Reviewer #1: Prof. Wing Hung Wong Department of Statistics, Stanford University, Stanford, CA, USA The purpose of this paper is to assess the quality and completeness of information in several popular pathway databases on the targets of transcription factors.
In a realistic case, the target spectra can be provided by the target database based on the target-radar/BSs orientations.
In practice, the transmitted cellular communication signals and the target spectra can be provided by the communication systems and the target database based on the target-radar/BSs orientations, respectively [11, 25].
We identified potential inhibitors of Leishmania energy metabolism by searching the information available in databases based on the target-similarity principle.
The decoy database is nonsensical and created based on the target database such that they contain an equivalent number of peptide sequences, which is often accomplished by reversing the protein sequences in the target database.
A common approach to calculate FDRs for glycopeptide analysis, adopted from the target-decoy strategy in proteomics, employs a decoy database that is created based on the target protein sequence database.
In parallel, we developed Actinome, a knowledge database that integrates information on the target genes, including genomic data and sequence analysis features retrieved from GenBank, and biological function, when available.
For example, for a given spectrum generated by a peptide contained in the target database, a search method may report significant hit on the target database but with a different peptide reported.
In addition each gene has a web page containing information in the database on the gene as a target.
The center provides support and an array of services including a jobs/internships database, one-on-one career counseling, targeted workshops, on-campus events such as career fairs and employer interviews, and a reference file service.
