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References from DNABERT-based explainable lncRNA identification in plant genome assemblies. Local targets link to admitted publications; unresolved targets remain external evidence.
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10.1093/nar/gkp1240 · External reference
The critical role of miRNAs in regulation of flowering time and flower development
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Regulation of miR319 during cold stress in sugarcane
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Integrating small RNA sequencing with QTL mapping for identification of miRNAs and their target genes associated with heat tolerance at the flowering stage in rice
2017 · External reference
The cotton miR477-CBP60A module participates in plant defense against verticillium dahlia
10.1094/mpmi-10-19-0302-r · 2020 · External reference
The MicroRNA miR773 is involved in the arabidopsis immune response to fungal pathogens
10.1094/mpmi-05-17-0108-r · 2018 · External reference
Genome-wide identification of microRNA and siRNA responsive to endophytic beneficial diazotrophic bacteria in maize
10.1186/1471-2164-15-766 · 2014 · External reference
10.1101/gr.080275.108
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Analysis of soybean long non-coding RNAs reveals a subset of small peptide-coding transcripts
10.1104/pp.19.01324 · 2020 · External reference
The specificity of long noncoding RNA expression
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10.1186/s13059-014-0512-1
10.1186/s13059-014-0512-1 · External reference
Genome-wide discovery and characterization of maize long non-coding RNAs
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From trash to luxury: the potential role of plant lncrna in DNA methylation during abiotic stress
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Genome-wide analysis of long non-coding RNAs unveils the regulatory roles in the heat tolerance of Chinese cabbage (Brassica rapa ssp.chinensis)
10.1038/s41598-019-41428-2 · 2019 · External reference
Identification and characterization of long non-coding RNAs involved in osmotic and salt stress in Medicago truncatula using genome-wide high-throughput sequencing
10.1186/s12870-015-0530-5 · 2015 · External reference
10.1371/journal.pone.0098958
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LncRNA TCONS_00021861 is functionally associated with drought tolerance in rice (Oryza sativa L.) via competing endogenous RNA regulation
10.1186/s12870-021-03195-z · 2021 · External reference
The long intergenic noncoding RNA (lincrna) landscape of the soybean genome
10.1104/pp.17.01657 · 2018 · External reference
MCRiceRepGP: a framework for the identification of genes associated with sexual reproduction in rice
10.1111/tpj.14019 · 2018 · External reference
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10.1111/nph.12537 · External reference
Genome-wide identification and functional prediction of novel and fungi-responsive lincRNAs in Triticum aestivum
10.1186/s12864-016-2570-0 · 2016 · External reference
Identification and characterization of wheat long non-protein coding RNAs responsive to powdery mildew infection and heat stress by using microarray analysis and SBS sequencing
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10.1093/nar/gkx428
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10.1093/nar/gkx866
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PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme
10.1186/1471-2105-15-311 · 2014 · External reference
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10.1016/j.csbj.2020.11.030 · External reference
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10.1038/s41576-019-0122-6 · External reference
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Cantatadb 2.0: expanding the collection of plant long noncoding rnas
10.1007/978-1-4939-9045-0_26 · 2019 · External reference
PLncDB V2.0: a comprehensive encyclopedia of plant long noncoding RNAs
10.1093/nar/gkaa910 · 2020 · External reference
10.1093/nar/gkv1215
10.1093/nar/gkv1215 · External reference
GreeNC 2.0: a comprehensive database of plant long non-coding RNAs
2021 · External reference
10.1371/journal.pone.0247215
10.1371/journal.pone.0247215 · External reference
Unresolved reference
External reference
Universal language model fine-tuning for text classification. ArXiv Preprint
2018 · External reference
Attention is all you need
2017 · External reference
10.1093/bioinformatics/btab083
10.1093/bioinformatics/btab083 · External reference
Unresolved reference
External reference
DNA sequences performs as natural language processing by exploiting deep learning algorithm for the identification of N4-methylcytosine
10.1038/s41598-020-80430-x · 2021 · External reference
Predicting transcriptional responses to cold stress across plant species
10.1073/pnas.2026330118 · 2021 · External reference
Unresolved reference
External reference
10.1016/j.molcel.2019.12.015
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10.1016/j.molcel.2014.06.011
10.1016/j.molcel.2014.06.011 · External reference
ELF18-induced long-noncoding RNA associates with mediator to enhance expression of innate immune response genes in arabidopsis
10.1105/tpc.16.00886 · 2017 · External reference
10.1105/tpc.112.102855
10.1105/tpc.112.102855 · External reference
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10.1007/s00018-018-3000-z
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10.1007/978-1-4939-9045-0_26
10.1007/978-1-4939-9045-0_26 · 2019 · External reference
Impact of dataset size and variety on the effectiveness of deep learning and transfer learning for plant disease classification
10.1016/j.compag.2018.08.013 · 2018 · External reference
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10.1038/ng.919 · External reference
Improvement of the Oryza sativa nipponbare reference genome using next generation sequence and optical map data
10.1186/1939-8433-6-4 · 2013 · External reference
10.1073/pnas.1419030111
10.1073/pnas.1419030111 · External reference
10.1016/j.bbagen.2013.10.035
10.1016/j.bbagen.2013.10.035 · External reference
Conservation analysis of long non-coding RNAs in plants
10.1007/s11427-017-9174-9 · 2018 · External reference
Phylogenetic analysis with improved parameters reveals conservation in lncRNA structures
10.1016/j.jmb.2019.03.012 · 2019 · External reference
10.1016/j.celrep.2015.04.023
10.1016/j.celrep.2015.04.023 · External reference
RNAcentral 2021: secondary structure integration, improved sequence search and new member databases
10.1093/nar/gkaa921 · 2021 · External reference
10.1093/nar/gkw1008
10.1093/nar/gkw1008 · External reference
10.1093/nar/gki025
10.1093/nar/gki025 · External reference
EVLncRNAs 2.0: an updated database of manually curated functional long non-coding RNAs validated by low-throughput experiments
10.1093/nar/gkaa1076 · 2021 · External reference
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10.1093/bioinformatics/btq033 · External reference
BLAST+: architecture and applications
10.1186/1471-2105-10-421 · 2009 · External reference
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10.1093/bioinformatics/btp352 · External reference
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