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Supplemental Material for Wu et al., 2020

journal contribution
posted on 10.12.2020, 18:42 by Peter I-Fan Wu, Curtis Ross, Deborah A. Siegele, James C. Hu
Figure S1 shows pairwise phenotypic profile similarity for genes annotated to the same functional pathways.
Figure S2 shows pairwise phenotypic profile similarity for genes annotated to the same heteromeric protein complexes.
Figure S3 shows precision for gene pairs ranked by phenotypic profile similarity, determined using |PCC|, when mutants with auxotrophic phenotypes are excluded.
Figure S4 shows violin plots of the distribution of semantic similarity for subsets of gene pairs annotated with GO biological process terms.
Figure S5 shows violin plots of the distribution of semantic similarity for subsets of gene pairs annotated with GO biological process terms when electronic annotations are excluded.
Figure S6 shows precision-recall curves for gene pairs ranked by phenotypic profile similarity based on |PCC|.
Figure S7 compares precision-recall curves for gene pairs ranked by phenotypic profile similarity based on |PCC|, |SRCC|, or mutual information.
Figure S8 compares precision-recall curves for gene pairs ranked by phenotypic profile similarity determined using either quantitative fitness scores or discretized, ternary fitness scores.
Figure S9 compares precision for gene pairs ranked by phenotypic profile similarity when quantitative fitness scores are partitioned into larger numbers of bins.

Table S1 lists the names and EcoCyc accession IDs for the 366 pathways shown in Figure S1.
Table S2 lists the names and EcoCyc accession IDs for the 271 heteromeric protein complexes shown in Figure S2.

History

Article title

Insights from the reanalysis of high-throughput chemical genomics data for Escherichia coli K-12

Manuscript #

G3/2020/401560

Licence

Exports

G3: Genes|Genomes|Genetics

Licence

Exports