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GOSlimViewer specifications

Information


Unique identifier OMICS_02270
Name GOSlimViewer
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for GOSlimViewer

GOSlimViewer citations

 (35)
library_books

Long non coding RNAs of switchgrass (Panicum virgatum L.) in multiple dehydration stresses

2018
BMC Plant Biol
PMCID: 5936019
PMID: 29728055
DOI: 10.1186/s12870-018-1288-3

[…] tabase, and the Rice Genome Annotation Project (RGAP) release 7. All target genes and differentially expressed target genes were analyzed. Gene ontology (GO) was analyzed using AgBase GORetriever and GOSlimViewer [], and enriched pathways were identified using NCBI Flink (https://www.ncbi.nlm.nih.gov/Structure/flink/flink.cgi) based on KEGG (Kyoto Encyclopedia of Genes and Genomes) databases. Spec […]

library_books

Transcriptional and physiological data reveal the dehydration memory behavior in switchgrass (Panicum virgatum L.)

2018
Biotechnol Biofuels
PMCID: 5879616
PMID: 29619087
DOI: 10.1186/s13068-018-1088-x

[…] e Proteins database (release TAIR10), the maize B73 RefGen_v3 database, and the Rice Genome Annotation Project (RGAP) release 7. Gene Ontology (GO) analysis was performed using AgBase GORetriever and GOSlimViewer [], and pathways were enriched using the NCBI Flink (https://www.ncbi.nlm.nih.gov/Structure/flink/flink.cgi) and KEGG (Kyoto Encyclopedia of Genes and Genomes) databases. Specific pathway […]

call_split

Aspergillus flavus infection triggered immune responses and host pathogen cross talks in groundnut during in vitro seed colonization

2017
Sci Rep
PMCID: 5574979
PMID: 28851929
DOI: 10.1038/s41598-017-09260-8
call_split See protocol

[…] 2 and ≤ − 2 (up- and down-regulated) with significance level ‘yes’ were considered for DEGs.Functional categorization of the DEGs was studied using GoSlim (http://www.agbase.msstate.edu/cgi-bin/tools/goslimviewer_select.pl) while gene ontology (GO) terms were assigned to the expressed genes and assignment of KEGG pathways was carried out using Blast2GO. DiffCoEx analysis method was used to identif […]

library_books

Development of an Efficient Protein Extraction Method Compatible with LC MS/MS for Proteome Mapping in Two Australian Seagrasses Zostera muelleri and Posidonia australis

2017
Front Plant Sci
PMCID: 5559503
PMID: 28861098
DOI: 10.3389/fpls.2017.01416

[…] llular localization of the proteins was assigned using Plant-mLoc (http://www.csbio.sjtu.edu.cn/bioinf/plant-multi/) and manually translated to Gene Ontology terms. GO terms were summarized using the GOSlimViewer tool included in AgBase based on the Plant GOSlim set (McCarthy et al., ). […]

call_split

A novel bZIP protein, Gsb1, is required for oxidative stress response, mating, and virulence in the human pathogen Cryptococcus neoformans

2017
Sci Rep
PMCID: 5481450
PMID: 28642475
DOI: 10.1038/s41598-017-04290-8
call_split See protocol

[…] M. The processed RNA-seq ORFs were matched with 4,296 annotated gene products from GOProfiler (https://omictools.com/goprofiler-tool) for taxonomy 235443 C. neoformans var. grubii H99 and analyzed by GOSlimViewer using the Generic GOSlim Set developed by the GO Consortium. Gene ontology (GO) analysis was performed using tools by AgBase. Processed data were deposited in the Gene Expression Omnibus […]

library_books

Hybridization and polyploidy enable genomic plasticity without sex in the most devastating plant parasitic nematodes

2017
PLoS Genet
PMCID: 5465968
PMID: 28594822
DOI: 10.1371/journal.pgen.1006777

[…] ion using the pfam2go mapping file maintained at the gene ontology portal and generated from the InterPro2GO mapping []. Gene ontology terms were also mapped on the generic GO-slim ontology using the GOSlimViewer utility developed as part of AgBase []. […]

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GOSlimViewer institution(s)
Department of Basic Sciences, College of Veterinary Medicine, Mississippi State University, Mississippi State, MS, USA

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