Supplementary tables for publication "A reference-free algorithm discovers regulation in the plant transcriptome"

Supplementary tables for publication "A reference-free algorithm discovers regulation in the plant transcriptome" (doi: https://doi.org/10.1101/2024.05.23.595613)

Table A: complete list of significant anchors and associated genes from analysis of sorghum dataset

Table B: complete list of significant anchors and associated genes from analysis of maize dataset

Table C: complete list of significant anchors and associated genes from analysis of Arabidopsis P/Fe dataset

Table D: complete list of significant anchors and associated genes from analysis of Arabidopsis FLOE1 dataset

arabidopsis_floe1_ALL_anchors_satc_truncated.txt: data from the Arabidopsis FLOE1 dataset used to generate figures in the paper. Columns are sample ID, anchor, target, and counts of that anchor/target combination in that particular sample. 

arabidopsis_pfe_ALL_anchors_satc_truncated.txt: data from the Arabidopsis P/Fe dataset used to generate figures in the paper. Columns are sample ID, anchor, target, and counts of that anchor/target combination in that particular sample. 

maize_pollen_ALL_anchors_satc_truncated.txt: data from the maize dataset used to generate figures in the paper. Columns are sample ID, anchor, target, and counts of that anchor/target combination in that particular sample. 

sorghum_drought_ALL_anchors_satc_truncated.txt: data from the sorghum dataset used to generate figures in the paper. Columns are sample ID, anchor, target, and counts of that anchor/target combination in that particular sample.

cryptic_splicing_anchors.tsv: list of anchors described in Supplementary Information section of the article that are examples of cryptic splicing. Columns are dataset name, gene name/ID, anchor sequence, target 1 sequence, and target 2 sequence.