential co-expression networks of long non-coding RNAs and mRNAs in Cleistogenes songorica under water stress and during recovery. PMID:30634906
The MAP3K-Coding QUI-GON JINN (QGJ) Gene Is Essential to the Formation of Unreduced Embryo Sacs in Paspalum. PMID:30405677
Genome-wide regulatory gene-derived SSRs reveal genetic differentiation and population structure in fiber flax genotypes. PMID:30368734
Copaifera langsdorffii Novel Putative Long Non-Coding RNAs: Interspecies Conservation Analysis in Adaptive Response to Different Biomes. PMID:30297664
Transcriptional regulation of osmotic stress tolerance in wheat (Triticum aestivum L.). PMID:30109563
Revealing the transcriptomic complexity of switchgrass by PacBio long-read sequencing. PMID:29951114
Prediction of plant lncRNA by ensemble machine learning classifiers. PMID:29720103
Present Scenario of Long Non-Coding RNAs in Plants. PMID:29657289
Integrated DNA methylome and transcriptome analysis reveals the ethylene-induced flowering pathway genes in pineapple. PMID:29215068
Long noncoding RNAs that respond to Fusarium oxysporum infection in 'Cavendish' banana (Musa acuminata). PMID:29209086
Whole-genome re-sequencing of two Italian tomato landraces reveals sequence variations in genes associated with stress tolerance, fruit quality and long shelf-life traits. PMID:29149280
Structure, target-specificity and expression of PN_LNC_N13, a long non-coding RNA differentially expressed in apomictic and sexual Paspalum notatum. PMID:29119346
PLncPRO for prediction of long non-coding RNAs (lncRNAs) in plants and its application for discovery of abiotic stress-responsive lncRNAs in rice and chickpea. PMID:29036354
LiverWiki: a wiki-based database for human liver. PMID:29029599
Non-coding RNAs and Their Roles in Stress Response in Plants. PMID:29017967
Discovery and Annotation of Plant Endogenous Target Mimicry Sequences from Public Transcriptome Libraries: A Case Study of Prunus persica. PMID:28672765
CottonFGD: an integrated functional genomics database for cotton. PMID:28595571
Genome-wide identification and functional prediction of cold and/or drought-responsive lncRNAs in cassava. PMID:28387315
In Silico identification and annotation of non-coding RNAs by RNA-seq and De Novo assembly of the transcriptome of Tomato Fruits. PMID:28187155
FEELnc: a tool for long non-coding RNA annotation and its application to the dog transcriptome. PMID:28053114
PeTMbase: A Database of Plant Endogenous Target Mimics (eTMs). PMID:27936097
Evolution to the rescue: using comparative genomics to understand long non-coding RNAs. PMID:27573374
Genome-wide identification of potato long intergenic noncoding RNAs responsive to Pectobacterium carotovorum subspecies brasiliense infection. PMID:27515663
Stress-induced and epigenetic-mediated maize transcriptome regulation study by means of transcriptome reannotation and differential expression analysis. PMID:27461139
Long non-coding RNAs and complex diseases: from experimental results to computational models. PMID:27345524 -
GreeNC 2.0: a comprehensive database of plant long non-coding RNAs
PubMed citations: 4.
4 articles citing: GreeNC 2.0: a comprehensive database of plant long non-coding RNAs
Non-Coding RNAs in Tuberculosis Epidemiology: Platforms and Approaches for Investigating the Genome's Dark Matter. PMID:35457250
Biogenesis, Functions, Interactions, and Resources of Non-Coding RNAs in Plants. PMID:35409060
Drought tolerance improvement in Solanum lycopersicum: an insight into "OMICS" approaches and genome editing. PMID:35186660
The 2022 Nucleic Acids Research database issue and the online molecular biology database collection. PMID:34986604 - http://dx.doi.org/10.1093/nar/gkv1215
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annotation
metasource: Fairsharing.org
version: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
long non-coding rna
metasource: Fairsharing.org
version: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
plant databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
general plant databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
functional, regulatory and non-coding rna
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
plant biology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
gene and protein families
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
gene expression
metasource: bio.tools
version: extracted_at: 2022-11-04T11:24:31.688116
Tags
More detailed information about this field from each metasource.
annotation
metasource: Fairsharing.orgversion: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
long non-coding rna
metasource: Fairsharing.orgversion: FAIRsharing.org: GREENC; GREENC; DOI: https://doi.org/10.25504/FAIRsharing.fe9kyy; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
plant databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
general plant databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
functional, regulatory and non-coding rna
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
plant biology
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
gene and protein families
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
gene expression
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:24:31.688116
long non-coding rna plant plant functional, regulatory and non-coding rna plant biology gene and protein families gene expression
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