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What we see with BLAST is that there are some cases of gene or domain duplication inside the correlated regions, and they could be used as seeds for investigating the surrounding areas by other methods for distant homology identification.
Here we apply methods for distant protein sequence similarity detection, phylogenetic approaches, and genome context analysis to described two previously unnoticed families of the FtsZ-tubulin superfamily.
Using sensitive methods for distant sequence similarity search, genome context analysis and a new approach for the identification of mobile two-component systems, we identified numerous, previously unnoticed protein families that are homologous to toxins and antitoxins of known type 2 TAS.
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Dataset III was originally created to evaluate methods for detecting distant sequence similarities among protein sequences as described in (Liao and Noble, 2003).
The use of improved alignment methods more suitable for distant homologs will benefit the accuracy of iMembrane in future releases.
He says (1962, 66), "What becomes of Einstein's insistence that his method for setting distant clocks — that is, choosing the value 1/2 for ε — constituted a 'definition' of distant simultaneity?
Radar is the main method for tracking distant objects or weather phenomena, but radar cannot see movement in air, unless the air contains fairly substantial objects, like raindrops or hail.
CT is an ideal method for detecting distant metastases (M1).
We further confirmed these results using an HMM-(Hidden Markov Model) based method for detecting distant homology.
In order to explore this possible method for predicting distant genetic relations in humans, we computationally filtered a complete subset of vrGVs from the "1000 Genomes" database having frequencies of less than 0.2% in the 2,184 chromosomes from 1,092 sequenced individuals.
Now we have a new method that works for distant sources," Predehl said.
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