BioProfiling.de protocols

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BioProfiling.de specifications

Information


Unique identifier OMICS_12520
Name BioProfiling.de
Interface Web user interface
Restrictions to use None
Input data A gene or a protein list.
Output data A gene list.
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Arabidopsis thaliana
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus

Maintainer


  • person_outline Alexey V. Antonov <>

Publication for BioProfiling.de

BioProfiling.de in pipelines

 (2)
2017
PMCID: 5397728
PMID: 28484645
DOI: 10.1155/2017/6896390

[…] to investigate the main gene ontology (go) functions and the kyoto encyclopedia of genes and genomes (kegg) pathways of degs involved in poag. p value < 0.05 was chosen as the cut-off criterion., bioprofiling.de (http://www.bioprofiling.de/ccancer.html) provides a common interface for a collection of current analytical tools used in genomics, proteomics, and metabolomics studies. […]

2016
PMCID: 5068850
PMID: 27558138
DOI: 10.1534/genetics.116.192328

[…] based on their gene expression profile (in this case, the shape of the gene expression–genotype relationship)., gene ontology (go) enrichment analyses were performed on clustered genes using the bioprofiling.de program (http://bioprofiling.de/) () and the go consortium database (http://geneontology.org/) with the default submission and “drosophila melanogaster” organism selected. the outputs […]


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BioProfiling.de in publications

 (22)
PMCID: 5682677
PMID: 29072691
DOI: 10.1038/cddis.2017.512

[…] samples (). by contrast, a gene signature associated with good survival was enriched in samples with low ped expression (pedlow). in line with these results, survival analysis using data from tcga (bioprofiling.de) revealed a significant worse survival with pedhigh (n=133) tumors in comparison to pedlow tumors (n=112) in a subgroup of patients (n=252) with n0 tumor stage (, p=0.0154). […]

PMCID: 5567886
PMID: 28830458
DOI: 10.1186/s12943-017-0703-y

[…] the prognostic significance of mp1, a survival analysis was performed in high-grade glioma with data from a publicly available clinicogenomics study (gse4271) [] using drugsurv (http://www.bioprofiling.de/cgi-bin/geo/drugsurv/start_gene.pl). as shown in fig. , high lamtor3 expression was largely correlated with poor clinical outcome in 77 patients (p = 0.122). the clinical significance […]

PMCID: 5397728
PMID: 28484645
DOI: 10.1155/2017/6896390

[…] the gene expression omnibus. after screening for the degs using the limma package, enrichment analysis was performed using david. the deg interaction network was constructed using cancer spider at bioprofiling.de. thereafter, deg-related tfs were predicted using transfac, and tf-deg regulatory networks were visualized using cytoscape. results. thirty-one degs were identified including 11 […]

PMCID: 5352145
PMID: 28257468
DOI: 10.1371/journal.ppat.1006260

[…] go analyses were performed using the david algorithm [], [], with the benjamini correction for multiple tests. to identify ensembles of interacting gene products, we used the r-spider program in the bioprofiling.de web portal []). this analysis tool incorporates data for ∼2,000 genes and combines signaling and metabolic pathways from reactome and kyoto encyclopedia of genes and genomes (kegg) […]

PMCID: 5386701
PMID: 28061479
DOI: 10.18632/oncotarget.14470

[…] the stem cell pool is correlated with a more aggressive phenotype, we evaluated whether the up-regulation of mir-24 was associated with bad prognosis and survival. we used mirumir [] (http://www.bioprofiling.de/geo/mirumir/mirumir.html), an online tool that provides an analysis of mirnas as potential biomarkers, to predict survival in cancer patients. we found that high expression of mir-24 […]


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BioProfiling.de institution(s)
Helmholtz Zentrum München - German Research Center for Environmental Health (GmbH), Institute for Bioinformatics and Systems Biology, Neuherberg, Germany
BioProfiling.de funding source(s)
Supported by the Helmholtz Association ‘‘Impuls und Vernetzungsfonds’’ (Systems Biology Alliance).

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