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This set of predictions was then manually filtered for redundancy resulted from alternative splicing or paralogous genes.

The search results were manually filtered for rank 1 peptide identifications, and peptide assignments with incorrect phosphorylation site localizations were removed.

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Manually filtering for unique strands with three or more hot spot residues resulted in a set of 172 entries describing 133 distinct protein protein interactions.

The data was analyzed statistically using linear mixed-effect models to determine strains and elements that significantly change in abundance as compared to the median trend after manually filtering for quality control and controlling the False Discovery Rate (FDR) [ 18].

Consensus elements were classified using the REPET classifier and manually filtered to remove individual elements where there was no direct evidence for identity as a TE (see Materials and Methods for details).

Such evidence were further manually filtered by three annotators following strict annotation guidelines (Additional file 5) looking typically for relationships existing in the literature where two proteins have been shown to interact physically with each other.

Sequences were manually filtered and only those with specific annotations proving the actual AFLP derivation were selected for the following analyses (Table 1).

We manually filtered out 26 such papers.

25 Duplicate articles were manually filtered using the "close match function" of Refworks 2.0.

The results were then manually inspected and filtered for truncated protein sequences, resulting in a total of 54 sequences (Additional file 1: Table S1).

Leaked manuals show exactly how Facebook's 4,500 content moderators are trained to manually filter out extreme racism, misogyny, violence, pornography and other content deemed too disturbing for wider human consumption.

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