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Such alignment was then used to scan the Pfam [41] and PDB [42] databases on October 5th, 2010 with the Hidden Markov Model based search method HHpred [39], the results of which are reported in Table S1.
The method is analogous to the existing method of orthology detection in expressed sequence tags (EST) called HaMStR (Hidden Markov Model based Search for Orthologs using Reciprocity) [ 15].
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Additionally, hidden Markov model based searches using a multiple alignment of known members were run using the HMMER2 package [ 36].
TBlastx and hidden Markov model based searches of all red algae genomes available failed to find this component [ 50].
We applied a Hidden Markov Model (HMM) based search method [ 29] and used DBD domain sequences of known human RFX TFs to search the entire human proteome.
To this aim, a pipeline, combining sequence clustering and Hidden Markov Model (HMM) based searches, was developed.
Identify gene-gene interactions for Alzheimer's disease applying a graphical model based module search to incorporate biological network/pathway and functional information.
[Update: This story was originally titled "Quora Confirms It's Favoring Search Ads For Eventual Monetization, Launches Author Stats Tool" because what Bodnick told me amounts to him confirming Quora if favoring an ad model based on search ads.
Maryland based Intelliverb is a full content based search engine with a relevancy model driven by point of operation dependency.
The model space is still huge, requiring a heuristic, population based search strategy.
Behavioral models are gaining popularity as a field of study in Web based search (44, 45).
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com