MiRcode

[…] hsa-mir-145, hsa-mir-211, and hsa-mir-1297 were also closely related with these target demrnas. moreover, we found that 16 delncrnas were related with the key demirnas, based on retrieving mircode database (). pvt1, as a key delncrna, had interactive associations with mir-145, mir-211, mir-216a, mir-133a, and mir-133b in this network. the delncrna rp11-496d24.2 interacted with mir-145, […]

[…] lncrna through mres in the cerna network, and thus, we detected whether key mirnas and the above 723 differently expressed lncrnas have the potential mres based on the information retrieved from the mircode database. the predicted results showed that the key mirnas interacted with 14 delncrnas, which could act as key lncrnas. finally, we obtained 22 hub demrnas mediating with 11 demirnas and 14 […]

[…] in our study, noncoding rnas which are not included in the annotation were discarded. venn diagram was generated to discover the delncrnas from dernas., lncrna-mirna interactions were predicted by mircode (http://www.mircode.org/) []. mirna targeted mrnas were retrieved from mirtarbase (http://mirtarbase.mbc.nctu.edu.tw/) [], each mirna-mrna pair was experimentally validated by at least two […]

[…] retained. to improve the data reliability, cancer specific lncrnas have not been annotated by gencode (http://www.gencodegenes.org/) were discarded; (ii) lncrna-mirna interactions were predicted by mircode (http://www.mircode.org/) and starbase v2.0 (http://starbase.sysu.edu.cn/); (iii) mrnas targeted by mirnas with experimental support were retrieved from mirtarbase […]

[…] to as “demrnas”, “delncrnas”, and “demirnas”, respectively) were screened out between 539 crc samples and 11 normal samples. the interactions between delncrnas and demirnas were predicted by mircode. the demrnas targeted by the demirnas were retrieved according to targetscan, mirtar-base, and mirdb. the lncrna–mirna–mrna cerna network was constructed based on the demirna–delncrna […]

[…] in 2015, wang et al. identified functional rna pairs by computing the pearson correlation coefficients and p-values based on expression profiles []. zhang et al. developed a competing network using mircode, starbase and mirtarbase in hcc, with a focus on the hub nodes of the network []. in 2017, guo et al. assessed the joint predictive power of mirnas and lncrnas using mirna and lncrna […]

[…] muscle protein 22-alpha (sm22α). for normalization, the expression level of glyceraldehyde 3-phosphate dehydrogenase (gadph) was used., in the track data hubs of ucsc genome browser [], we utilized mircode, which is a prediction algorithm of human mirna targets based on gencode annotation including lncrnas []. we intersected the mircode track with lncrna track using table browser, to collect […]

[…] network-based identification of cerna (mnicerna) to identify cernas in thyroid carcinoma. mnicerna first constructs micro rna (mirna)–messenger rna (mrna)long non-coding rna (lncrna) networks from mircode database and weighted correlation network analysis (wgcna), based on which to identify key drivers of differentially expressed rnas between normal and tumor samples. it then infers cernas […]

[…] and 11 normal samples. we used the wgcna and protein–protein interaction (ppi) network to identify hub mrnas from the differentially expressed mrnas (demrnas) profile. the databases, mirtarbase and mircode, were used to screen the key differentially expressed lncrnas (delncrnas) and differentially expressed micro rnas (demirnas), as well as demirnas-demrnas interactions. hereafter, […]