Please cite:
Dimitra Karagkouni, Maria D. Paraskevopoulou, Serafeim Chatzopoulos, Ioannis S. Vlachos, Spyros Tastsoglou, Ilias Kanellos, Dimitris Papadimitriou, Ioannis Kavakiotis, Sofia Maniou, Giorgos Skoufos, Thanasis Vergoulis, Theodore Dalamagas, Artemis G. Hatzigeorgiou; DIANA-TarBase v8: a decade-long collection of experimentally supported miRNA–gene interactions, Nucleic Acids Research, gkx1141, https://doi.org/10.1093/nar/gkx1141
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hsa-miR-628-3p


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Interactions: 238, Experiments: (low: , high: , unknown: ) Cell lines: , Tissues: , Publications:
Gene name miRNA name Experiments
throughput
Publications Cell lines Tissues Pred. Score
USP6 hsa-miR-628-3p low: 0 high: 1 1 1 1 -
High-throughput experiments (1 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Moore M et al. 2015 IP Liver HUH7.5 N/A N/A
Location Method Result Regulation Validation Type Source
chr17:5142109-5142184 CLEAR-CLIP POSITIVE DIRECT TarBase 8.0
ZIC5 hsa-miR-628-3p low: 0 high: 1 1 1 1 -
High-throughput experiments (1 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Grosswendt S et al. 2014 IP Kidney HEK293 N/A N/A
Location Method Result Regulation Validation Type Source
chr13:99963627-99963652 Chimeric fragments POSITIVE DIRECT TarBase 8.0
PAPD4 hsa-miR-628-3p low: 0 high: 1 1 1 1 -
High-throughput experiments (1 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Grosswendt S et al. 2014 IP Kidney HEK293 N/A N/A
Location Method Result Regulation Validation Type Source
chr5:79686455-79686479 Chimeric fragments POSITIVE DIRECT TarBase 8.0
RCC2 hsa-miR-628-3p low: 0 high: 1 1 1 1 -
High-throughput experiments (1 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Grosswendt S et al. 2014 IP Kidney HEK293 N/A N/A
Location Method Result Regulation Validation Type Source
chr1:17408671-17408700 Chimeric fragments POSITIVE DIRECT TarBase 8.0
HSP90B1 hsa-miR-628-3p low: 0 high: 6 3 5 2 -
High-throughput experiments (6 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCLBAC N/A N/A
Location Method Result Regulation Validation Type Source
chr12:103942703-103942720 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD1 N/A N/A
Location Method Result Regulation Validation Type Source
chr12:103942703-103942720 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCL35 N/A N/A
Location Method Result Regulation Validation Type Source
chr12:103942703-103942720 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Haecker Irina et al. 2012 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr12:103942703-103942720 HITS-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr12:103942703-103942720 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr12:103942703-103942720 PAR-CLIP POSITIVE DIRECT TarBase 7.0
BBX hsa-miR-628-3p low: 0 high: 6 2 5 2 -
High-throughput experiments (6 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCLBAC N/A N/A
Location Method Result Regulation Validation Type Source
chr3:107807076-107807096 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD3 N/A N/A
Location Method Result Regulation Validation Type Source
chr3:107807076-107807096 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD1 N/A N/A
Location Method Result Regulation Validation Type Source
chr3:107807076-107807096 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCL35 N/A N/A
Location Method Result Regulation Validation Type Source
chr3:107807076-107807096 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr3:107809840-107809858 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr3:107807076-107807096 PAR-CLIP POSITIVE DIRECT TarBase 7.0
ZNF107 hsa-miR-628-3p low: 0 high: 6 1 2 1 -
High-throughput experiments (6 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr7:64707826-64707843 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr7:64707569-64707591 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr7:64706820-64706835 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr7:64710220-64710242 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr7:64707826-64707843 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr7:64707569-64707591 PAR-CLIP POSITIVE DIRECT TarBase 7.0
CRK hsa-miR-628-3p low: 0 high: 5 2 5 2 -
High-throughput experiments (5 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCLBAC N/A N/A
Location Method Result Regulation Validation Type Source
chr17:1422967-1422986 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD3 N/A N/A
Location Method Result Regulation Validation Type Source
chr17:1422967-1422986 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD1 N/A N/A
Location Method Result Regulation Validation Type Source
chr17:1422967-1422986 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCL35 N/A N/A
Location Method Result Regulation Validation Type Source
chr17:1422967-1422986 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr17:1422967-1422986 PAR-CLIP POSITIVE DIRECT TarBase 7.0
SNX10 hsa-miR-628-3p low: 0 high: 4 2 4 2 -
High-throughput experiments (4 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCLBAC N/A N/A
Location Method Result Regulation Validation Type Source
chr7:26373365-26373385 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD3 N/A N/A
Location Method Result Regulation Validation Type Source
chr7:26373365-26373385 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCL35 N/A N/A
Location Method Result Regulation Validation Type Source
chr7:26373365-26373385 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr7:26373365-26373385 PAR-CLIP POSITIVE DIRECT TarBase 7.0
SAMD8 hsa-miR-628-3p low: 0 high: 4 2 4 2 -
High-throughput experiments (4 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD3 N/A N/A
Location Method Result Regulation Validation Type Source
chr10:75177823-75177844 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Skalsky Rebecca L. et al. 2012 IP N/A LCL35 N/A N/A
Location Method Result Regulation Validation Type Source
chr10:75177823-75177844 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr10:75177823-75177844 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr10:75177823-75177844 PAR-CLIP POSITIVE DIRECT TarBase 7.0
TPX2 hsa-miR-628-3p low: 0 high: 3 2 3 1 -
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Haecker Irina et al. 2012 IP Bone Marrow BCBL1 N/A N/A
Location Method Result Regulation Validation Type Source
chr20:31801356-31801377 HITS-CLIP POSITIVE DIRECT TarBase 7.0
Balakrishnan I et al. 2014 IP Bone Marrow HS5 N/A N/A
Location Method Result Regulation Validation Type Source
chr20:31801356-31801377 HITS-CLIP POSITIVE DIRECT TarBase 7.0
Balakrishnan I et al. 2014 IP Bone Marrow HS27A N/A N/A
Location Method Result Regulation Validation Type Source
chr20:31801356-31801377 HITS-CLIP POSITIVE DIRECT TarBase 7.0
LRCH1 hsa-miR-628-3p low: 0 high: 3 2 3 2 -
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCL35 N/A N/A
Location Method Result Regulation Validation Type Source
chr13:46750591-46750619 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr13:46750591-46750619 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr13:46750591-46750619 PAR-CLIP POSITIVE DIRECT TarBase 7.0
PPP1CC hsa-miR-628-3p low: 0 high: 3 3 3 3 -
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCL35 N/A N/A
Location Method Result Regulation Validation Type Source
chr12:110731796-110731818 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Karginov FV et al. 2013 IP Kidney 293S N/A no treatment (control)
Location Method Result Regulation Validation Type Source
chr12:110730622-110730642 HITS-CLIP POSITIVE DIRECT TarBase 7.0
Balakrishnan I et al. 2014 IP Bone Marrow HS5 N/A N/A
Location Method Result Regulation Validation Type Source
chr12:110730622-110730642 HITS-CLIP POSITIVE DIRECT TarBase 7.0
EIF4G2 hsa-miR-628-3p low: 0 high: 3 1 1 1 -
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Karginov FV et al. 2013 IP Kidney 293S N/A treatment:hippuristanol
Location Method Result Regulation Validation Type Source
chr11:10805984-10806009 HITS-CLIP POSITIVE DIRECT TarBase 7.0
chr11:10805984-10806009 HITS-CLIP POSITIVE DIRECT TarBase 7.0
Karginov FV et al. 2013 IP Kidney 293S N/A no treatment (control)
Location Method Result Regulation Validation Type Source
chr11:10805984-10806009 HITS-CLIP POSITIVE DIRECT TarBase 7.0
DR1 hsa-miR-628-3p low: 0 high: 3 2 2 2 -
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Skalsky Rebecca L. et al. 2012 IP N/A LCLBACD3 N/A N/A
Location Method Result Regulation Validation Type Source
chr1:93363113-93363126 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr1:93361623-93361646 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr1:93363113-93363126 PAR-CLIP POSITIVE DIRECT TarBase 7.0
MYO1D hsa-miR-628-3p low: 0 high: 3 1 2 1 0.511
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr17:32493047-32493067 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr17:32775868-32775896 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr17:32493047-32493067 PAR-CLIP POSITIVE DIRECT TarBase 7.0
TECPR2 hsa-miR-628-3p low: 0 high: 3 1 1 1 -
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Karginov FV et al. 2013 IP Kidney 293S N/A treatment: arsenite
Location Method Result Regulation Validation Type Source
chr14:102500141-102500166 HITS-CLIP POSITIVE DIRECT TarBase 7.0
Karginov FV et al. 2013 IP Kidney 293S N/A no treatment (control)
Location Method Result Regulation Validation Type Source
chr14:102500141-102500166 HITS-CLIP POSITIVE DIRECT TarBase 7.0
chr14:102500141-102500166 HITS-CLIP POSITIVE DIRECT TarBase 7.0
ZNF429 hsa-miR-628-3p low: 0 high: 3 1 2 1 0.511
High-throughput experiments (3 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr19:21537362-21537379 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr19:21537885-21537904 PAR-CLIP POSITIVE DIRECT TarBase 7.0
chr19:21537362-21537379 PAR-CLIP POSITIVE DIRECT TarBase 7.0
RBFOX2 hsa-miR-628-3p low: 0 high: 2 2 2 2 0.886
High-throughput experiments (2 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Karginov FV et al. 2013 IP Kidney 293S N/A treatment: arsenite
Location Method Result Regulation Validation Type Source
chr22:35744134-35744160 HITS-CLIP POSITIVE DIRECT TarBase 7.0
Haecker Irina et al. 2012 IP Bone Marrow BCBL1 N/A N/A
Location Method Result Regulation Validation Type Source
chr22:35744134-35744160 HITS-CLIP POSITIVE DIRECT TarBase 7.0
ABT1 hsa-miR-628-3p low: 0 high: 2 1 2 1 0.634
High-throughput experiments (2 positive, 0 negative)
Publication Methods Tissue Cell line Tested cell line Exp. condition
Eva Gottwein et al. 2011 IP Pleura BC3 N/A N/A
Location Method Result Regulation Validation Type Source
chr6:26598688-26598707 PAR-CLIP POSITIVE DIRECT TarBase 7.0
Eva Gottwein et al. 2011 IP Pleura BC1 N/A N/A
Location Method Result Regulation Validation Type Source
chr6:26598688-26598707 PAR-CLIP POSITIVE DIRECT TarBase 7.0