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Protocols

dbGSS specifications

Information


Unique identifier OMICS_27148
Name dbGSS
Alternative names database of Genome Survey Sequences, GSS
Restrictions to use None
Community driven No
Data access File download, Browse
User data submission Allowed
Maintained Yes

Additional information


https://www.ncbi.nlm.nih.gov/dbGSS/

dbGSS citations

 (7)
library_books

Horizontal transfer of a non autonomous Helitron among insect and viral genomes

2015
BMC Genomics
PMCID: 4344730
PMID: 25766741
DOI: 10.1186/s12864-015-1318-6

[…] ,]. In this instance, the MITE01 and BmHel-2 Helitron sequences were used as queries to search the non-redundant (nr) nucleotide database (nr), expressed sequence tag (dbEST), genome survey sequence (dbGSS), high throughput genome sequence (HTGS), and transcriptome sequence assembly (TSA) databases housed at the National Center for Biotechnology Information (NCBI). Query of whole genome sequences […]

library_books

search GenBank: interactive orchestration and ad hoc choreography of Web services in the exploration of the biomedical resources of the National Center For Biotechnology Information

2013
BMC Bioinformatics
PMCID: 3602006
PMID: 23452691
DOI: 10.1186/1471-2105-14-73

[…] have prepared a representative form of their records):- Nucleotide – the main database of nucleotide sequences (including GenBank),- dbEST[] – the database of EST sequences (Expressed Sequence Tag),- dbGSS[] – the database of GSS sequences (Genome survey sequence),- Genome – representing completely sequenced organisms and those for which sequencing is in progress,- PopSet – the database of sequenc […]

library_books

Distribution of Genes and Repetitive Elements in the Diabrotica virgifera virgifera Genome Estimated Using BAC Sequencing

2012
PMCID: 3420361
PMID: 22919272
DOI: 10.1155/2012/604076

[…] coverage at 95 and 99% probability thresholds, resp.).Paired end sequencing of 1152 DvvBAC1 clones generated 2304 raw reads, of which 2156 produced high quality sequence data (PHRED scores ≥20; NCBI dbGSS; accessions JM104642–JM106797). Paired BAC end sequence (BES) data was obtained from 1037 of the 1152 clones (90.0%). Filtering for reads >100 bp resulted in 1999 sequences averaging 579.0 ± 141 […]

library_books

Analysis of a viral metagenomic library from 200 m depth in Monterey Bay, California constructed by direct shotgun cloning

2011
Virol J
PMCID: 3128862
PMID: 21651822
DOI: 10.1186/1743-422X-8-287

[…] nucleotide and protein databases using blastx and tblastx algorithms [version 2.2.18; []]. Sequences have been deposited in the Genome Survey Sequence Database of GenBank http://www.ncbi.nlm.nih.gov/dbGSS/, with accession numbers [GenBank:JJ725428 to JJ726334].The tblastx algorithm was used to query the nucleotide collection (nr/nt), genomic survey sequences (GSS), and environmental sample (env_n […]

call_split

In planta gene expression analysis of Xanthomonas oryzae pathovar oryzae, African strain MAI1

2010
BMC Microbiol
PMCID: 2893596
PMID: 20540733
DOI: 10.1186/1471-2180-10-170
call_split See protocol

[…] w-quality sequences and to assemble sequences into a non-redundant set of sequences []. The Xoo MAI1 non-redundant set of sequences was deposited at GenBank's GSS Database http://www.ncbi.nlm.nih.gov/dbGSS/[], under accession numbers FI978231-FI978329.Processed sequences were initially searched against the NCBI database with BLASTN and TBLASTX http://blast.ncbi.nlm.nih.gov/Blast.cgi[], setting BLA […]

library_books

Detection and validation of single feature polymorphisms in cowpea (Vigna unguiculata L. Walp) using a soybean genome array

2008
BMC Genomics
PMCID: 2270837
PMID: 18307807
DOI: 10.1186/1471-2164-9-107

[…] robe) and cowpea sequence using AlignX (Invitrogen, USA). Comparisons of nucleotide sequence similarity were displayed using GeneDoc []. Cowpea genomic amplicon sequences have been deposited into the dbGSS Data Library [GenBank: ET041523 to ET041556]. […]

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