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EVOPRINTER specifications

Information


Unique identifier OMICS_24207
Name EVOPRINTER
Interface Web user interface
Restrictions to use None
Input format eBLAT
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Thomas B. Brody

Additional information


https://evoprinter.ninds.nih.gov/highschool/tutorial/index.html

Publication for EVOPRINTER

EVOPRINTER citations

 (12)
library_books

Cell Autonomous and Non cell autonomous Function of Hox Genes Specify Segmental Neuroblast Identity in the Gnathal Region of the Embryonic CNS in Drosophila

2016
PLoS Genet
PMCID: 4807829
PMID: 27015425
DOI: 10.1371/journal.pgen.1005961

[…] [], wgcx4 (gift from j. ng) [], uas-dfd, uas-scr, uas-antp, uas-lab (gifts from a. percival-smith) [, –]., to identify conserved hox binding sites in the ama locus we used the evoprinterhd (http://evoprinter.ninds.nih.gov/) and compared drosophila melanogaster to drosophila pseudoobscura and drosophila simulans. entry sequence was the d. melanogaster ama gene locus plus 3kb of upstream […]

library_books

cis regulatory analysis of the Drosophila pdm locus reveals a diversity of neural enhancers

2015
BMC Genomics
PMCID: 4574355
PMID: 26377945
DOI: 10.1186/s12864-015-1897-2

[…] within the pdm locus (http://genome.ucsc.edu/). the pdm locus is approximately 125 kb (chr2l:12,565,558-12,690,307). the phylogenetic comparative analysis of these sequences was performed using the evoprinter programs (http://evoprinter.ninds.nih.gov/) and included the 12 available drosophilids. cscs identified from overlapping evoprints were annotated to include gene name hyphenated […]

library_books

Early Phase of Plasticity Related Gene Regulation and SRF Dependent Transcription in the Hippocampus

2013
PLoS One
PMCID: 3720722
PMID: 23935853
DOI: 10.1371/journal.pone.0068078

[…] was performed by aligning the sequences with blast-bl2seq (http://blast.ncbi.nlm.nih.gov/blast.cgi), using a word letter size 16. to refine the blast results a further analysis was carried out with evoprinter (http://evoprinter.ninds.nih.gov/) . finally, conserved domains were analyzed with jaspar (http://jaspar.cgb.ki.se/), using the ma0083.1 srf binding matrix with a threshold score of 0.8., […]

library_books

Unique Alterations of an Ultraconserved Non Coding Element in the 3′UTR of ZIC2 in Holoprosencephaly

2012
PLoS One
PMCID: 3409191
PMID: 22859937
DOI: 10.1371/journal.pone.0039026

[…] using with a zeiss axiocam hrc camera. laser confocal microscopic images were obtained using a zeiss lsm 501 meta laser scanning microscope., as an initial step, we performed an evoprint (http://evoprinter.ninds.nih.gov/evoprintprogramhd/evphd.html) of an arbitrarily selected 10 kilobase (kb) segment of human dna encompassing the zic2 gene as described by zic2 (nm_007129.2) reference […]

library_books

Identification of cis Regulatory Elements in the dmyc Gene of Drosophila Melanogaster

2011
PMCID: 3256997
PMID: 22267917
DOI: 10.4137/GRSB.S8044

[…] intron 2 region for the existence of an inr-downstream core promoter element and the 3′ end was searched for the prediction of polyadenylation sequence motifs. the phylogenetic footprinting tools, evoprinter and cis-decoder, were used to detect e-boxes, bhlh binding sites, and multiple conserved sequence blocks in the dmyc region common to most drosophila species. the neural network genetic […]

library_books

Use of a Drosophila Genome Wide Conserved Sequence Database to Identify Functionally Related cis Regulatory Enhancers

2011
Dev Dyn
PMCID: 3243966
PMID: 22174086
DOI: 10.1002/dvdy.22728

[…] sequences within enhancer-conserved sequence clusters (cscs) (kuzin et al., ), thus providing a useful method for delimiting the boundaries of enhancers., our previous work has described evoprinter, a phylogenetic footprinting tool for discovering conserved sequences that are shared among orthologous dnas (odenwald et al., ; yavatkar et al., ). the output of evoprinter, […]


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EVOPRINTER institution(s)
Neural Cell-Fate Determinants Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA; Office of the Scientific Director, Intramural Research Program, National Institute of Mental Health, National Institutes of Health, Bethesda, MD, USA
EVOPRINTER funding source(s)
Supported by the National Institutes of Health National Institute of Neurological Disorders and Stroke and National Institute of Medical Health Intramural Research Program.

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