ArticleNucleic acids research2009
AutoSNPdb: an annotated single nucleotide polymorphism database for crop plants.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
20 citing papers in PubMed.
- Genome-Wide Association Study for Nodule Traits in Guar.Current issues in molecular biology · 2025Article
- Rhodophyta DNA Barcoding: Ribulose-1, 5-Bisphosphate Carboxylase Gene and Novel Universal Primers.International journal of molecular sciences · 2023Article
- High-Throughput Genotyping Technologies in Plant Taxonomy.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Functional Markers for Precision Plant Breeding.International journal of molecular sciences · 2020Review
- Genetic Analysis of High Protein Content in 'AC Proteus' Related Soybean Populations Using SSR, SNP, DArT and DArTseq Markers.Scientific reports · 2019Article
- A user guide to the Brassica 60K Illumina Infinium™ SNP genotyping array.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2017Review
- Gene set based association analyses for the WSSV resistance of Pacific white shrimp Litopenaeus vannamei.Scientific reports · 2017Article
- Transcriptome Characterization and Functional Marker Development in Sorghum Sudanense.PloS one · 2016Article
- NABIC SNP: an integrated database for SNP markers.Bioinformation · 2015Article
- CicArVarDB: SNP and InDel database for advancing genetics research and breeding applications in chickpea.Database : the journal of biological databases and curation · 2015Article
- Review
- Article
- Accessing complex crop genomes with next-generation sequencing.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2013Review
- Article
- Identification of SNPs in RNA-seq data of two cultivars of Glycine max (soybean) differing in drought resistance.Genetics and molecular biology · 2012Article
- SNiPlay: a web-based tool for detection, management and analysis of SNPs. Application to grapevine diversity projects.BMC bioinformatics · 2011Article
- A high-throughput data mining of single nucleotide polymorphisms in Coffea species expressed sequence tags suggests differential homeologous gene expression in the allotetraploid Coffea arabica.Plant physiology · 2010Article
- Article
- Epistasis: obstacle or advantage for mapping complex traits?PloS one · 2010Article
- An integrated database to enhance the identification of SNP markers for rice.Bioinformation · 2009Article
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single nucleotide polymorphisms (SNPs) may be considered the ultimate genetic marker as they represent the finest resolution of a DNA sequence (a single nucleotide), are generally abundant in populations and have a low mutation rate. Analysis of assembled EST sequence data provides a cost-effective means to identify large numbers of SNPs associated with functional genes. We have developed an integrated SNP discovery pipeline, which identifies SNPs from assembled EST sequences. The results are maintained in a custom relational database along with EST source and annotation information. The current database hosts data for the important crops rice, barley and Brassica. Users may rapidly identify polymorphic sequences of interest through BLAST sequence comparison, keyword searches of annotations derived from UniRef90 and GenBank comparisons, GO annotations or in genes corresponding to syntenic regions of reference genomes. In addition, SNPs between specific varieties may be identified for targeted mapping and association studies. SNPs are viewed using a user-friendly graphical interface. The database is freely accessible at http://autosnpdb.qfab.org.au/.
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Registered trials
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.