+ Site Statistics
+ Search Articles
+ Subscribe to Site Feeds
Most Shared
PDF Full Text
+ PDF Full Text
Request PDF Full Text
+ Follow Us
Follow on Facebook
Follow on Twitter
Follow on LinkedIn
+ Translate
+ Recently Requested

TAG Sequence Identification of Genomic Regions Using TAGdb

TAG Sequence Identification of Genomic Regions Using TAGdb

Methods in Molecular Biology 1374: 233-240

Second-generation sequencing (SGS) technology has enabled the sequencing of genomes and identification of genes. However, large complex plant genomes remain particularly difficult for de novo assembly. Access to the vast quantity of raw sequence data may facilitate discoveries; however the volume of this data makes access difficult. This chapter discusses the Web-based tool TAGdb that enables researchers to identify paired read second-generation DNA sequence data that share identity with a submitted query sequence. The identified reads can be used for PCR amplification of genomic regions to identify genes and promoters without the need for genome assembly.

(PDF emailed within 1 workday: $29.90)

Accession: 058965202

Download citation: RISBibTeXText

PMID: 26519409

Related references

Targeted identification of genomic regions using TAGdb. Plant Methods 6: 19, 2010

Genomic sequence analysis and SNP identification in genomic regions surrounding genes involved in carcinogenesis. American Journal of Human Genetics 65(4): A129, 1999

Cloning the genomic sequence and identification of promoter regions of bovine pyruvate carboxylase. Journal of Dairy Science 91(1): 91-99, 2007

Identification of genomic regions associated with female fertility in Danish Jersey using whole genome sequence data. Bmc Genetics 16: 60, 2016

Tumor classification and identification of genomic regions of differential gene expression using Comparative Expressed Sequence Hybridization to chromosomes. Proceedings of the American Association for Cancer Research Annual Meeting 43: 682, 2002

Comparative expressed sequence hybridization to chromosomes for tumor classification and identification of genomic regions of differential gene expression. Proceedings of the National Academy of Sciences of the United States of America 98(16): 9197-9202, 2001

The Locus Lookup tool at MaizeGDB: identification of genomic regions in maize by integrating sequence information with physical and genetic maps. Bioinformatics 26(3): 434-436, 2010

CDNA-genomic DNA hybrid sequence encoding APP770 containing a genomic DNA insert of the KI and OX-2 regions. Official Gazette of the United States Patent & Trademark Office Patents 1195(3): 1917, Feb 18, 1997

Identification of a large genomic region in UV-irradiated human cells which has fewer cyclobutane pyrimidine dimers than most genomic regions. Photochemistry & Photobiology. 62(2): 263-270, 1995

Genomic cloning and sequence analyses of the bovine alpha-, beta A- and beta B-inhibin/activin genes. Identification of transcription factor AP-2-binding sites in the 5'-flanking regions by DNase I footprinting. European Journal of Biochemistry 226(3): 751-764, 1994

The human mitochondrial elongation factor Tu gene cDNA sequence, genomic localization, genomic structure, and identification of a pseudogene. American Journal of Human Genetics 59(4 SUPPL ): A154, 1996

Identification of novel biomass-degrading enzymes from genomic dark matter: Populating genomic sequence space with functional annotation. Biotechnology and Bioengineering 111(8): 1550-1565, 2015