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AmiCa [Elektronski vir] : atlas of miRNA-gene correlations in cancerHauptman, Nina ; Pižem, Jože ; Jevšinek Skok, DašaThe increasing availability of RNA sequencing data has opened up numerous opportunities to analyze various RNA interactions, including microRNA-target interactions (MTIs). In response to the ... necessity for a specialized tool to study MTIs in cancer and normal tissues, we developed AmiCa (https://amica.omics.si/), a web server designed for comprehensive analysis of mature microRNA (miRNA) and gene expression in 32 cancer types. Data from 9498 tumor samples and 626 normal samples from The Cancer Genome Atlas were obtained through the Genomic Data Commons and used to calculate differential expression and miRNA-target gene (MTI) correlations. AmiCa provides data on differential expression of miRNAs/genes for cancers for which normal tissue samples were available. In addition, the server calculates and presents correlations separately for tumor and normal samples for cancers for which normal samples are available. Furthermore, it enables the exploration of miRNA/gene expression in all cancer types with different miRNA/gene expression. In addition, AmiCa includes a ranking system for genes and miRNAs that can be used to identify those that are particularly highly expressed in certain cancers compared to other cancers, facilitating targeted and cancer-specific research. Finally, the functionality of AmiCa is illustrated by two case studies.Source: Computational and Structural Biotechnology Journal [Elektronski vir]. - ISSN 2001-0370 (Vol. 23, 2024, str. 2277-2288)Type of material - e-article ; adult, seriousPublish date - 2024Language - englishCOBISS.SI-ID - 198138371
Author
Hauptman, Nina |
Pižem, Jože |
Jevšinek Skok, Daša
Topics
miRNA |
gene |
expression |
cancer |
correlation |
gene prioritization |
miRNA |
gen |
izražanje |
rak (medicina) |
korelacija |
prednostno določanje genov
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Database name | Field | Year |
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Links to authors' personal bibliographies | Links to information on researchers in the SICRIS system |
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Hauptman, Nina | 27704 |
Pižem, Jože | 26058 |
Jevšinek Skok, Daša | 34275 |
Source: Personal bibliographies
and: SICRIS
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