Journal: medRxiv

Article Title: A rRNA hybridization-based approach for rapid and accurate identification of diverse fungal pathogens

doi: 10.64898/2026.03.06.26347616

Figure Lengend Snippet: (A) Heatmap of scaled probe binding intensities of 27 FFPE samples. For column-scaling to better visually represent total read counts, the four lowest-abundance positive control spike-ins are included for each sample (top 4 rows, above horizontal line). Bottom axis indicates clinical identification provided by the Pathology department (see Supplementary Table S3d). (B) Tile plot indicating prediction accuracy of Pan-Fungal Phirst-ID with Co-PILOT at each taxonomic level, as in . Date of sample collected is indicated above and final Co-PILOT identification (best match from Training Set) is listed below the tile plot. 12 samples at left, which exceeded our probe detection threshold, are separated from 17 samples at right, which did not. For visualization purposes, all samples are scaled to the third-most-abundant positive control spike-in (shown above black horizontal line at top). Samples are sorted by taxonomic order of the identification from the clinical microbiology laboratory.

Article Snippet: Given inconsistent results at an interim assessment, we processed the remaining samples (FP020-030) using the quick DNA/RNA FFPE kit (Zymo CAT# R1009) ( Table S3c ).

Techniques: Binding Assay, Positive Control

Journal: medRxiv

Article Title: A rRNA hybridization-based approach for rapid and accurate identification of diverse fungal pathogens

doi: 10.64898/2026.03.06.26347616

Figure Lengend Snippet: Tile plot indicating prediction accuracy at each taxonomic level for the subset of FFPE samples with high enough probe reactivity to pass our threshold for Co-PILOT analysis. Sample order is based the highest probe read count (green heatmap), which was used to set this threshold. Red heatmap shows Pearson correlation of each sample to its best match. Clinical laboratory identifications are listed below (see Table S3c); red text indicates an organism not previously tested by Pan-Fungal Phirst-ID (and thus not available to Co-PILOT algorithm for comparison), green text = negative control FFPE sample (no fungal forms seen).

Article Snippet: Given inconsistent results at an interim assessment, we processed the remaining samples (FP020-030) using the quick DNA/RNA FFPE kit (Zymo CAT# R1009) ( Table S3c ).

Techniques: Comparison, Negative Control