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We hope that our proposed method complements the "most significant SNPs/genes" model, and provides additional insights into the pathogenesis of rheumatoid arthritis and other diseases, when searching datasets for hundreds of genetic variances.
A strength of the tool is that it can use third-party variant prioritization scores such as those produced by SIFT and PolyPhen to improve search accuracy; its principle weakness is that excluding variants with MAFs above a user-defined threshold renders the tool ineffective for searching datasets containing disease-causing alleles distributed across a range of population frequencies.
While the database is password-protected for local browsing and searching, datasets can be made public and individual files can be shared with collaborators over the Internet.
Searching datasets of the proteins from a range of different eukaryotes with the known structures of some adaptor proteins resulted in the detection of TSET components in most of groups of eukaryotes.
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Over-prediction of fragments for peptides can contribute to the additional time required to search datasets.
The generation of PSSM of a protein depends largely on the searching dataset.
If no homologous sequence is found in the searching dataset, the PSSM cannot be obtained [ 49].
An efficient separation is especially important when searching large datasets and whenever there are repeats present in the dataset.
Although successful in analyzing small datasets, the above mentioned correlation or distance measures will be less helpful for searching large datasets, such as microarray compendium data.
We have furthermore defined both a general and extended metadata scheme for the storage, citation and searching primary datasets.
Even without previous training, retrieval performance and user confidence were very high, thus suggesting that both interface designs are effective for searching RDF datasets.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com