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MaxExpect specifications


Unique identifier OMICS_03458
Name MaxExpect
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for MaxExpect

MaxExpect in publications

PMCID: 5933463
PMID: 29708552
DOI: 10.3791/57379

[…] webserver". note: on this site, different algorithms can be used. the three prediction tools that give the best results for the probe designs are: "fold" (lowest free energy structure), "maxexpect" (highly probable base pairs), and "probnot" (probable base pairs including pseudoknots). these three analyses can be performed and compared. other web servers, such as the vienna rna […]

PMCID: 5909464
PMID: 29394378
DOI: 10.1093/nar/gky046

[…] segments, partition functions () were first calculated with the ‘partition’ command in rnastructure; the ‘max expect’ structures () were used as rna structure models, which was calculated using the ‘maxexpect’ command. for full length hneat1_s and mneat1_s structure modeling, partition function predictions are computationally intense, so minimum free energy structures were instead calculated […]

PMCID: 5583670
PMID: 28831195
DOI: 10.1038/emi.2017.62

[…] recombination event between the miller cluster and the purdue cluster., the predicted stem-loop structures of tgev ahhf, sc-y, h16, virulent purdue and attenuated h strains were determined using maxexpect rna structure software (version 5.8.1) (web servers for rna secondary structure prediction, at nt positions 4084–4143 (upstream […]

PMCID: 5319793
PMID: 28166241
DOI: 10.1371/journal.pgen.1006563

[…] prediction pipelines previously described []. briefly, to predict proximal ecss, we predicted the secondary structure of the region within 200 bp of each editing site using the programs partition, maxexpect, and ct2dot from the rnastructure package [], and identified ecs-like sequences with at least 20 bases paired in the stems and a max bulge of 8. the same method was used to predict proximal […]

PMCID: 5613972
PMID: 28955971
DOI: 10.1016/j.bbrep.2016.09.014

[…] did not cause the same effect as nucleotide exchange (for example, oligo a (25–30) del vs oligo a (25–30) com). thus, we predicted the secondary structure of the oligo dnas by using a program maxexpect web server , . as shown in , oligo a is predicted to have two small stem-loops which are bridged by short and nicked double-stranded dna (dumbbell shape). similar structures are also found […]

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MaxExpect institution(s)
Department of Biochemistry and Biophysics, University of Rochester Medical Center, Chinahester, NY, USA

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