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GabiPD specifications

Information


Unique identifier OMICS_03230
Name GabiPD
Alternative name GABI Primary Database
Restrictions to use None
Maintained Yes

Maintainer


  • person_outline GabiPD

Publication for GABI Primary Database

GabiPD citations

 (52)
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Comparative analysis of the root transcriptomes of cultivated and wild rice varieties in response to Magnaporthe oryzae infection revealed both common and species specific pathogen responses

2018
PMCID: 5910329
PMID: 29679239
DOI: 10.1186/s12284-018-0211-8
call_split See protocol

[…] with the limma package. Principal component analysis (PCA) was conducted using the PCA function in R 3.2.1 with the FactoMineR package. MapMan analysis was conducted using MapMan 3.6.0 (http://mapman.gabipd.org/web/guest) software. […]

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Transcriptomic profiling of tall fescue in response to heat stress and improved thermotolerance by melatonin and 24 epibrassinolide

2018
BMC Genomics
PMCID: 5870388
PMID: 29587632
DOI: 10.1186/s12864-018-4588-y
call_split See protocol

[…] he Classification SuperViewer Tool (http://bar.utoronto.ca/ntools/cgi-bin/ntools_classification_superviewer.cgi) []. The annotated TAIR IDs of each tall fescue gene were loaded. MapMan (http://mapman.gabipd.org/home) [] and and GO (ftp://ftp.arabidopsis.org/home/tair/Ontologies/Gene_Ontology) were used as classification sources for pathway and GO term enrichment analyses, respectively. The normali […]

library_books

Transcriptomic analysis of transgressive segregants revealed the central role of photosynthetic capacity and efficiency in biomass accumulation in sugarcane

2018
Sci Rep
PMCID: 5849761
PMID: 29535363
DOI: 10.1038/s41598-018-22798-5

[…] ld change and FDR corrected p-value < 0.05 were considered to be significantly differentially expressed. Significantly expressed genes were mapped onto bins using the Mercator web tool (http://mapman.gabipd.org/web/guest/app/mercator) and visualized using MapMan. […]

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Comparative Transcriptome Profiles of Near Isogenic Hexaploid Wheat Lines Differing for Effective Alleles at the 2DL FHB Resistance QTL

2018
Front Plant Sci
PMCID: 5797473
PMID: 29434615
DOI: 10.3389/fpls.2018.00037
call_split See protocol

[…] l., )] was performed by importing DESEq2-mormalized data into mapman application.Wheat genes were assigned to mapman bins based on the available wheat mappings file: IWGSP_MIPSv2.2.txt (http://mapman.gabipd.org/web/guest/mapmanstore) upon parsing and adapting ID suffixes in mapman mapping file.For gene onthology (GO) enrichments, the GOSeq bioconductor package (Robinson and Oshlack, ) was used as […]

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Transcriptomic Response of Resistant (PI613981–Malus sieversii) and Susceptible (“Royal Gala”) Genotypes of Apple to Blue Mold (Penicillium expansum) Infection

2017
Front Plant Sci
PMCID: 5696741
PMID: 29201037
DOI: 10.3389/fpls.2017.01981
call_split See protocol

[…] an et al., ). DEGs were classified into MapMan BINs using the Malus × domestica genome, available in Phytozome v9.0, and their annotated functions were visualized using the MapMan tool (http://mapman.gabipd.org/) (Thimm et al., ). […]

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The karrikin receptor KAI2 promotes drought resistance in Arabidopsis thaliana

2017
PLoS Genet
PMCID: 5703579
PMID: 29131815
DOI: 10.1371/journal.pgen.1007076
call_split See protocol

[…] lue) <0.05 were used in identifying the DEGs []. The raw microarray data and detailed protocol were deposited in the Gene Expression Omnibus database (GSE90622). When necessary, MapMan (http://mapman.gabipd.org), or Arabidopsis eFP browser (http://bar.utoronto.ca/efp_arabidopsis/cgi-bin/efpWeb.cgi) were used to analyze the data. […]


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GabiPD institution(s)
GabiPD team, Bioinformatics group, Max Planck Institute of Molecular Plant Physiology, Berlin, Germany

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