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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 citations

 (4)
library_books

Dysregulated IER3 Expression is Associated with Enhanced Apoptosis in Titin Based Dilated Cardiomyopathy

2017
Int J Mol Sci
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 ( […]

call_split

Two Enhancers Control Transcription of Drosophila muscleblind in the Embryonic Somatic Musculature and in the Central Nervous System

2014
PLoS One
PMCID: 3965525
PMID: 24667536
DOI: 10.1371/journal.pone.0093125
call_split See protocol

[…] ng 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. […]

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Development of a Fur dependent and tightly regulated expression system in Escherichia coli for toxic protein synthesis

2013
BMC Biotechnol
PMCID: 3621691
PMID: 23510048
DOI: 10.1186/1472-6750-13-25
call_split See protocol

[…] moter prediction program from Softberry (http://linux1.softberry.com/berry.phtml?topic=bprom&group=programs&subgroup=gfindb), BDGP-Promoter (http://www.fruitfly.org/seq_tools/promoter.html) and SCOPE-Suite for Computational identification Of Promoter Elements []. […]

library_books

Identification of Early Zygotic Genes in the Yellow Fever Mosquito Aedes aegypti and Discovery of a Motif Involved in Early Zygotic Genome Activation

2012
PLoS One
PMCID: 3311545
PMID: 22457801
DOI: 10.1371/journal.pone.0033933

[…] The Suite for Computational Identification of Promoter Elements (SCOPE) is a parameter-free program designed to identify cis sequences in a set of co-regulated genes (http://genie.dartmouth.edu/scope/). S […]

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

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