Reference health
Genomic tools for durum wheat breeding: de novo assembly of Svevo transcriptome and SNP discovery in elite germplasm
63/63 checkable references clean · checked 2026-07-22
Every reference with a DOI in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a retraction, withdrawal, or removal notice.
2 without a DOI — not checked. A reference deposited without a DOI is never matched by title or guessed at; it stays outside the checked set, and this line discloses that.
The 63 checked references that resolve
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Genome Plasticity a Key Factor in the Success of Polyploid Wheat Under Domestication
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Assessing genetic diversity of wheat (Triticum aestivum L.) germplasm using microsatellite markers
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Megabase Level Sequencing Reveals Contrasted Organization and Evolution Patterns of the Wheat Gene and Transposable Element Spaces
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Grinding up Wheat: A Massive Loss of Nucleotide Diversity Since Domestication
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Organization and evolution of transposable elements along the bread wheat chromosome 3B
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Disentangling homeologous contigs in allo-tetraploid assembly: application to durum wheat
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TriFLDB: A Database of Clustered Full-Length Coding Sequences from Triticeae with Applications to Comparative Grass Genomics
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A chromosome-based draft sequence of the hexaploid bread wheat (
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Wild emmer genome architecture and diversity elucidate wheat evolution and domestication
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Single nucleotide polymorphism (SNP) discovery in the polyploid <i>Brassica napus</i> using Solexa transcriptome sequencing
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A hybrid next generation transcript sequencing-based approach to identify allelic and homeolog-specific single nucleotide polymorphisms in allotetraploid white clover
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Characterization of polyploid wheat genomic diversity using a high‐density 90 000 single nucleotide polymorphism array
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Quantitative Trait Loci for Grain Yield and Adaptation of Durum Wheat (<i>Triticum durum</i> Desf.) Across a Wide Range of Water Availability
resolves10.1007/s11032-004-7012-z
Population structure and long-range linkage disequilibrium in a durum wheat elite collection
resolves10.1038/nbt.1883
Full-length transcriptome assembly from RNA-Seq data without a reference genome
resolves10.1093/molbev/msp188
Benchmarking Next-Generation Transcriptome Sequencing for Functional and Evolutionary Genomics
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Optimizing de novo transcriptome assembly from short-read RNA-Seq data: a comparative study
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Construction of a full-length cDNA library from young spikelets of hexaploid wheat and its characterization by large-scale sequencing of expressed sequence tags
resolves10.1186/1471-2164-13-247
Use of mRNA-seq to discriminate contributions to the transcriptome from the constituent genomes of the polyploid crop species Brassica napus
resolves10.1186/s12870-014-0380-6
Western white pine SNP discovery and high-throughput genotyping for breeding and conservation applications
resolves10.1016/j.dib.2015.06.016
Construction of Brassica A and C genome-based ordered pan-transcriptomes for use in rapeseed genomic research
resolves10.1186/s13059-015-0601-9
Deep transcriptome sequencing provides new insights into the structural and functional organization of the wheat genome
resolves10.1186/s12864-015-2257-y
Single-molecule real-time transcript sequencing facilitates common wheat genome annotation and grain transcriptome research
resolves10.1371/journal.pone.0045520
High-Density SNP Genotyping of Tomato (Solanum lycopersicum L.) Reveals Patterns of Genetic Variation Due to Breeding
resolves10.1186/1471-2164-15-299
Identification and characterization of transcript polymorphisms in soybean lines varying in oil composition and content
resolves10.14348/molcells.2014.2241
Genome-Wide SNP Calling Using Next Generation Sequencing Data in Tomato
resolves10.1186/1471-2148-13-169
SNP-revealed genetic diversity in wild emmer wheat correlates with ecological factors
resolves10.1007/s00122-014-2380-1
Analysis of agronomic and domestication traits in a durum × cultivated emmer wheat population using a high-density single nucleotide polymorphism-based linkage map
resolves10.1111/pbi.12288
A high‐density, <scp>SNP</scp>‐based consensus map of tetraploid wheat as a bridge to integrate durum and bread wheat genomics and breeding
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Molecular Characterization of a Diagnostic DNA Marker for Domesticated Tetraploid Wheat Provides Evidence for Gene Flow from Wild Tetraploid Wheat to Hexaploid Wheat
resolves10.1534/genetics.104.029553
Estimation of Long-Term Effective Population Sizes Through the History of Durum Wheat Using Microsatellite Data
resolves10.1038/s41586-018-0108-0
Genome sequence of the progenitor of wheat A subgenome Triticum urartu
resolves10.1038/nature24486
Genome sequence of the progenitor of the wheat D genome Aegilops tauschii
resolves10.1093/bioinformatics/btp579
Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data
resolves10.1111/pbi.12486
Genome distribution of differential homoeologue contributions to leaf gene expression in bread wheat
resolves10.1101/gr.074492.107
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resolves10.1093/bioinformatics/bts094
<i>Oases:</i>robust<i>de novo</i>RNA-seq assembly across the dynamic range of expression levels
resolves10.1093/bioinformatics/btv351
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
resolves10.1093/database/bat014
dbWFA: a web-based database for functional annotation of Triticum aestivum transcripts
resolves10.1093/nar/gkr292
BAR-PLUS: the Bologna Annotation Resource Plus for functional and structural annotation of protein sequences
resolves10.1145/2504729
Extended and Robust Protein Sequence Annotation over Conservative Nonhierarchical Clusters
resolves10.1093/bioinformatics/bti610
Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
resolves10.1038/ng.806
A framework for variation discovery and genotyping using next-generation DNA sequencing data
resolves10.1093/bioinformatics/btn298
HapCUT: an efficient and accurate algorithm for the haplotype assembly problem
resolves10.1093/bioinformatics/btp324
Fast and accurate short read alignment with Burrows–Wheeler transform
resolves10.1007/s11032-014-0177-1
Association mapping for root architectural traits in durum wheat seedlings as related to agronomic performance
resolves10.1126/science.aar7191
Shifting the limits in wheat research and breeding using a fully annotated reference genome
resolves10.1093/bioinformatics/btm091
Enhancements and modifications of primer design program Primer3
resolves10.1007/s00425-010-1290-y
Identification of suitable reference genes for normalization of qPCR data in comparative transcriptomics analyses in the Triticeae
resolves10.1073/pnas.1706277114
Identification and characterization of
<i>Sr13</i>
, a tetraploid wheat gene that confers resistance to the Ug99 stem rust race group
The 2 references without a DOI — listed, not checked
no DOI — not checkedVan der Auwera GA, Carneiro M, Hartl C, Poplin R, del Angel G, Levy-Moonshine A, Jordan T, Shakir K, Roazen D, Thibault J, Banks E, Garimella K, Altshuler D, Gabriel S, DePristo M. From FastQ data to high-confidence variant calls: the genome analysis toolkit best practices pipeline. Curr Protoc Bioinformatics. 2013;43:11.10.1–11.10.33.
no DOI — not checkedAnders S. Package ‘DESeq’. 2018.
http://bioconductor.org/packages/release/bioc/manuals/DESeq/man/DESeq.pdf
. Accessed 10 Mar 2018.
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