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PHDcleav specifications

Information


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

Documentation


Publication for PHDcleav

PHDcleav citations

 (2)
library_books

Drosha Promotes Splicing of a Pre microRNA like Alternative Exon

2014
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 […]

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Proceedings of the 2013 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference

2013
PMCID: 3851158
PMID: 24267415
DOI: 10.1186/1471-2105-14-S14-S1

[…] cleavage sites []. the method, which can make use of structural information, was trained and tested on experimentally-validated mirnas from mirbase and found to have over 86% accuracy. a web server, phdcleav, is available to allow users to predict dicer cleavage sites in pre-mirna., jie shen et al described three-dimensional modeling of the rat α-fetoprotein, a plasma protein that can sequester […]


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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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