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|Alternative name||Matrix to Improve Quality in Similarity search|
|Interface||Web user interface|
|Restrictions to use||None|
|Input data||A single sequence.|
- person_outline Kentaro Tomii
Publications for Matrix to Improve Quality in Similarity search
Protein sequence similarity search acceleration using a heuristic algorithm with a sensitive matrix
[…] rch method. The use of MIQS is shown to enhance LAST performance considerably across varying m. Moreover, LAST performance is dominant over BLASTP with respect to both sensitivity and time. LAST with MIQS is time-efficient compared to the most sensitive of existing methods: SSEARCH and CS-BLAST. […]
A simple method to control over alignment in the MAFFT multiple sequence alignment program
[…] UM-VSM as a possible solution. For a better solution, we have a plan to build and use a new series of empirical matrices, each of which is for a strictly specific range of similarity levels, based on MIQS (). By excluding too remote pairs (unlike BLOSUM), MIQS-VSM, -MSM or -MVSM might result in a better tradeoff between sensitivity and over-alignment. (iv) There is a natural requirement that a str […]
Robust sequence alignment using evolutionary rates coupled with an amino acid substitution matrix
[…] substitution matrices, for example, the CS-BLAST tool, is a novel search approach in which context-specific (CS) substitution matrices were incorporated into the BLAST algorithm . At the same time, MIQS (Matrix to Improve Quality in Similarity search), a more robust matrix, has been developed from numerous matrices using principal component analysis for detecting remote homologies, for example, […]
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