REXdb
REXdb: a reference database of transposable element protein domains
Description
More detailed information about this field from each metasource.
REXdb: a reference database of transposable element protein domains
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:12.178249
Webpage:
http://repeatexplorer.org/?page_id=918Webpage
More detailed information about this field from each metasource.
http://repeatexplorer.org/?page_id=918
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:27:12.178249
Licence:
Name: Not licensedLicence name
More detailed information about this field from each metasource.
Publications:
Publications
More detailed information about this field from each metasource.
Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification
PMID: 30622655
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:12.178249
Publications
More detailed information about this field from each metasource.
Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification
PMID: 30622655
metasource: bio.tools
version: extracted_at: 2022-11-04T11:27:12.178249
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Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification
PubMed citations: 56.
56 articles citing: Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification
A beginner's guide to manual curation of transposable elements. PMID:35354491
DARTS: An Algorithm for Domain-Associated Retrotransposon Search in Genome Assemblies. PMID:35052350
Centromere-Specific Retrotransposons and Very-Long-Chain Fatty Acid Biosynthesis in the Genome of Yellowhorn (Xanthoceras sorbifolium, Sapindaceae), an Oil-Producing Tree With Significant Drought Resistance. PMID:34880890
The Dynamism of Transposon Methylation for Plant Development and Stress Adaptation. PMID:34768817
A chromosome-level genome sequence of Chrysanthemum seticuspe, a model species for hexaploid cultivated chrysanthemum. PMID:34620992
Comparative Analysis of Transposable Elements in Genus Calliptamus Grasshoppers Revealed That Satellite DNA Contributes to Genome Size Variation. PMID:34564277
Genome Size Doubling Arises From the Differential Repetitive DNA Dynamics in the Genus Heloniopsis (Melanthiaceae). PMID:34552621
Differentially Amplified Repetitive Sequences Among Aegilops tauschii Subspecies and Genotypes. PMID:34490015
Chromosome-scale assembly and evolution of the tetraploid Salvia splendens (Lamiaceae) genome. PMID:34465761
The Genomics of Plant Satellite DNA. PMID:34386874
Haplotype-resolved genome assembly and allele-specific gene expression in cultivated ginger. PMID:34354050
Comparative Repeat Profiling of Two Closely Related Conifers (Larix decidua and Larix kaempferi) Reveals High Genome Similarity With Only Few Fast-Evolving Satellite DNAs. PMID:34322154
A comprehensive annotation dataset of intact LTR retrotransposons of 300 plant genomes. PMID:34267227
Genome-wide characterization of LTR retrotransposons in the non-model deep-sea annelid Lamellibrachia luymesi. PMID:34157969
Full-length LTR retroelements in Capsicum annuum revealed a few species-specific family bursts with insertional preferences. PMID:34086192
Widespread Exaptation of L1 Transposons for Transcription Factor Binding in Breast Cancer. PMID:34070697
K-mer-based machine learning method to classify LTR-retrotransposons in plant genomes. PMID:34055489
Aiming off the target: recycling target capture sequencing reads for investigating repetitive DNA. PMID:34050647
LTR-retrotransposon dynamics in common fig (Ficus carica L.) genome. PMID:34000996
Complex sequence organization of heterochromatin in the holocentric plant Cuscuta europaea elucidated by the computational analysis of nanopore reads. PMID:33995911
Large vs small genomes in Passiflora: the influence of the mobilome and the satellitome. PMID:33792791
DNA Modification Patterns within the Transposable Elements of the Fig (Ficus carica L.) Genome. PMID:33673593
Transcriptional activity of transposable elements along an elevational gradient in Arabidopsis arenosa. PMID:33639991
Tau: Enabler of diverse brain disorders and target of rapidly evolving therapeutic strategies. PMID:33632820
Chromosome-scale assembly of the genome of Salix dunnii reveals a male-heterogametic sex determination system on chromosome 7. PMID:33609314
InpactorDB: A Classified Lineage-Level Plant LTR Retrotransposon Reference Library for Free-Alignment Methods Based on Machine Learning. PMID:33525408
Transposable Elements and Teleost Migratory Behaviour. PMID:33435333
GC and Repeats Profiling along Chromosomes-The Future of Fish Compositional Cytogenomics. PMID:33396302
Nanopore RNA Sequencing Revealed Long Non-Coding and LTR Retrotransposon-Related RNAs Expressed at Early Stages of Triticale SEED Development. PMID:33348863
Genomic and Transcriptomic Survey Provides New Insight into the Organization and Transposition Activity of Highly Expressed LTR Retrotransposons of Sunflower (Helianthus annuus L.). PMID:33297579
Characterization and Dynamics of Repeatomes in Closely Related Species of Hieracium (Asteraceae) and Their Synthetic and Apomictic Hybrids. PMID:33224172
Chromosome-scale genome assembly for the duckweed Spirodela intermedia, integrating cytogenetic maps, PacBio and Oxford Nanopore libraries. PMID:33154426
A Field Guide to Eukaryotic Transposable Elements. PMID:32955944
TIP_finder: An HPC Software to Detect Transposable Element Insertion Polymorphisms in Large Genomic Datasets. PMID:32917036
A high-contiguity Brassica nigra genome localizes active centromeres and defines the ancestral Brassica genome. PMID:32782408
Structural and Functional Annotation of Transposable Elements Revealed a Potential Regulation of Genes Involved in Rubber Biosynthesis by TE-Derived siRNA Interference in Hevea brasiliensis. PMID:32545790
Additional ORFs in Plant LTR-Retrotransposons. PMID:32528484
What Can Long Terminal Repeats Tell Us About the Age of LTR Retrotransposons, Gene Conversion and Ectopic Recombination? PMID:32508870
Extraordinary Sequence Diversity and Promiscuity of Centromeric Satellites in the Legume Tribe Fabeae. PMID:32259249
The sterlet sturgeon genome sequence and the mechanisms of segmental rediploidization. PMID:32231327
Low Long Terminal Repeat (LTR)-Retrotransposon Expression in Leaves of the Marine Phanerogam Posidonia Oceanica L. PMID:32213979
On the Trail of Tetu1: Genome-Wide Discovery of CACTA Transposable Elements in Sunflower Genome. PMID:32188063
Genome relationships and LTR-retrotransposon diversity in three cultivated Capsicum L. (Solanaceae) species. PMID:32183698
High-quality genome sequence of white lupin provides insight into soil exploration and seed quality. PMID:31980615
A systematic review of the application of machine learning in the detection and classification of transposable elements. PMID:31976169
A computational genome-wide analysis of long terminal repeats retrotransposon expression in sunflower roots (Helianthus annuus L.). PMID:31960179
Genome Evolution in Arabideae Was Marked by Frequent Centromere Repositioning. PMID:31919297
Nested plant LTR retrotransposons target specific regions of other elements, while all LTR retrotransposons often target palindromes and nucleosome-occupied regions: in silico study. PMID:31871489
The Terrestrial Carnivorous Plant Utricularia reniformis Sheds Light on Environmental and Life-Form Genome Plasticity. PMID:31861318
Reprogramming of Retrotransposon Activity during Speciation of the Genus Citrus. PMID:31710678
Evolutionary convergence or homology? Comparative cytogenomics of Caesalpinia group species (Leguminosae) reveals diversification in the pericentromeric heterochromatic composition. PMID:31696317
Diversity, dynamics and effects of long terminal repeat retrotransposons in the model grass Brachypodium distachyon. PMID:31677277
Characterization of repeat arrays in ultra-long nanopore reads reveals frequent origin of satellite DNA from retrotransposon-derived tandem repeats. PMID:31559657
Retrotransposons in Plant Genomes: Structure, Identification, and Classification through Bioinformatics and Machine Learning. PMID:31390781
The large genome size variation in the Hesperis clade was shaped by the prevalent proliferation of DNA repeats and rarer genome downsizing. PMID:31220201
The Repetitive DNA Composition in the Natural Pesticide Producer Tanacetum cinerariifolium: Interindividual Variation of Subtelomeric Tandem Repeats. PMID:31156676
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