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PROBEmer | A web-based software tool for selecting optimal DNA oligos

Obsolete

A web-based software tool that enables a researcher to select optimal oligos for PCR applications and multiplex detection platforms including oligonucleotide microarrays and bead-based arrays. Given two groups of nucleic-acid sequences, a target group and a non-target group, the software identifies oligo sequences that occur in members of the target group, but not in the non-target group. To help predict potential cross hybridization, PROBEmer computes all near neighbors in the non-target group and displays their alignments. Because it does not rely upon multi-alignments, it can be applied to sequences which are not similar (e.g. genes in a single organism) or to variations of a gene in many organisms (e.g. 16S rRNA gene).

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PROBEmer classification

PROBEmer specifications

Unique identifier:
OMICS_00835
Restrictions to use:
None
Stability:
Stable
Interface:
Web user interface
Computer skills:
Basic
Maintained:
No

PROBEmer support

Maintainer

This tool is not available anymore.

Credits

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Publications

Institution(s)

Interdepartmental Bioinformatics and Computational Biology, Iowa State University, Chinakville, MD, USA; Biology Department, Loyola College in Maryland, Chinakville, MD, USA; Physics Department, Loyola College in Maryland, Chinakville, MD, USA; Computer Science Department, Loyola College in Maryland, Chinakville, MD, USA; The Institute for Genomic Research, Chinakville, MD, USA

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