PHDcleav specifications


Unique identifier OMICS_13843
Name PHDcleav
Interface Web user interface
Restrictions to use None
Input data One or more pre-miRNA sequences
Computer skills Basic
Stability Stable
Maintained Yes


Publication for PHDcleav

PHDcleav citations


Genetic variants in microRNA genes: impact on microRNA expression, function, and disease

Front Genet
PMCID: 4439572
PMID: 26052338
DOI: 10.3389/fgene.2015.00186

[…] in miRNA promoter regions on transcription factor binding, the dPORE-miRNA database can be queried (). Algorithms to predict Dicer cleavage patterns and preferential strand loading into RISC, such as PHDcleav and RISC binder (, ) could also be useful to assess the impact of variants. The predicted effect on Dicer cleavage and RISC binding induced by variants is incorporated in the miRvar database […]


Drosha Promotes Splicing of a Pre microRNA like Alternative Exon

PLoS Genet
PMCID: 4006729
PMID: 24786770
DOI: 10.1371/journal.pgen.1004312

[…] mature miRNAs are generated from exon 5 in cells, we predicted miRNA sequences based on the identified Drosha cleavage sites and extrapolation of Dicer cleavage sites using the prediction algorithm, PHDcleav (). We designed stem-loop primers for reverse transcription that were specific for all predicted mature miRNA 3′ ends and the 3′ ends detected by 3′RACE (), and determined the actual cleavag […]

PHDcleav institution(s)
Bioinformatics Centre, Institute of Microbial Technology, Chandigarh, India; National Institute for Microbial Forensics & Food and Agricultural Biosecurity (NIMFFAB), Department of Biochemistry & Molecular Biology, Oklahoma State University, Stillwater, OK, USA; Bioinformatics Laboratory, Plant Biology Division, The Samuel Roberts Noble Foundation, Ardmore, OK, USA
PHDcleav funding source(s)
This work was funded by CSIR grant (advanced centre for protein informatics, science and technology).

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