PMID- 32938402
OWN - NLM
STAT- MEDLINE
DCOM- 20201021
LR  - 20231104
IS  - 1471-2105 (Electronic)
IS  - 1471-2105 (Linking)
VI  - 21
IP  - Suppl 8
DP  - 2020 Sep 16
TI  - miRTissue (ce): extending miRTissue web service with the analysis of ceRNA-ceRNA 
      interactions.
PG  - 199
LID - 10.1186/s12859-020-3520-z [doi]
LID - 199
AB  - BACKGROUND: Non-coding RNAs include different classes of molecules with 
      regulatory functions. The most studied are microRNAs (miRNAs) that act directly 
      inhibiting mRNA expression or protein translation through the interaction with a 
      miRNAs-response element. Other RNA molecules participate in the complex network 
      of gene regulation. They behave as competitive endogenous RNA (ceRNA), acting as 
      natural miRNA sponges to inhibit miRNA functions and modulate the expression of 
      RNA messenger (mRNA). It became evident that understanding the ceRNA-miRNA-mRNA 
      crosstalk would increase the functional information across the transcriptome, 
      contributing to identify new potential biomarkers for translational medicine. 
      RESULTS: We present miRTissue (ce), an improvement of our original miRTissue web 
      service. By introducing a novel computational pipeline, miRTissue (ce) provides 
      an easy way to search for ceRNA interactions in several cancer tissue types. 
      Moreover it extends the functionalities of previous miRTissue release about 
      miRNA-target interaction in order to provide a complete insight about miRNA 
      mediated regulation processes. miRTissue (ce) is freely available at 
      http://tblab.pa.icar.cnr.it/mirtissue.html . CONCLUSIONS: The study of ceRNA 
      networks and its dynamics in cancer tissue could be applied in many fields of 
      translational biology, as the investigation of new cancer biomarker, both 
      diagnostic and prognostic, and also in the investigation of new therapeutic 
      strategies of intervention. In this scenario, miRTissue (ce) can offer a powerful 
      instrument for the analysis and characterization of ceRNA-ceRNA interactions in 
      different tissue types, representing a fundamental step in order to understand 
      more complex regulation mechanisms.
FAU - Fiannaca, Antonino
AU  - Fiannaca A
AD  - CNR-ICAR, National Research Council of Italy, via Ugo La Malfa 153, Palermo, 
      90146, Italy.
FAU - Paglia, Laura La
AU  - Paglia L
AD  - CNR-ICAR, National Research Council of Italy, via Ugo La Malfa 153, Palermo, 
      90146, Italy.
FAU - Rosa, Massimo La
AU  - Rosa M
AUID- ORCID: 0000-0001-6718-7269
AD  - CNR-ICAR, National Research Council of Italy, via Ugo La Malfa 153, Palermo, 
      90146, Italy. massimo.larosa@icar.cnr.it.
FAU - Rizzo, Riccardo
AU  - Rizzo R
AD  - CNR-ICAR, National Research Council of Italy, via Ugo La Malfa 153, Palermo, 
      90146, Italy.
FAU - Urso, Alfonso
AU  - Urso A
AD  - CNR-ICAR, National Research Council of Italy, via Ugo La Malfa 153, Palermo, 
      90146, Italy.
LA  - eng
PT  - Journal Article
DEP - 20200916
PL  - England
TA  - BMC Bioinformatics
JT  - BMC bioinformatics
JID - 100965194
RN  - 0 (MicroRNAs)
RN  - 0 (RNA, Neoplasm)
SB  - IM
MH  - Gene Expression Regulation, Neoplastic/*genetics
MH  - Gene Regulatory Networks/*genetics
MH  - Humans
MH  - MicroRNAs/*genetics
MH  - Prognosis
MH  - RNA, Neoplasm/*genetics
PMC - PMC7493844
OTO - NOTNLM
OT  - TCGA
OT  - Tumour
OT  - ceRNA interaction
OT  - miRNA sponge
OT  - miRNA-target interaction
COIS- The authors declare that they have not competing interests
EDAT- 2020/09/18 06:00
MHDA- 2020/10/22 06:00
PMCR- 2020/09/16
CRDT- 2020/09/17 05:31
PHST- 2020/04/12 00:00 [received]
PHST- 2020/04/29 00:00 [accepted]
PHST- 2020/09/17 05:31 [entrez]
PHST- 2020/09/18 06:00 [pubmed]
PHST- 2020/10/22 06:00 [medline]
PHST- 2020/09/16 00:00 [pmc-release]
AID - 10.1186/s12859-020-3520-z [pii]
AID - 3520 [pii]
AID - 10.1186/s12859-020-3520-z [doi]
PST - epublish
SO  - BMC Bioinformatics. 2020 Sep 16;21(Suppl 8):199. doi: 10.1186/s12859-020-3520-z.