SCOPE 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 Motif discovery De novo motif discovery chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

SCOPE specifications

Information


Unique identifier OMICS_03828
Name SCOPE
Alternative name Suite for Computational identification Of Promoter Elements
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.1.0
Stability No
Maintained No

Publication for Suite for Computational identification Of Promoter Elements

SCOPE in publications

 (10)
PMCID: 5412309
PMID: 28353642
DOI: 10.3390/ijms18040723

[…] was used to identify potential ier3 binding motifs. minimal motif width from 6 to 4 and maximum motif width from 6–10, 14 and 50 were tested. the ier3 binding motif was confirmed by chipmotifs [], suite for computational identification of promoter elements (scope) [] and discovering ranked imbalanced motifs using suffix trees (drimust) [] and then analyzed by find individual motif occurrences […]

PMCID: 5155496
PMID: 27990252
DOI: 10.5256/f1000research.9787.r15551

[…] reported except in circumstances where no biological process was enriched with the gene set, in which case, go terms for components were highlighted. a p-value cutoff was set to 0.05 (see )., the suite for computational identification of promoter elements, “scope” motif finder ( http://genie.dartmouth.edu/scope/) was used to predict candidate promoter motifs in this study. the scope motif […]

PMCID: 4713447
PMID: 26751956
DOI: 10.1371/journal.pone.0146447

[…] processes as described in the gene ontology (go) database using david 6.7 [] and default parameters., we searched for conserved motifs in the promoter region of the zygotic mrnas using scope (suite for computational identification of promoter elements), which is a parameter-free program designed to identify cis sequences in a set of co-regulated mrnas (http://genie.dartmouth.edu/scope/) […]

PMCID: 3965525
PMID: 24667536
DOI: 10.1371/journal.pone.0093125

[…] sites used jaspar . phylogenetic conservation employed the whole genome rvista browser . est mapping was according to the ucsc genome browser database . predicted promoter consensus sequences used suite for computational identification of promoter elements (scope) . genomes of reference were drosophila bdgp r5/dm3 and human grch37releases., we thank j. l. gómez-skarmeta and a. fernández-miñán […]

PMCID: 3744398
PMID: 23966855
DOI: 10.1371/journal.ppat.1003519

[…] bp around peak summits in sfl1p or sfl2p data sets were extracted using the extract genomic dna tool version 2.2.2. the resulting sequences were used as input for motif discovery using the scope (suite for computational identification of promoter elements, version 2.1.0) program (http://genie.dartmouth.edu/scope/) or the regulatory sequence analysis tools ([rsat] http://rsat.ulb.ac.be/rsat/) […]


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

SCOPE institution(s)
Department of Computer Science and Engineering, University of Washington, Seattle, WA, USA

SCOPE reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review SCOPE