Consequently, the data have also stimulated the creation of many bioinformatics tools, such as those that predict centrosomal genes in silico [ 13], and those which collect, query and analyse these collections of genes in a systematic and organic way.
Submitting the same query as listed by the authors (http://www.ncbi.nlm.nih.gov/protein/13249661?reportofasta&to=460) to HHpred online (http://toolkit.tuebingen.mpg.de/hhpred) with PSI-BLAST option to collect query profile for later HMM-HMM comparison against database "PfamA_14Jan15" gives the top hit pfam01660 (Vmethyltransf Viral) with E-value 0.015.
Our proposal is based on inferring regular expressions that induce the language conveyed by a set of previously collected query reformulations.
TWM contributed to experimental design, collected query sequences, performed the database searches, identified algal roots, performed the sequence alignments, ran the phylogenetic analyses, prepared the figures, and participated in drafting the manuscript.
The collected queries are slightly biased toward simpler 'explorative' queries, but still represent a valid sample of queries in a publicly accessible database.
The system collects, queries, and analyzes geographic information provided voluntarily by observers directly in the field (volunteered geographic information (VGI) reports) to identify potentially critical environmental conditions.
The collected queries with 432 keywords were obtained and classified into 26 semantic classes (SCs), including system service, restaurant address, food information, and greeting/ending, for semantic complexity reduction.
Note that to avoid false detection, it is suggested to collect more query samples from the static model Y s than from the dynamic model Y d.
Routine clinical follow up has also resulted in on-going contact with families and multiple opportunities to collect and query self-completed questionnaire responses, as indicated by high response rates for this component.
The modENCODE project DCC was the first to our knowledge, to implement a detailed scheme to collect and query details of experimental samples and protocols in a defined, structured manner (14).
When using a conventional relational database approach to collect and query data in the context of specific clinical studies, a study with a new data set usually requires the design of a new database and entry forms.
