ArticlePlant physiology2009
TriFLDB: a database of clustered full-length coding sequences from Triticeae with applications to comparative grass genomics.
Article in Plant physiology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed, 99 citations in OpenAlex.
- A telomere-to-telomere genome assembly coupled with multi-omic data provides insights into the evolution of hexaploid bread wheat.Nature genetics · 2025Article
- Regulation of Seed Dormancy Genes in Triticeae Species.Methods in molecular biology (Clifton, N.J.) · 2024Article
- TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools.Genome biology · 2019Article
- Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm.BMC genomics · 2019Article
- An efficient approach for the development of genome-specific markers in allohexaploid wheat (Triticum aestivum L.) and its application in the construction of high-density linkage maps of the D genome.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
- Article
- Fine mapping of the stem rust resistance gene SrTA10187.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2016Article
- Extensive sequence divergence between the reference genomes of two elite indica rice varieties Zhenshan 97 and Minghui 63.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Gene Overexpression Resources in Cereals for Functional Genomics and Discovery of Useful Genes.Frontiers in plant science · 2016Review
- Bioinformatic Analyses of Subgroup-A Members of the Wheat bZIP Transcription Factor Family and Functional Identification ofFrontiers in plant science · 2016Article
- Differential Regulation of Genes Coding for Organelle and Cytosolic ClpATPases under Biotic and Abiotic Stresses in Wheat.Frontiers in plant science · 2016Article
- Single-molecule real-time transcript sequencing facilitates common wheat genome annotation and grain transcriptome research.BMC genomics · 2015Article
- A high-resolution physical map integrating an anchored chromosome with the BAC physical maps of wheat chromosome 6B.BMC genomics · 2015Article
- Temporal transcriptome profiling reveals expression partitioning of homeologous genes contributing to heat and drought acclimation in wheat (Triticum aestivum L.).BMC plant biology · 2015Article
- New insights into the wheat chromosome 4D structure and virtual gene order, revealed by survey pyrosequencing.Plant science : an international journal of experimental plant biology · 2015Article
- Pistillody mutant reveals key insights into stamen and pistil development in wheat (Triticum aestivum L.).BMC genomics · 2015Article
- A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome.Genome biology · 2015Article
- Article
- Cloning and molecular characterization of a flavin-dependent oxidoreductase gene from barley.Journal of applied genetics · 2014Article
- Development of a wheat single gene FISH map for analyzing homoeologous relationship and chromosomal rearrangements within the Triticeae.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2014Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The Triticeae Full-Length CDS Database (TriFLDB) contains available information regarding full-length coding sequences (CDSs) of the Triticeae crops wheat (Triticum aestivum) and barley (Hordeum vulgare) and includes functional annotations and comparative genomics features. TriFLDB provides a search interface using keywords for gene function and related Gene Ontology terms and a similarity search for DNA and deduced translated amino acid sequences to access annotations of Triticeae full-length CDS (TriFLCDS) entries. Annotations consist of similarity search results against several sequence databases and domain structure predictions by InterProScan. The deduced amino acid sequences in TriFLDB are grouped with the proteome datasets for Arabidopsis (Arabidopsis thaliana), rice (Oryza sativa), and sorghum (Sorghum bicolor) by hierarchical clustering in stepwise thresholds of sequence identity, providing hierarchical clustering results based on full-length protein sequences. The database also provides sequence similarity results based on comparative mapping of TriFLCDSs onto the rice and sorghum genome sequences, which together with current annotations can be used to predict gene structures for TriFLCDS entries. To provide the possible genetic locations of full-length CDSs, TriFLCDS entries are also assigned to the genetically mapped cDNA sequences of barley and diploid wheat, which are currently accommodated in the Triticeae Mapped EST Database. These relational data are searchable from the search interfaces of both databases. The current TriFLDB contains 15,871 full-length CDSs from barley and wheat and includes putative full-length cDNAs for barley and wheat, which are publicly accessible. This informative content provides an informatics gateway for Triticeae genomics and grass comparative genomics. TriFLDB is publicly available at http://TriFLDB.psc.riken.jp/.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.