twosamplelogo.org

Two Sample Logos

Two Sample Logo software was developed by Vladimir Vacic. New York Genome Center, New York), Lilia M. Iakoucheva. University of California, San Diego), and Predrag Radivojac. Indiana University, Bloomington). In citing the Two Sample Logo software, please refer to:. Vacic V., Iakoucheva L.M., and Radivojac P. "Two Sample Logo: A Graphical Representation of the Differences between Two Sets of Sequence Alignments." Bioinformatics. 22(12): 1536-1537. (2006). Crooks G.E., Hon G., Chandonia J....

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Two Sample Logo software was developed by Vladimir Vacic. New York Genome Center, New York), Lilia M. Iakoucheva. University of California, San Diego), and Predrag Radivojac. Indiana University, Bloomington). In citing the Two Sample Logo software, please refer to:. Vacic V., Iakoucheva L.M., and Radivojac P. Two Sample Logo: A Graphical Representation of the Differences between Two Sets of Sequence Alignments. Bioinformatics. 22(12): 1536-1537. (2006). Crooks G.E., Hon G., Chandonia J....

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Two Sample Logos | twosamplelogo.org Reviews

https://twosamplelogo.org

Two Sample Logo software was developed by Vladimir Vacic. New York Genome Center, New York), Lilia M. Iakoucheva. University of California, San Diego), and Predrag Radivojac. Indiana University, Bloomington). In citing the Two Sample Logo software, please refer to:. Vacic V., Iakoucheva L.M., and Radivojac P. "Two Sample Logo: A Graphical Representation of the Differences between Two Sets of Sequence Alignments." Bioinformatics. 22(12): 1536-1537. (2006). Crooks G.E., Hon G., Chandonia J....

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twosamplelogo.org

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Two Sample Logos - Create

http://www.twosamplelogo.org//cgi-bin/tsl/tsl.cgi

Upload positive sample file:. Upload negative sample file:. Show residue if p-value. Boxed / Boxed shrink factor:.

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Two Sample Logos - Help

http://www.twosamplelogo.org/help.html

Positive and negative sample. Two Sample Logo calculates statistical significance of the relative position-specific symbol frequencies between two sets of aligned sequences. For example, sequences that are known to share a sequence motif may be locally aligned including positions upstream or downstream from the motif. All aligned sequences in both samples are required to be of the same length, so dash characters ("-") should be used to pad the positions in case some sequences are shorter. Either amino ac...

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Two Sample Logos - Examples

http://www.twosamplelogo.org/examples.html

Suggests that a regular expression for the calmodulin IQ motif is [FILV]QXXX[RK]GXXX[RK]XX[FILVWY]. However, even though positive and negative sequences in this example were restricted to those starting with an IQ dipeptide only, the two-sample logo reveals interesting dependencies when compared to the negative sites. This Two Sample Logo example displays the differences between experimentally verified and false positive exon-intron junction sites, both downloaded from HS. Modrek, et al., 2001) as 20...

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Algorithms and Computational Biology Lab

http://theory.cs.ucr.edu/index.html

We are interested in all aspects of the design and analysis of combinatorial algorithms. Ongoing research includes:. Average-case analysis of algorithms,. We are especially interested in algorithmic problems arising in computational molecular biology, such as:. SNP's and haplotype inference,. Genome-wide analysis of structures of gene families,. DNA microarray analysis,. Oligonucleotide fingerprinting of ribosomal RNA genes (OFRG). Is a high-throughput system for ortholog assignment on a genome scale.

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twosamplelogo.org

Two Sample Logos

Two Sample Logo software was developed by Vladimir Vacic. New York Genome Center, New York), Lilia M. Iakoucheva. University of California, San Diego), and Predrag Radivojac. Indiana University, Bloomington). In citing the Two Sample Logo software, please refer to:. Vacic V., Iakoucheva L.M., and Radivojac P. "Two Sample Logo: A Graphical Representation of the Differences between Two Sets of Sequence Alignments." Bioinformatics. 22(12): 1536-1537. (2006). Crooks G.E., Hon G., Chandonia J....

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