Sentence examples for by a background model from inspiring English sources
They take one motif or a set of motifs - in the form of PWMs - as input and identify confined regions in large DNA sequences that harbor significantly more motif instances than expected by chance or than given by a background model.
By Bg i, j) we denote the statistical weight given by a background model to an unoccupied sub-sequence S i, j.
From the model for the non-stabilized class, we striped off all sequence information, replacing it by a background model based on the mononucleotide frequencies of the pseudogenome.
Given the promoter sequences of a set of co-expressed/co-regulated genes, the goal is to find short DNA sequences ("motifs") whose occurrences (with allowed mismatches) in the sequences cannot be explained by a background model.
Our scheme is motivated by a desire not to use seeds that are easily explained by a background model and to find seeds that explain sites in as many sequences as possible.
Intuitively, the value of the z-score for a set of strings W gives an indication of how relevant are the occurrences of the strings in W in the text strings t1,..., t s, with respect to "a random event" as characterized by a background model.
The algorithm separates the vocals using the time-varying pitch and enhances them by subtracting a background model.
The authors address the challenge by developing a background model that uses information from other non-contiguous frames, which are selected based on their appearance similarity with the frame of interest.
The posterior probabilities are informed by mutation frequency relative to a background model that incorporates mutation type and the gene-specific features mentioned above as well as position specific functional impact scores.
Based on these analyses, we would argue that the discrepancy between our conclusions and that of Yang et. al., is likely not due to true differences in the underlying biological data; instead, differences in motif finding strategy, specifically with regards to the choice of a background model by Yang et. al., most likely account for this discrepancy.
The program oligo-analysis [39] detects motifs in sequences by counting the occurrences of all oligonucleotides, and calculating their significance according to a background model, estimated by counting the occurrences of all oligonucleotides in all species-specific upstream sequences.
