| pre-miRNA Information | |
|---|---|
| pre-miRNA | hsa-mir-500b |
| Genomic Coordinates | chrX: 50010672 - 50010750 |
| Description | Homo sapiens miR-500b stem-loop |
| Comment | None |
| RNA Secondary Structure |  |
| Associated Diseases |  |
| Mature miRNA Information | |||||||
|---|---|---|---|---|---|---|---|
| Mature miRNA | hsa-miR-500b-3p | ||||||
| Sequence | 51| GCACCCAGGCAAGGAUUCUG |70 | ||||||
| Evidence | Experimental | ||||||
| Experiments | Illumina | ||||||
| SNPs in miRNA |
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| Putative Targets | |||||||
| miRNA Expression profile | |
|---|---|
| miRNAs in Extracellular Vesicles |
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| Circulating MicroRNA Expression Profiling | |
| Gene Information | |||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Gene Symbol | ZC3H12C | ||||||||||||||||||||
| Synonyms | MCPIP3 | ||||||||||||||||||||
| Description | zinc finger CCCH-type containing 12C | ||||||||||||||||||||
| Transcript | NM_033390 | ||||||||||||||||||||
| Expression | |||||||||||||||||||||
| Putative miRNA Targets on ZC3H12C | |||||||||||||||||||||
| 3'UTR of ZC3H12C (miRNA target sites are highlighted) |
>ZC3H12C|NM_033390|3'UTR 1 AAGATGATGCATCTTTGTGGTGTTTAGTAGTTTTTTGTTCAGCTCAAATGCTGAGGGAGGTTTGCTACAATAGCACATGT 81 GATCTCCTTCTCAGCAAGGAGGTTATATAGTATCCATTTATGTGAAATACTGTATCATGGAATCTGTATGTATAGCCCCA 161 CATGGTGGAAGTATCACGGGATTGCTTTACATTTAAACTTTTTTTTTTTAACATTTCCTTTTTAAAGCTATATCCTTGGC 241 TGGAAATTTTTCCAGTTTGATTTAATAGATGTATCTGTGATCTTTGATATTAATCTTTGGTGCATCAGGGGTTTATATGC 321 AGCACTTTTTATCCTTGTTTTGTGTTTTATTAACTTGGTGTTTGTCTATCAATTGCAAGCAATTACAATACCTTCAGAAT 401 GTGGGACATTTGACTAGACCTAGCAAACTGTTTTTTCGAGCCAAGCTTAGTTAGACTCTTTTACAGCTTTTTAAGTTATT 481 TTTATTTGGGGAAAGTGGGCTTCTTTGTGCTATAATCATTATTTATAGAAACAAAGTTATACTACAGCACTGACTTTATA 561 TTTTAAACAGAATGTAAGTTACCAGTTTTATGTTGAAATGTGTTACAGTATATATATATTAGAATGATTTACAATATGGC 641 ACTTTTCGATGTGTTATTTTTGTTTGGATTTTTTTTTCTGTTAAGAAATTAGTTAATTTAATATGGTCAATTTAAAAGAA 721 AGCAGATGCAATCAATGGAAAAATGTTTCCATTTTTTAAAAATGAATAAGGCAAAAGCTGTAACTGTTACAGGTTAGAGC 801 TTTGTTATCCAGCTATGATGTGCTTCTTGACAGTAGAAGTGGAATTGAATTCCTAGATTTCCATTAACCTGTATTTTTAA 881 TATGTCTGTCTTTTTGTTTTGGGGCACAACAATACTGGATAAAATAACCCTTTCACAGCACTTGCCTGTTTTTAATGAAT 961 CTAATTATTCACAATGCAACTTTTATATTTAACATACTCTTTAGCTTTCCTGCTATTTATCAAGGCTGGCCTGAGGTGGG 1041 TTTATGTGTTGAGGTTATGCAACATTTCTTGATACTGCACTATAGAGAAATGGTGATGGAGGAGTTGTAAATGGTAACTT 1121 AAAATTTTTGTAAGATATTGTATATTTTCCATTTTCCTGAAGGTAGTTTTCTTGGGGGGGCCTGTTATATTATTAAGGCC 1201 AGACTCTTGCCACAAATAGTGTAGTTTTAGATACAGACTAAGGTCTGTTCTAGTATTAGTAAGGGATATTTCTGGTTTCA 1281 AAGTCATGGGTTTTGCTAGTGGTGAATACATTTCTGCGGAGTAGAAGATAGATTTTGCAGTCAGTGGCAGACAGTTGTGT 1361 GATTGACATCACTTGACTGTTGCGTCCAGGTTTTGAATTGTACTTCACGTAACAGATGCATTCAGATCTTTTTCTGTAGT 1441 CTGCTTAGATGCCCTGGCTATTCTGATTATCCTACATGCTACAGTTTGAAGTGAAGCCCTGAAAAACCAGAAAGTACCTT 1521 TTACTGTTGATACAAATTGTATCTTTTTAACTATAAGAACTATTTTGATTTGTAGATCTAGTTAAAACACAAGTATGTAA 1601 CTATGATTAGACTTTTGGGCAACATTTTATCCCTTATTTAAATACAAATTTTTAAAGTAAAATTGAGGTCTAGAATAGAT 1681 TAGAAAATAAAAATAACAATTTAGATAAATAGAAATGTCTGTCTTAGTTTTATATAATATATTAAAACACAGTAAATAAA 1761 TTTATTGGCATTTTCTTTCTCCTAAAACTTACCTAGTGTGAACTTAAAATAAAGGTAAAATGCTGCCTGAAAATAATGTC 1841 CAAGCACCTTTGACTAGGATAACATTTTCACTACTTGTGTGACACTGTGTGTTGCACGAAGTAGGATTTGGGTATACAGT 1921 AAATGCTTCTAAAAGGCATTGTGCATATTGACATAACCAATAATCTGAACCGTGTTCAGCAAACTTAATTCAGGAAAGTG 2001 GTATTCTACACAATTATTGCTGTTGTGTTTGAAATGAGTGTGGCACTCATCTGTATCCAGAAATAATATGGGTGAGGCCA 2081 CACAACCCATTCTGAGTGGTGTCTGTCTGAAAGCAACCCTACTCGCATGTGAAATTGTTCTCCTTGATTTGGTCACTATA 2161 AAGCAAGTTTAAATGTAGAGGCTAACTCAGTGCCAAAAACAGGGTTACAAATGTGTAGTATCTTTTATTTTAGTCATATT 2241 CTAAGACTTCTTTTTAGTATGAAATCACTTTTAAATTATACATGTAGGTTTTGCTTCCATTTTCTTCATTTTACCATTTT 2321 AATTATTTGAACATTCGCCAAATTTTACATTTATTTAAATGAGATCTTAGGTGAGATGTGTGTGACACTTTGAATTTGAC 2401 CTTCTTGTGTTATTAGCTGACTATTTGTCATTGCCTCATGGATTTTAAATTATGGGAAAATAGTGTAGCCAGCTGCCACC 2481 TCTACTGAAGTGAGTAGCTCTGAACTACCCACACTAAATCCTTCAGTGTAATTAATTATGAGTTTAAAAATAGCAGTTTT 2561 CTTATGTGAAGAGGACAGTTTGTCCCCTTTTTTTGAAGCACCGATGTTGCGTTCAGAGCTGTAGAATGAGATAATTGGCA 2641 GACTTTAGGTACAGCAAATTCTTACTTATCTAAAGCAATAAGTCAAAGGAGTCCATCATTAAATTAAATCCATAGCTGAT 2721 CACAAGCCTTCATTTTAGCCAAAACTTTCTCTCTAACCAAATCTTTTACCAGACTTGCTAATAAATAACCAGAGAGATGT 2801 GTTAATAAGTGAAGTTGCCAGAAATGGTCAACTGATCGGAAAAAAAAGGATTCAGACTGGAGTATTTTGCCCCTGAATAA 2881 TTGACAGTTGACTGTGCTTTACACAGTAACTAGCCAGTCTGTTGTCTCTGTGTCTTAGTCCAGAGGGAATAGTACCCAAT 2961 TGGCCAAATACTGGCCCTTAGTATCTCCTCCTTTCTTGCATGGGATACAGACGTTTTCAGTCTTGTTTTTATGATCTCTC 3041 TCTATATCCTGATAAGAGTTTGTCATTGACTTACACATTTGGAAGAAATGCACACCAGTGTAATATATTTGATACTGGTG 3121 GAAACTTGAACTTTGTGTTTTTATGAAAATTCATTTATGAGAATATGTAATATAACTGAAGAGTATTTTATGTATATCTA 3201 TATACACAAATATGTATTTGTTATGAGGTATTAAAAACAGGGGTTGGGGGGAGTGCTTCTGATGGCTAACTTTTCTCTAA 3281 TTAAACTATGTTTCTTTGAGTTGTGAACGACCGAGTCTGGGGTCTGGACGGCCAATGATAAGATTTAGAACCACTTGGAT 3361 GGAAAGCAGTTCTTCACTGGTTTTATTCTTGGTATTTTCAAAGAATTATTTTGATATTTTTAATAGAATGTGTAATTTTA 3441 AAATACACAAAAAACTTAAAGTAGTATTGATTATACAAATAATTATTTAACATGTCTTATGGATGTATCTATATGTATAT 3521 AGACAGTAATATATTTATAAAACAAATATACTTTGCTTATGTTATAGCTCTTAGTTTGTGACAGGTGGGAGGATGGCTCT 3601 GGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTGAAAACTCTCAAGCTGTTTTCCCTCTGATTTAC 3681 AATGGTATTTACTTTAAAGTATGTTTGGTTTTCATTATTCTTTTTGCTCTCCAACTTCCTTATTCAAGATAAAATAAGAC 3761 ATACAGTTTTCTGGCCATTCTGTTGGTGTGTGGTGCACCCATTTTATTGTCATCTAACTCCTGGAGAATTCCCACGTGAC 3841 CTGAAATCAAACAGATTCTGGCTGGACATATGCTTATGTTCCAAATATATTAAAGATGTTAATTCAGCTAACAGTTAAGT 3921 TTCCAAGGTATACACCAACAAATAAAATGAGGTATTAAAAAGAGATGGATTACACACATGCATTAGAATAAGAGAAAACA 4001 GTAGTGTTAATAAAAGTAAAGAAACATACACTATCTTAGCCCCCTAGGGCAGGGGTTGACTTTTTCTGTAAAGGATCAGA 4081 TAGTAAATAATACAGGAATCATATGGACTTCAAATGCCATTGTAAAAACTACTCAGCTCTGCCTTTAGAGCATAAGAACA 4161 GCCACAGATAACATGTAAATTAGTGTGGCTGTGTTCCAATAAAACTTTATTTACAGAAACGGGAAGCCGGTCAGATTGGG 4241 CCTGTGGGCCATAATTTGCTGATCTCAAGCAGTAAATCCTGGTATATGTTAATAGAAGAAATCATAATTGCATTTCAGTT 4321 GACATTAAAAGAAAATCTGGTAGTTTTTGATGTCCTTCAAAAGAGGATTGTTAGACATTGATGTTAAAGCATCTTAATTC 4401 ATTTGAGTTTTCTTACCTGTTTACACCCATTATTTATTAGAGATATTTCTTGTGTTTAACCACAAAAAAAAGCACTCTGT 4481 TAAAATGTTTTAATATGTATTGAATTTCTTTCATAAACTTTTCATTTCTGTTGATAAATGGGAATCCCTTACCAACCTTT 4561 TGTTTTTTAAAAGTCTCATAGACCAAAAAAAATCTGTTGCAGCATTTAATTAGCCACAGATACATTTTGGCTGCATTTAC 4641 CAGTTACATTTTTCCATTGGTTTTGGCTTCTAATAAATAACATATCTGCCATTCTTTAAAAATGATTTTAAAGAAGATAA 4721 ATATATTGTAATTTCACATGCTATAGCTTTATTCTGTAAGATTAAAAATTGTGACTAGTATAATTGTAGCTATAATGTGA 4801 GTGGCATGTTACAATGTAACTCTTTATGAGAAATAAAATGTATCTCTGCTTTGTCTGTCCAGATCTTTAGGATTTTTAGA 4881 TGCCTTGGGACTGTCCTTGGTGAATGATATTCTTCATATGATCATATGTAATTTTGAATTCGTTGGAAGTACACGCTGCT 4961 GAGCATGTTTATTCACAGTGCTTTATACCGGGTGTTGCATCAGTAATCATTTTCATAAGAACATTTAAACAGCATGAACA 5041 TCATCATCCACTTAAATAGTTAAACTTTCTTTTAAAATTGGAATGCAACTGTAGGTTTTAACAATGTTTATTGTTTTTTA 5121 AGTGGTTACTTTGTTTTTCCTTAATACTTTCTGTTAACTTAATTATTACTCCTGTTGCAGTGTTACTGTTATGTATTAGA 5201 AGTGGCTTTTCCCCCTAAGATCCTTAGTCTTTTAAAGACAATTTAAGGTATTGGCCATTTGGCAGTAGAAAATGTGCATG 5281 TTTTAACTTGGTTTTATAAAATCTGTAATGTTTCACTTCTTGAACCATGTACCAAATTTGCCAATTTTCTGTCCAAGTGT 5361 TTCAGATGAATAACAAAACGCTGTTCATTGAAGCTTTCGCCACCTTTCTTAAAGCAGCGTATGTTCCAAGGGAAAAAGGC 5441 ATTGAAAAGCAATCGTTTGTTTTTATGAAGAATAGGTGTTCAGATTCCTTCAGTTTTTTTGAAATTAGAAATTTCTTACC 5521 TTATGTGAAATATTCACAAACGTGCACACTTCTGCAGAGACAAAGCATTTCACTGCACGTGTACCAGGTTATTGATTTTA 5601 TCTTTTCCTTTCAGGGTTTTGTCCTCCCAAACCAGAGTCATATGCTGCTAGTAGAATTTTTTATTTGATCCTGCGAACTT 5681 TTCTTATAGGAAAAGTAAGGCAAAGGATGTGTAGTGCAACCATCTGATAAACTAGTGTGATTGTATTTATCCTCTGTTCT 5761 GTGTATTTCTGTAATGGAATCTTTACAATTCCCAAAACGGTATTTTAGACCTACTGGAAATCTGTATCGAAACAGCTATG 5841 TGATTCTGCCACTGAGAAAAAAAAAATTTTTAATTCGTTTTTCTTATGCTGGTTTGTTTTTCTTTAATGAAGAAATTGAT 5921 CTCATATGGCATCATAGATGCTAAATAAATAAAAGCATCATACTTCTCTAGTTTGCCTGCATTCAGTGGCTAACATTATG 6001 AGCATTGTGTAAGATAAACACATGGTCAGTATCAATGTAAATGTTAGAGCCATGATTAATTCCTATGAAAATTGAAATTA 6081 AATGTCAAAGACAACTAGACATAA Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
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| miRNA-target interactions (Predicted by miRanda) |
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| DRVs in gene 3'UTRs | |||||||||||||||||||||
| SNPs in gene 3'UTRs | |||||||||||||||||||||
| Experimental Support 1 for Functional miRNA-Target Interaction | |||||||
|---|---|---|---|---|---|---|---|
| miRNA:Target | ---- | ||||||
| Validation Method |
|
||||||
| Conditions | HEK293 | ||||||
| Disease | 85463.0 | ||||||
| Location of target site | 3'UTR | ||||||
| Tools used in this research | TargetScan , miRTarCLIP , Piranha | ||||||
| Original Description (Extracted from the article) |
...
"PAR-CLIP data was present in GSM714646. RNA binding protein: AGO2. Condition:mildMNase
... - Kishore S; Jaskiewicz L; Burger L; Hausser et al., 2011, Nature methods. |
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| miRNA-target interactions (Provided by authors) |
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| Article |
- Kishore S; Jaskiewicz L; Burger L; Hausser et al. - Nature methods, 2011
Cross-linking and immunoprecipitation (CLIP) is increasingly used to map transcriptome-wide binding sites of RNA-binding proteins. We developed a method for CLIP data analysis, and applied it to compare CLIP with photoactivatable ribonucleoside-enhanced CLIP (PAR-CLIP) and to uncover how differences in cross-linking and ribonuclease digestion affect the identified sites. We found only small differences in accuracies of these methods in identifying binding sites of HuR, which binds low-complexity sequences, and Argonaute 2, which has a complex binding specificity. We found that cross-link-induced mutations led to single-nucleotide resolution for both PAR-CLIP and CLIP. Our results confirm the expectation from original CLIP publications that RNA-binding proteins do not protect their binding sites sufficiently under the denaturing conditions used during the CLIP procedure, and we show that extensive digestion with sequence-specific RNases strongly biases the recovered binding sites. This bias can be substantially reduced by milder nuclease digestion conditions.
LinkOut: [PMID: 21572407]
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| Experimental Support 2 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | Hela |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
HITS-CLIP data was present in GSM1048188. RNA binding protein: AGO2. Condition:Hela_AGO2_CLIP_ptb_knockdown
... - Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al., 2013, Cell. |
| Article |
- Xue Y; Ouyang K; Huang J; Zhou Y; Ouyang H; et al. - Cell, 2013
The induction of pluripotency or trans-differentiation of one cell type to another can be accomplished with cell-lineage-specific transcription factors. Here, we report that repression of a single RNA binding polypyrimidine-tract-binding (PTB) protein, which occurs during normal brain development via the action of miR-124, is sufficient to induce trans-differentiation of fibroblasts into functional neurons. Besides its traditional role in regulated splicing, we show that PTB has a previously undocumented function in the regulation of microRNA functions, suppressing or enhancing microRNA targeting by competitive binding on target mRNA or altering local RNA secondary structure. A key event during neuronal induction is the relief of PTB-mediated blockage of microRNA action on multiple components of the REST complex, thereby derepressing a large array of neuronal genes, including miR-124 and multiple neuronal-specific transcription factors, in nonneuronal cells. This converts a negative feedback loop to a positive one to elicit cellular reprogramming to the neuronal lineage.
LinkOut: [PMID: 23313552]
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| Experimental Support 3 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | HEK293S |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
HITS-CLIP data was present in GSM1084040. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep1
HITS-CLIP data was present in GSM1084041. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep1
HITS-CLIP data was present in GSM1084042. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep2
HITS-CLIP data was present in GSM1084043. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep2
HITS-CLIP data was present in GSM1084044. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep3
HITS-CLIP data was present in GSM1084045. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep3
HITS-CLIP data was present in GSM1084046. RNA binding protein: AGO2. Condition:CLIP_noarsenite_rep4
HITS-CLIP data was present in GSM1084047. RNA binding protein: AGO2. Condition:CLIP_arsenite_rep4
HITS-CLIP data was present in GSM1084064. RNA binding protein: AGO2. Condition:CLIP_noemetine_AbnovaAb
HITS-CLIP data was present in GSM1084065. RNA binding protein: AGO2. Condition:CLIP_emetine_AbnovaAb
HITS-CLIP data was present in GSM1084066. RNA binding protein: AGO2. Condition:CLIP_noemetine_SantaCruzAb
HITS-CLIP data was present in GSM1084068. RNA binding protein: AGO2. Condition:CLIP_noemetine_SigmaAb
HITS-CLIP data was present in GSM1084069. RNA binding protein: AGO2. Condition:CLIP_emetine_SigmaAb
HITS-CLIP data was present in GSM1084072. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_AbnovaAb
HITS-CLIP data was present in GSM1084073. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_AbnovaAb
HITS-CLIP data was present in GSM1084076. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep1_SigmaAb
HITS-CLIP data was present in GSM1084077. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep1_SigmaAb
HITS-CLIP data was present in GSM1084078. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_AbnovaAb
HITS-CLIP data was present in GSM1084079. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_AbnovaAb
HITS-CLIP data was present in GSM1084080. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_SantaCruzAb
HITS-CLIP data was present in GSM1084082. RNA binding protein: AGO2. Condition:CLIP_nohippuristanol_rep2_SigmaAb
HITS-CLIP data was present in GSM1084083. RNA binding protein: AGO2. Condition:CLIP_hippuristanol_rep2_SigmaAb
... - Karginov FV; Hannon GJ, 2013, Genes & development. |
| Article |
- Karginov FV; Hannon GJ - Genes & development, 2013
When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.
LinkOut: [PMID: 23824327]
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| Experimental Support 4 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | MCF7 |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
HITS-CLIP data was present in GSM1395164. RNA binding protein: AGO. Condition:MCF7 AGO HITS-CLIP Replicate 2
... - Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al., 2014, Breast cancer research and treatment. |
| Article |
- Pillai MM; Gillen AE; Yamamoto TM; Kline E; et al. - Breast cancer research and treatment, 2014
miRNAs regulate the expression of genes in both normal physiology and disease. While miRNAs have been demonstrated to play a pivotal role in aspects of cancer biology, these reports have generally focused on the regulation of single genes. Such single-gene approaches have significant limitations, relying on miRNA expression levels and heuristic predictions of mRNA-binding sites. This results in only circumstantial evidence of miRNA-target interaction and typically leads to large numbers of false positive predictions. Here, we used a genome-wide approach (high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation, HITS-CLIP) to define direct miRNA-mRNA interactions in three breast cancer subtypes (estrogen receptor positive, Her2 amplified, and triple negative). Focusing on steroid receptor signaling, we identified two novel regulators of the ER pathway (miR-9-5p and miR-193a/b-3p), which together target multiple genes involved in ER signaling. Moreover, this approach enabled the definition of miR-9-5p as a global regulator of steroid receptor signaling in breast cancer. We show that miRNA targets and networks defined by HITS-CLIP under physiologic conditions are predictive of patient outcomes and provide global insight into miRNA regulation in breast cancer.
LinkOut: [PMID: 24906430]
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| Experimental Support 5 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | Cardiac Tissues |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
HITS-CLIP data was present in GSM2202478. RNA binding protein: AGO2. Condition:S3_LV_36yo_Male_AGO2_bound_RNA
HITS-CLIP data was present in GSM2202480. RNA binding protein: AGO2. Condition:S5_LV_36yo_Male_AGO2_bound_RNA
HITS-CLIP data was present in GSM2202479. RNA binding protein: AGO2. Condition:S4_LV_29yo_Male_AGO2_bound_RNA
HITS-CLIP data was present in GSM2202476. RNA binding protein: AGO2. Condition:S1_LV_54yo_Male_AGO2_bound_RNA
HITS-CLIP data was present in GSM2202477. RNA binding protein: AGO2. Condition:S2_LV_25yo_Male_AGO2_bound_RNA
... - Spengler RM; Zhang X; Cheng C; McLendon JM; et al., 2016, Nucleic acids research. |
| Article |
Elucidation of transcriptome-wide microRNA binding sites in human cardiac tissues by Ago2 HITS-CLIP.
- Spengler RM; Zhang X; Cheng C; McLendon JM; et al.- Nucleic acids research, 2016
MicroRNAs (miRs) have emerged as key biological effectors in human health and disease. These small noncoding RNAs are incorporated into Argonaute (Ago) proteins, where they direct post-transcriptional gene silencing via base-pairing with target transcripts. Although miRs have become intriguing biological entities and attractive therapeutic targets, the translational impacts of miR research remain limited by a paucity of empirical miR targeting data, particularly in human primary tissues. Here, to improve our understanding of the diverse roles miRs play in cardiovascular function and disease, we applied high-throughput methods to globally profile miR:target interactions in human heart tissues. We deciphered Ago2:RNA interactions using crosslinking immunoprecipitation coupled with high-throughput sequencing (HITS-CLIP) to generate the first transcriptome-wide map of miR targeting events in human myocardium, detecting 4000 cardiac Ago2 binding sites across >2200 target transcripts. Our initial exploration of this interactome revealed an abundance of miR target sites in gene coding regions, including several sites pointing to new miR-29 functions in regulating cardiomyocyte calcium, growth and metabolism. Also, we uncovered several clinically-relevant interactions involving common genetic variants that alter miR targeting events in cardiomyopathy-associated genes. Overall, these data provide a critical resource for bolstering translational miR research in heart, and likely beyond.
LinkOut: [PMID: 27418678]
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| Experimental Support 6 for Functional miRNA-Target Interaction | |
|---|---|
| miRNA:Target | ---- |
| Validation Method |
|
| Conditions | Liver Tissue |
| Location of target site | 3'UTR |
| Tools used in this research | TargetScan , miRTarCLIP , Piranha |
| Original Description (Extracted from the article) |
...
HITS-CLIP data was present in GSM2550620. RNA binding protein: AGO2. Condition:Patient 2 Tumor 1
... - Luna JM; Barajas JM; Teng KY; Sun HL; Moore et al., 2017, Molecular cell. |
| Article |
- Luna JM; Barajas JM; Teng KY; Sun HL; Moore et al. - Molecular cell, 2017
MicroRNA-122, an abundant and conserved liver-specific miRNA, regulates hepatic metabolism and functions as a tumor suppressor, yet systematic and direct biochemical elucidation of the miR-122 target network remains incomplete. To this end, we performed Argonaute crosslinking immunoprecipitation (Argonaute [Ago]-CLIP) sequencing in miR-122 knockout and control mouse livers, as well as in matched human hepatocellular carcinoma (HCC) and benign liver tissue to identify miRNA target sites transcriptome-wide in two species. We observed a majority of miR-122 binding on 3' UTRs and coding exons followed by extensive binding to other genic and non-genic sites. Motif analysis of miR-122-dependent binding revealed a G-bulged motif in addition to canonical motifs. A large number of miR-122 targets were found to be species specific. Upregulation of several common mouse and human targets, most notably BCL9, predicted survival in HCC patients. These results broadly define the molecular consequences of miR-122 downregulation in hepatocellular carcinoma.
LinkOut: [PMID: 28735896]
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| CLIP-seq Support 1 for dataset GSM1048188 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | Hela / Hela_AGO2_CLIP_ptb_knockdown |
| Location of target site | ENST00000278590.3 | 3UTR | GGCUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUUUUG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23313552 / GSE42701 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 2 for dataset GSM1084040 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_noarsenite_rep1 |
| Location of target site | ENST00000278590.3 | 3UTR | UCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 3 for dataset GSM1084041 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_arsenite_rep1 |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 4 for dataset GSM1084042 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_noarsenite_rep2 |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUUUUG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 5 for dataset GSM1084043 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_arsenite_rep2 |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 6 for dataset GSM1084044 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_noarsenite_rep3 |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 7 for dataset GSM1084045 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_arsenite_rep3 |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 8 for dataset GSM1084046 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_noarsenite_rep4 |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGUG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 9 for dataset GSM1084047 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_arsenite_rep4 |
| Location of target site | ENST00000278590.3 | 3UTR | UCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGUG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 10 for dataset GSM1084064 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_noemetine_AbnovaAb |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 11 for dataset GSM1084065 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_emetine_AbnovaAb |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 12 for dataset GSM1084066 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_noemetine_SantaCruzAb |
| Location of target site | ENST00000278590.3 | 3UTR | CUGGGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 13 for dataset GSM1084068 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_noemetine_SigmaAb |
| Location of target site | ENST00000278590.3 | 3UTR | CUGGGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 14 for dataset GSM1084069 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_emetine_SigmaAb |
| Location of target site | ENST00000278590.3 | 3UTR | GUGGGAGGAUGGCUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 15 for dataset GSM1084072 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep1_AbnovaAb |
| Location of target site | ENST00000278590.3 | 3UTR | GACAGGUGGGAGGAUGGCUCUGGGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 16 for dataset GSM1084073 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_hippuristanol_rep1_AbnovaAb |
| Location of target site | ENST00000278590.3 | 3UTR | UCUGGGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 17 for dataset GSM1084076 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep1_SigmaAb |
| Location of target site | ENST00000278590.3 | 3UTR | UCUGGGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 18 for dataset GSM1084077 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_hippuristanol_rep1_SigmaAb |
| Location of target site | ENST00000278590.3 | 3UTR | CUGGGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 19 for dataset GSM1084078 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep2_AbnovaAb |
| Location of target site | ENST00000278590.3 | 3UTR | UCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 20 for dataset GSM1084079 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_hippuristanol_rep2_AbnovaAb |
| Location of target site | ENST00000278590.3 | 3UTR | UCUGGGUGUGUGUGUGUGUGUGUGUGUGUG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 21 for dataset GSM1084082 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_nohippuristanol_rep2_SigmaAb |
| Location of target site | ENST00000278590.3 | 3UTR | CUCUGGGUGUGUGUGUGUGUGUGUGUGUGUGUG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 22 for dataset GSM1084083 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO2 |
| Cell line / Condition | HEK293S / CLIP_hippuristanol_rep2_SigmaAb |
| Location of target site | ENST00000278590.3 | 3UTR | UCUGGGUGUGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 23824327 / GSE44404 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 23 for dataset GSM1395164 | |
|---|---|
| Method / RBP | HITS-CLIP / AGO |
| Cell line / Condition | MCF7 / MCF7 AGO HITS-CLIP Replicate 2 |
| Location of target site | ENST00000278590.3 | 3UTR | GGGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUGUG |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 24906430 / GSE57855 |
| CLIP-seq Viewer | Link |
| CLIP-seq Support 24 for dataset GSM714646 | |
|---|---|
| Method / RBP | PAR-CLIP / AGO2 |
| Cell line / Condition | HEK293 / mildMNase, repA |
| Location of target site | ENST00000278590.3 | 3UTR | AGGUGGGAGGAUGGCUCUGGGUGUGUGUGUGUGUGUGUGU |
| Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
| Article / Accession Series | PMID: 21572407 / GSE28865 |
| CLIP-seq Viewer | Link |
| MiRNA-Target Expression Profile | |||||||
|---|---|---|---|---|---|---|---|
|
| MiRNA-Target Expression Profile (TCGA) | |||||||
|---|---|---|---|---|---|---|---|
|
172 hsa-miR-500b-3p Target Genes:
Functional analysis:
ID |
Target | Description | Validation methods |
 |
 |
|||||||
| Strong evidence | Less strong evidence | |||||||||||
 |
 |
 |
 |
 |
 |
 |
 |
|||||
| MIRT059905 | HDGF | heparin binding growth factor |  |
|
2 | 4 | ||||||
| MIRT235394 | KDELR1 | KDEL endoplasmic reticulum protein retention receptor 1 | |
|
2 | 4 | ||||||
| MIRT442246 | PYGO1 | pygopus family PHD finger 1 | |
|
2 | 2 | ||||||
| MIRT443591 | ZNF439 | zinc finger protein 439 | |
|
2 | 4 | ||||||
| MIRT453280 | EFTUD2 | elongation factor Tu GTP binding domain containing 2 | |
|
2 | 2 | ||||||
| MIRT463540 | ZBTB7A | zinc finger and BTB domain containing 7A | |
|
2 | 2 | ||||||
| MIRT465589 | TNRC6B | trinucleotide repeat containing 6B | |
|
2 | 2 | ||||||
| MIRT469462 | REL | REL proto-oncogene, NF-kB subunit | |
|
2 | 2 | ||||||
| MIRT485449 | KCTD15 | potassium channel tetramerization domain containing 15 | |
|
2 | 4 | ||||||
| MIRT486682 | WDR81 | WD repeat domain 81 | |
|
2 | 2 | ||||||
| MIRT489078 | POLM | DNA polymerase mu | |
|
2 | 2 | ||||||
| MIRT493734 | GREM2 | gremlin 2, DAN family BMP antagonist | |
|
2 | 2 | ||||||
| MIRT494872 | DYNLL2 | dynein light chain LC8-type 2 | |
|
2 | 2 | ||||||
| MIRT496130 | RNF103-CHMP3 | RNF103-CHMP3 readthrough | |
|
2 | 2 | ||||||
| MIRT496489 | CHMP3 | charged multivesicular body protein 3 | |
|
2 | 2 | ||||||
| MIRT496924 | CLMN | calmin | |
|
2 | 2 | ||||||
| MIRT497297 | TMEM119 | transmembrane protein 119 | |
|
2 | 2 | ||||||
| MIRT499103 | AGRN | agrin | |
|
2 | 2 | ||||||
| MIRT508979 | CXorf38 | chromosome X open reading frame 38 | |
|
2 | 2 | ||||||
| MIRT509911 | NIPAL1 | NIPA like domain containing 1 | |
|
2 | 2 | ||||||
| MIRT512820 | ARRDC2 | arrestin domain containing 2 | |
|
2 | 4 | ||||||
| MIRT512827 | KBTBD6 | kelch repeat and BTB domain containing 6 | |
|
2 | 4 | ||||||
| MIRT515360 | MRPL52 | mitochondrial ribosomal protein L52 | |
|
2 | 2 | ||||||
| MIRT516610 | TRIM58 | tripartite motif containing 58 | |
|
2 | 2 | ||||||
| MIRT517053 | TLDC1 | TBC/LysM-associated domain containing 1 | |
|
2 | 2 | ||||||
| MIRT517637 | ZNF491 | zinc finger protein 491 | |
|
2 | 2 | ||||||
| MIRT518270 | LEAP2 | liver enriched antimicrobial peptide 2 | |
|
2 | 2 | ||||||
| MIRT518625 | STAR | steroidogenic acute regulatory protein | |
|
2 | 2 | ||||||
| MIRT518887 | N4BP2L2 | NEDD4 binding protein 2 like 2 | |
|
2 | 2 | ||||||
| MIRT519026 | PAICS | phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase | |
|
2 | 2 | ||||||
| MIRT520365 | UBE2G2 | ubiquitin conjugating enzyme E2 G2 | |
|
2 | 2 | ||||||
| MIRT521106 | SLC1A5 | solute carrier family 1 member 5 | |
|
2 | 2 | ||||||
| MIRT521943 | PHC3 | polyhomeotic homolog 3 | |
|
2 | 2 | ||||||
| MIRT522253 | NPEPPS | aminopeptidase puromycin sensitive | |
|
2 | 2 | ||||||
| MIRT522853 | KIAA1551 | KIAA1551 | |
|
2 | 2 | ||||||
| MIRT522868 | KIAA1549 | KIAA1549 | |
|
2 | 2 | ||||||
| MIRT524207 | DDX19B | DEAD-box helicase 19B | |
|
2 | 2 | ||||||
| MIRT526004 | ARHGAP27 | Rho GTPase activating protein 27 | |
|
2 | 2 | ||||||
| MIRT527769 | RRAD | RRAD, Ras related glycolysis inhibitor and calcium channel regulator | |
|
2 | 2 | ||||||
| MIRT527827 | TMEM74B | transmembrane protein 74B | |
|
2 | 2 | ||||||
| MIRT527861 | SMOC1 | SPARC related modular calcium binding 1 | |
|
2 | 2 | ||||||
| MIRT528040 | WT1 | Wilms tumor 1 | |
|
2 | 2 | ||||||
| MIRT529802 | ZDHHC8 | zinc finger DHHC-type containing 8 | |
|
2 | 2 | ||||||
| MIRT531723 | TARS | threonyl-tRNA synthetase | |
|
2 | 2 | ||||||
| MIRT531996 | BARD1 | BRCA1 associated RING domain 1 | |
|
2 | 2 | ||||||
| MIRT533338 | UNC119B | unc-119 lipid binding chaperone B | |
|
2 | 2 | ||||||
| MIRT533621 | TNFRSF13C | TNF receptor superfamily member 13C | |
|
2 | 2 | ||||||
| MIRT533652 | TMOD2 | tropomodulin 2 | |
|
2 | 2 | ||||||
| MIRT534397 | SENP3 | SUMO1/sentrin/SMT3 specific peptidase 3 | |
|
2 | 2 | ||||||
| MIRT538686 | CCDC80 | coiled-coil domain containing 80 | |
|
2 | 2 | ||||||
| MIRT540444 | RBM43 | RNA binding motif protein 43 | |
|
2 | 2 | ||||||
| MIRT542586 | ZC3H12C | zinc finger CCCH-type containing 12C | |
|
2 | 8 | ||||||
| MIRT542796 | PLEKHA3 | pleckstrin homology domain containing A3 | |
|
2 | 4 | ||||||
| MIRT542991 | ERC1 | ELKS/RAB6-interacting/CAST family member 1 | |
|
2 | 2 | ||||||
| MIRT544424 | ZNF460 | zinc finger protein 460 | |
|
2 | 4 | ||||||
| MIRT545740 | ESF1 | ESF1 nucleolar pre-rRNA processing protein homolog | |
|
2 | 4 | ||||||
| MIRT552618 | ZBTB8A | zinc finger and BTB domain containing 8A | |
|
2 | 2 | ||||||
| MIRT554456 | SAMD8 | sterile alpha motif domain containing 8 | |
|
2 | 2 | ||||||
| MIRT569663 | PRIM1 | DNA primase subunit 1 | |
|
2 | 2 | ||||||
| MIRT569924 | PCSK9 | proprotein convertase subtilisin/kexin type 9 | |
|
2 | 2 | ||||||
| MIRT570140 | IL1RL2 | interleukin 1 receptor like 2 | |
|
2 | 2 | ||||||
| MIRT573558 | TMEM120B | transmembrane protein 120B | |
|
2 | 2 | ||||||
| MIRT574282 | OPRD1 | opioid receptor delta 1 | |
|
2 | 2 | ||||||
| MIRT575335 | Fbxo6 | F-box protein 6 | |
|
2 | 2 | ||||||
| MIRT607057 | IDS | iduronate 2-sulfatase | |
|
2 | 2 | ||||||
| MIRT607078 | POM121L7 | POM121 transmembrane nucleoporin like 7 pseudogene | |
|
2 | 2 | ||||||
| MIRT607500 | HEBP2 | heme binding protein 2 | |
|
2 | 2 | ||||||
| MIRT607530 | ABL2 | ABL proto-oncogene 2, non-receptor tyrosine kinase | |
|
2 | 2 | ||||||
| MIRT607808 | RHBDL2 | rhomboid like 2 | |
|
2 | 2 | ||||||
| MIRT608079 | ZFP14 | ZFP14 zinc finger protein | |
|
2 | 2 | ||||||
| MIRT609119 | NUDT3 | nudix hydrolase 3 | |
|
2 | 2 | ||||||
| MIRT609745 | PTCH1 | patched 1 | |
|
2 | 2 | ||||||
| MIRT612904 | HIF1AN | hypoxia inducible factor 1 alpha subunit inhibitor | |
|
2 | 2 | ||||||
| MIRT618720 | PCSK2 | proprotein convertase subtilisin/kexin type 2 | |
|
2 | 2 | ||||||
| MIRT618778 | HLA-E | major histocompatibility complex, class I, E | |
|
2 | 2 | ||||||
| MIRT619015 | SLC2A6 | solute carrier family 2 member 6 | |
|
2 | 2 | ||||||
| MIRT623223 | MSANTD4 | Myb/SANT DNA binding domain containing 4 with coiled-coils | |
|
2 | 2 | ||||||
| MIRT623819 | GEMIN6 | gem nuclear organelle associated protein 6 | |
|
2 | 2 | ||||||
| MIRT625704 | OPTN | optineurin | |
|
2 | 2 | ||||||
| MIRT626437 | CHDH | choline dehydrogenase | |
|
2 | 2 | ||||||
| MIRT628087 | KAT7 | lysine acetyltransferase 7 | |
|
2 | 2 | ||||||
| MIRT628936 | APOB | apolipoprotein B | |
|
2 | 2 | ||||||
| MIRT633543 | PGBD5 | piggyBac transposable element derived 5 | |
|
2 | 2 | ||||||
| MIRT634348 | SGOL1 | shugoshin 1 | |
|
2 | 2 | ||||||
| MIRT634611 | KIAA1919 | major facilitator superfamily domain containing 4B | |
|
2 | 2 | ||||||
| MIRT635243 | QPRT | quinolinate phosphoribosyltransferase | |
|
2 | 2 | ||||||
| MIRT636681 | BTLA | B and T lymphocyte associated | |
|
2 | 2 | ||||||
| MIRT636923 | ZNF845 | zinc finger protein 845 | |
|
2 | 2 | ||||||
| MIRT637606 | ZNF554 | zinc finger protein 554 | |
|
2 | 2 | ||||||
| MIRT639242 | RANGAP1 | Ran GTPase activating protein 1 | |
|
2 | 2 | ||||||
| MIRT640835 | POLR3A | RNA polymerase III subunit A | |
|
2 | 2 | ||||||
| MIRT642098 | FBXL2 | F-box and leucine rich repeat protein 2 | |
|
2 | 2 | ||||||
| MIRT643087 | PTPLAD2 | 3-hydroxyacyl-CoA dehydratase 4 | |
1 | 1 | |||||||
| MIRT643934 | C17orf104 | meiosis specific with coiled-coil domain | |
|
2 | 2 | ||||||
| MIRT644353 | FXN | frataxin | |
|
2 | 2 | ||||||
| MIRT645628 | SF3A3 | splicing factor 3a subunit 3 | |
|
2 | 2 | ||||||
| MIRT645754 | FAM213A | family with sequence similarity 213 member A | |
|
2 | 2 | ||||||
| MIRT646329 | MVB12B | multivesicular body subunit 12B | |
|
2 | 2 | ||||||
| MIRT646817 | COX19 | COX19, cytochrome c oxidase assembly factor | |
|
2 | 2 | ||||||
| MIRT647019 | ADCY2 | adenylate cyclase 2 | |
|
2 | 2 | ||||||
| MIRT647621 | IGSF9B | immunoglobulin superfamily member 9B | |
|
2 | 2 | ||||||
| MIRT648517 | PIGG | phosphatidylinositol glycan anchor biosynthesis class G | |
|
2 | 2 | ||||||
| MIRT648871 | ABCA6 | ATP binding cassette subfamily A member 6 | |
|
2 | 2 | ||||||
| MIRT649620 | ITPKC | inositol-trisphosphate 3-kinase C | |
|
2 | 2 | ||||||
| MIRT650062 | CCDC134 | coiled-coil domain containing 134 | |
|
2 | 2 | ||||||
| MIRT650734 | TNFSF8 | TNF superfamily member 8 | |
|
2 | 2 | ||||||
| MIRT652389 | TMEM55A | phosphatidylinositol-4,5-bisphosphate 4-phosphatase 2 | |
|
2 | 2 | ||||||
| MIRT654352 | RBM27 | RNA binding motif protein 27 | |
|
2 | 2 | ||||||
| MIRT655796 | NOVA2 | NOVA alternative splicing regulator 2 | |
|
2 | 2 | ||||||
| MIRT657329 | HNRNPK | heterogeneous nuclear ribonucleoprotein K | |
|
2 | 2 | ||||||
| MIRT657734 | GOSR1 | golgi SNAP receptor complex member 1 | |
|
2 | 2 | ||||||
| MIRT660613 | ANO6 | anoctamin 6 | |
|
2 | 2 | ||||||
| MIRT661243 | ARL17B | ADP ribosylation factor like GTPase 17B | |
|
2 | 2 | ||||||
| MIRT662245 | PGBD4 | piggyBac transposable element derived 4 | |
|
2 | 2 | ||||||
| MIRT662921 | MED18 | mediator complex subunit 18 | |
|
2 | 2 | ||||||
| MIRT662963 | JPH2 | junctophilin 2 | |
|
2 | 2 | ||||||
| MIRT663347 | ZNF74 | zinc finger protein 74 | |
|
2 | 2 | ||||||
| MIRT663528 | MASTL | microtubule associated serine/threonine kinase like | |
|
2 | 2 | ||||||
| MIRT663547 | CCR6 | C-C motif chemokine receptor 6 | |
|
2 | 2 | ||||||
| MIRT663977 | ZNF786 | zinc finger protein 786 | |
|
2 | 2 | ||||||
| MIRT664084 | METTL2B | methyltransferase like 2B | |
|
2 | 2 | ||||||
| MIRT664358 | C16orf45 | chromosome 16 open reading frame 45 | |
|
2 | 2 | ||||||
| MIRT664421 | TIGD6 | tigger transposable element derived 6 | |
|
2 | 2 | ||||||
| MIRT664476 | ZYG11B | zyg-11 family member B, cell cycle regulator | |
|
2 | 2 | ||||||
| MIRT664979 | TDRD1 | tudor domain containing 1 | |
|
2 | 2 | ||||||
| MIRT665128 | PYCRL | pyrroline-5-carboxylate reductase 3 | |
|
2 | 2 | ||||||
| MIRT666259 | SLC31A1 | solute carrier family 31 member 1 | |
|
2 | 2 | ||||||
| MIRT666321 | SLC16A10 | solute carrier family 16 member 10 | |
|
2 | 2 | ||||||
| MIRT666881 | POLQ | DNA polymerase theta | |
|
2 | 2 | ||||||
| MIRT668469 | FADS6 | fatty acid desaturase 6 | |
|
2 | 2 | ||||||
| MIRT669554 | ALG14 | ALG14, UDP-N-acetylglucosaminyltransferase subunit | |
|
2 | 2 | ||||||
| MIRT669835 | ISCA2 | iron-sulfur cluster assembly 2 | |
|
2 | 2 | ||||||
| MIRT670185 | CCDC142 | coiled-coil domain containing 142 | |
|
2 | 2 | ||||||
| MIRT672020 | PXMP4 | peroxisomal membrane protein 4 | |
|
2 | 2 | ||||||
| MIRT672070 | KIAA0930 | KIAA0930 | |
|
2 | 2 | ||||||
| MIRT672475 | RTTN | rotatin | |
|
2 | 2 | ||||||
| MIRT672851 | ICOSLG | inducible T-cell costimulator ligand | |
|
2 | 2 | ||||||
| MIRT673090 | AK1 | adenylate kinase 1 | |
|
2 | 2 | ||||||
| MIRT673581 | KDELC2 | KDEL motif containing 2 | |
|
2 | 2 | ||||||
| MIRT674586 | SLC35B4 | solute carrier family 35 member B4 | |
|
2 | 2 | ||||||
| MIRT675001 | STRN3 | striatin 3 | |
|
2 | 2 | ||||||
| MIRT679018 | MTMR10 | myotubularin related protein 10 | |
|
2 | 2 | ||||||
| MIRT679680 | STAT3 | signal transducer and activator of transcription 3 | |
|
2 | 2 | ||||||
| MIRT682833 | FLG2 | filaggrin family member 2 | |
|
2 | 2 | ||||||
| MIRT682886 | SAR1A | secretion associated Ras related GTPase 1A | |
|
2 | 2 | ||||||
| MIRT683442 | AP3B2 | adaptor related protein complex 3 beta 2 subunit | |
|
2 | 2 | ||||||
| MIRT687040 | RNF115 | ring finger protein 115 | |
|
2 | 2 | ||||||
| MIRT691957 | RHOH | ras homolog family member H | |
|
2 | 2 | ||||||
| MIRT694625 | ZFPM1 | zinc finger protein, FOG family member 1 | |
|
2 | 2 | ||||||
| MIRT695637 | SLC26A2 | solute carrier family 26 member 2 | |
|
2 | 2 | ||||||
| MIRT697640 | WRN | Werner syndrome RecQ like helicase | |
|
2 | 2 | ||||||
| MIRT702009 | MIDN | midnolin | |
|
2 | 2 | ||||||
| MIRT702034 | MOGAT1 | monoacylglycerol O-acyltransferase 1 | |
|
2 | 2 | ||||||
| MIRT704789 | CDK6 | cyclin dependent kinase 6 | |
|
2 | 2 | ||||||
| MIRT705728 | AMMECR1L | AMMECR1 like | |
|
2 | 2 | ||||||
| MIRT705879 | ADM | adrenomedullin | |
|
2 | 2 | ||||||
| MIRT706220 | ACOT9 | acyl-CoA thioesterase 9 | |
|
2 | 2 | ||||||
| MIRT708418 | CERS4 | ceramide synthase 4 | |
|
2 | 2 | ||||||
| MIRT709114 | C3orf18 | chromosome 3 open reading frame 18 | |
|
2 | 2 | ||||||
| MIRT709595 | ITPA | inosine triphosphatase | |
|
2 | 2 | ||||||
| MIRT710945 | MRPL45 | mitochondrial ribosomal protein L45 | |
|
2 | 2 | ||||||
| MIRT712345 | NLN | neurolysin | |
|
2 | 2 | ||||||
| MIRT712530 | CYTH2 | cytohesin 2 | |
|
2 | 2 | ||||||
| MIRT714019 | ASCC1 | activating signal cointegrator 1 complex subunit 1 | |
|
2 | 2 | ||||||
| MIRT717287 | ARMC12 | armadillo repeat containing 12 | |
|
2 | 2 | ||||||
| MIRT717733 | FGF1 | fibroblast growth factor 1 | |
|
2 | 2 | ||||||
| MIRT718083 | CLIC5 | chloride intracellular channel 5 | |
|
2 | 2 | ||||||
| MIRT718562 | MUC20 | mucin 20, cell surface associated | |
|
2 | 2 | ||||||
| MIRT721639 | MYLK3 | myosin light chain kinase 3 | |
|
2 | 2 | ||||||
| MIRT722632 | C8A | complement C8 alpha chain | |
|
2 | 2 | ||||||
| MIRT723177 | CDCA4 | cell division cycle associated 4 | |
|
2 | 2 | ||||||
| MIRT725523 | FAM229B | family with sequence similarity 229 member B | |
|
2 | 2 | ||||||
| miRNA-Drug Resistance Associations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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