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FIDEA specifications


Unique identifier OMICS_01539
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for FIDEA

FIDEA citations


FUS Mutant Human Motoneurons Display Altered Transcriptome and microRNA Pathways with Implications for ALS Pathogenesis

Stem Cell Reports
PMCID: 5830977
PMID: 28988989
DOI: 10.1016/j.stemcr.2017.09.004

[…] whether the change in the transcriptome detected in FUS mutant cells might be informative of pathways potentially involved in ALS MN degeneration. Gene ontology (GO) term enrichment analysis with the FIDEA tool () highlighted relevant categories that cooperate in pathways and distinct molecular functions. In particular, we noticed a striking enrichment for categories related to cell adhesion in ge […]


RBM10 promotes transformation associated processes in small cell lung cancer and is directly regulated by RBM5

PLoS One
PMCID: 5491171
PMID: 28662214
DOI: 10.1371/journal.pone.0180258

[…] performed pathway analyses. To ensure the validity of our results, as for the RIP-Seq data analyses, two different pathway analysis programs were used, each with their own database. We began with the FIDEA Program and the KEGG Database. With these tools, that group genes based on molecular interactions, we identified four enriched pathways (). The only upregulated pathway upon RBM10KD was ‘Axon gu […]


Genome wide identification of direct HBx genomic targets

BMC Genomics
PMCID: 5316204
PMID: 28212627
DOI: 10.1186/s12864-017-3561-5
call_split See protocol

[…] All protein-coding genes with putative HBx binding sites (promoters or intragenic) were analysed by DAVID [] and FIDEA [] web servers using KEGG [] and Reactome pathways [, ], the InterPro families [] and the Gene Ontology (GO) Biological Processes []. Only biological terms with Benjamini-corrected p-value < 0.0 […]


Disrupting Hepatocyte Cyp51 from Cholesterol Synthesis Leads to Progressive Liver Injury in the Developing Mouse and Decreases RORC Signalling

Sci Rep
PMCID: 5241696
PMID: 28098217
DOI: 10.1038/srep40775

[…] C targets. Moreover, 105 genes from this list were positive for RORC binding based on Chip-seq results by Takeda et al. and a further 49 differentially expressed (mostly downregulated) in runts (, ). FIDEA showed that these genes are primarily involved amino acid metabolism ( and 7). […]


RBM5 reduces small cell lung cancer growth, increases cisplatin sensitivity and regulates key transformation associated pathways

PMCID: 5133678
PMID: 27957556
DOI: 10.1016/j.heliyon.2016.e00204

[…] orrelated (r = 0.9699 in untreated samples and r = 0.9813 in cisplatin treated samples), and thus both controls were combined into one experimental group.Pathway enrichment was investigated using the FIDEA (Functional Interpretation of Differential Expression Analysis) program () with the KEGG database (; ). Pathway analysis was also performed using GSAASeqSP (Gene Set Association Analysis for RNA […]


Regulated Inflammation and Lipid Metabolism in Colon mRNA Expressions of Obese Germfree Mice Responding to Enterobacter cloacae B29 Combined with the High Fat Diet

Front Microbiol
PMCID: 5099522
PMID: 27877172
DOI: 10.3389/fmicb.2016.01786
call_split See protocol

[…] ff (). Genes and transcripts whose |log2 (FoldChange)|≥ 1 and adjusted p-value < 0.05 (FDR adjusted with Benjamini–Hochberg) were picked as significant ones.The enrichment analysis was performed with FIDEA (), and both up-regulated and down-regulated genes were considered. A threshold of 0.05 for q-value (FDR adjusted with Benjamini–Hochberg) was used to select significant enriched GO and pathway […]


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FIDEA institution(s)
Department of Physics, Sapienza University, Rome, Italy

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