rvista.dcode.org

rVista 2.0 :: Identification of Evolutionary Conserved Transcription Factor Binding Sites

Http:/ rvista . dcode . org. Finding potential regulatory elements in noncoding regions of the human genome is a challenging problem. Analyzing novel sequences for the presence of known transcription factor binding sites or their weight matrices produces a huge number of false positive predictions that are randomly and uniformily distributed. rVista. Combines database searches with comparative sequence analysis, reducing the number of false positive predictions by 95%. If you have two sequence files.

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rVista 2.0 :: Identification of Evolutionary Conserved Transcription Factor Binding Sites | rvista.dcode.org Reviews

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Http:/ rvista . dcode . org. Finding potential regulatory elements in noncoding regions of the human genome is a challenging problem. Analyzing novel sequences for the presence of known transcription factor binding sites or their weight matrices produces a huge number of false positive predictions that are randomly and uniformily distributed. rVista. Combines database searches with comparative sequence analysis, reducing the number of false positive predictions by 95%. If you have two sequence files.

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rVista 2.0 :: Identification of Evolutionary Conserved Transcription Factor Binding Sites | rvista.dcode.org Reviews

https://rvista.dcode.org

Http:/ rvista . dcode . org. Finding potential regulatory elements in noncoding regions of the human genome is a challenging problem. Analyzing novel sequences for the presence of known transcription factor binding sites or their weight matrices produces a huge number of false positive predictions that are randomly and uniformily distributed. rVista. Combines database searches with comparative sequence analysis, reducing the number of false positive predictions by 95%. If you have two sequence files.

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rvista.dcode.org

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rVista 2.0 :: Instructions

http://rvista.dcode.org/instr_rVISTA.html

There are 4 different options to run rVista 2.0. Search for evolutionary conserved transcription factor binding sites. The user can align a pair of genomic sequences from any specie using zPicture. Tool and submit alignments for rVista 2.0 processing from the results page, automatically fetch precomputed alignments from the ECR Browser. Tool, submit blastz. Alignments, or to upload alignments and annotations from GALA. We provide the most current TRANSFAC. Individual clustering allows the identification ...

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zpicture.dcode.org

Description

https://zpicture.dcode.org/zpDescription.php

ZPicture: blastz-based alignment and visualization tool. ZPicture is a pairwise alignment and visualization tool that compares two sequences using the local alignment program BlastZ (Schwarz et al. 2003) and displays the gapless blocks of shared homology as unconnected dots (PIP) or smooth trace (VISTA) conservation plots. Unlike any other available alignment visualization tool, zPicture allows for customized real-time processing of alignment data. Also, zPicture allows easy extraction of ECR sequences a...

dire.dcode.org

DiRE :: identification of DIstant Regulatory Elements of co-regulated genes

http://dire.dcode.org/cite.php

Return to submitted job. If you find the results useful for your research, please cite DiRE as. Gotea, V. and I. Ovcharenko ( 2008. DiRE: identifying distant regulatory elements of co-expressed genes. Nucleic Acids Research. Doi:10.1093/nar/gkn300 [ Abstract. NCBI DCODE.org Comparative Genomics Developments ( www.dcode.org.

dire.dcode.org

DiRE :: identification of DIstant Regulatory Elements of co-regulated genes

http://dire.dcode.org/index.php?id=example

The requested ID is not valid. Please let us know ( dcode@ncbi.nlm.nih.gov.

dire.dcode.org

DiRE :: identification of DIstant Regulatory Elements of co-regulated genes

http://dire.dcode.org/return.php

Return to submitted job. Please enter a 16-digit request ID. To return to your previously submitted job:. NCBI DCODE.org Comparative Genomics Developments ( www.dcode.org.

dire.dcode.org

DiRE :: identification of DIstant Regulatory Elements of co-regulated genes

http://dire.dcode.org/details.php

Return to submitted job. Regulation of gene expression in eukaryotic genomes is established through a complex cooperative activity of proximal promoters and distant regulatory elements (REs) such as enhancers, repressors, and silencers. We developed a web server called DiRE. Lements, based on the Enhancer Identification (EI) method. Allows users to start their analysis with raw microarray expression data. Continue to: screen shots.

molbiol-tools.ca

New Page 1

http://www.molbiol-tools.ca/Transcriptional_factors.htm

See also: DNA MOTIFS. Transcription factor binding sites: several sites are available but I have not been particular impressed with the results when analyzing prokaryotic sequences. Institute for Transcriptional Informatics, Pittsburgh, U.S.A.) -. This tool is intended for promoter sequence analysis and works best with sequences of 500 nt. National Institute of Agrobiological Sciences, Japan). Plant cis-acting regulatory DNA elements. PlnTFDB. D Wilson et al. 2010. Nucl. Acids Res. 36:. Allows identifica...

bitnos.com

Bitnos - Transcription Factors Analysis

http://www.bitnos.com/transcription-factors-analysis

Searching transcription factor binding sites. Category: Transcription factors analysis. Given a DNA sequence, TF Search returns potential transcriptional factor binding sites on the sequence. Category: Transcription factors analysis. Tfsitescan is intended for promoter sequence analysis and works best with sequences of 500 nt. Category: Transcription factors analysis. Category: Transcription factors analysis. Category: Transcription factors analysis. Analysis of transcription factor binding sites. Catego...

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rVista 2.0 :: Identification of Evolutionary Conserved Transcription Factor Binding Sites

Http:/ rvista . dcode . org. Finding potential regulatory elements in noncoding regions of the human genome is a challenging problem. Analyzing novel sequences for the presence of known transcription factor binding sites or their weight matrices produces a huge number of false positive predictions that are randomly and uniformily distributed. rVista. Combines database searches with comparative sequence analysis, reducing the number of false positive predictions by 95%. If you have two sequence files.

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