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Protocols

SGN specifications

Information


Unique identifier OMICS_02776
Name SGN
Alternative names SOL Genomics Network, solgenomics
Restrictions to use None
Database management system PostgreSQL
Community driven No
User data submission Allowed
Maintained Yes

Maintainer


  • person_outline Lukas Mueller

Publication for SOL Genomics Network

SGN citations

 (97)
library_books

The Sequenced Angiosperm Genomes and Genome Databases

2018
Front Plant Sci
PMCID: 5909171
PMID: 29706973
DOI: 10.3389/fpls.2018.00418

[…] for genome and map viewers, and synteny mappings (Dash et al., ). LIS also supports the bridge between the genomic information and the crop improvement by supplying the Germplasm Resources. Likewise, Sol Genomics Network (solgenomics.net) is a Solanaceae-oriented database containing genome data, genomic tools, and breeders' tools.Other clade-oriented genome databases host <10 genomes (Figure ), su […]

library_books

Classification and phylogenetic analyses of the Arabidopsis and tomato G type lectin receptor kinases

2018
BMC Genomics
PMCID: 5889549
PMID: 29625550
DOI: 10.1186/s12864-018-4606-0

[…] Full-length protein sequences were downloaded as above from TAIR (Arabidopsis), Sol Genomics Network (tomato), Phytozome (columbine), or the Rice Genome Annotation Project (rice) and aligned using MUSCLE on the UCR HPCC cluster []. Eight outgroup protein sequences representing on […]

library_books

Association Study Reveals Novel Genes Related to Yield and Quality of Fruit in Cape Gooseberry (Physalis peruviana L.)

2018
Front Plant Sci
PMCID: 5869928
PMID: 29616069
DOI: 10.3389/fpls.2018.00362

[…] d by r2. Associations were considered significant when p ≤ 0.0001 or LOD scores greater than 4.0. Finally, the biological function of the associated markers was identified in JBrowse environment from Sol Genomics Network (SGN) (Fernandez-Pozo et al., ) using tomato genome version SL2.40 and the ITAG annotation version 2.4. […]

call_split

Silencing SlMED18, tomato Mediator subunit 18 gene, restricts internode elongation and leaf expansion

2018
Sci Rep
PMCID: 5818486
PMID: 29459728
DOI: 10.1038/s41598-018-21679-1
call_split See protocol

[…] The cDNA and protein sequence date of tomato mediator of RNA polymerase II transcription subunit 18 was found in NCBI (http://www.ncbi.nlm.nih.gov/) and Sol Genomics Network (SGN, http://solgenomics.net/). MED18 in Solanum lycopersicum (Sl), Arabidopsis thaliana (At), Oryza sativa (Os), Solanum tuberosum (St), Zea mays (Zm), Saccharomyces. cerevisiae […]

library_books

Nicotiana glauca whole genome investigation for cT DNA study

2018
BMC Res Notes
PMCID: 5766994
PMID: 29329601
DOI: 10.1186/s13104-018-3127-x

[…] To identify the location of the N. glauca cT-DNA insertion relative to the N. tabacum genome, we mapped all N. glauca scaffolds to N. tabacum scaffolds downloaded from the Sol Genomics Network []. To increase accuracy of alignment we masked all known plant repeat classes and their homologs in the N. glauca genome. For repeat identification, we used the RepeatMasker soft […]

library_books

Reference quality assembly of the 3.5 Gb genome of Capsicum annuum from a single linked read library

2018
PMCID: 5798813
PMID: 29423234
DOI: 10.1038/s41438-017-0011-0

[…] nce of 22 bp, and largest distance of 393 Kb. For the purpose of generating a reference assembly, a single pseudohap was utilized and the corresponding haplotype for each contig is available from the SOL Genomics Network database (https://solgenomics.net). The pseudohap1 assembly, hereby referred to as the assembly, contained 83,391 scaffold sequences with an N50 of 3.69 Mb for a total assembly si […]

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SGN institution(s)
Boyce Thompson Institute for Plant Research, Tower Road, Ithaca, NY, USA
SGN funding source(s)
Supported by the National Science Foundation (NSF), the United States Department of Agriculture (USDA) and ATC Inc (Advanced Technologies, Cambridge).

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