RNApromo statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Structural motif detection chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

RNApromo specifications

Information


Unique identifier OMICS_08118
Name RNApromo
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publications for RNApromo

RNApromo in publications

 (7)
PMCID: 4719072
PMID: 26041786
DOI: 10.1093/bib/bbv031

[…] []. a more extensive review of the influence of rna structural constraints in the context of motif discovery at rbp binding sites can be found in []. the already mentioned memeris [], cmfinder [], rnapromo [], structred [], the algorithm by li and collaborators [], rnacontext and rbpmotif [, ], graphprot [] and zagros [] are all tools that use, with different strategies and to different […]

PMCID: 4303715
PMID: 25504152
DOI: 10.1093/bfgp/elu047

[…] on the rbpmotif web server []., the second approach considers rna secondary structure explicitly and includes stochastic context-free grammar (scfg) and graphical approaches. cmfinder [] and rnapromo [] both start with a set of structures predicted using thermodynamic methods. rnapromo was used to predict motifs in sets of rnas bound by rbps in yeast []. maticzka and colleagues developed […]

PMCID: 4253089
PMID: 24217996
DOI: 10.1002/wrna.1201

[…] with preferred secondary structure contexts (e.g., memeris and rnacontext) and directly modeling secondary structure recognized by the rbp using stochastic context-free grammars (e.g., cmfinder and rnapromo). the former better reconstruct known binding preferences for sequence-specific rbps but are not suitable for modeling rbps that recognize shape and geometry of rnas. future work in rbp […]

PMCID: 3919595
PMID: 24217913
DOI: 10.1093/nar/gkt1118

[…] d. mojavensis 5467–5542 nt; d. grimshawi 5399–5470 nt. sequence interval numbering is with respect to the translational start site (atg)., for prediction of rna structures, we used the ‘segal tool’ rnapromo (http://genie.weizmann.ac.il/pubs/rnamotifs08/rnamotifs08_predict.html). this tool predicts a structural motif common to a set of given rna sequences. the folding algorithm used in the segal […]

PMCID: 3698030
PMID: 23902564
DOI: 10.1186/1471-2105-14-S9-S4

[…] twice: first, to refine the initial alignment. second, to scan each sequence looking for hits, where top hits are treated as candidates. finally, motifs are merged to produce the final result., rnapromo [] is another em-based method for identifying rna motifs. it starts with a set of rna sequences and a set of suggested secondary structures. the motif prediction algorithm is composed of two […]


To access a full list of publications, you will need to upgrade to our premium service.

RNApromo institution(s)
Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehoboth, Rehovot, Israel

RNApromo reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review RNApromo