FindIT2: an R/Bioconductor package to identify influential transcription factor and targets based on multi-omics data

Table 2 The top 10 target genes of LEC2

gene_id	withPeakN	sumRP	RP_rank	log2FoldChange	padj	diff_rank	rankProduct	rankOf_ rankProduct	gene_category	gene symbol
AT2G30470	7	7.026484	2	3.699854	5.27E-64	2	4	1	up	HSI2
AT5G08460	6	7.046663	1	4.554615	3.60E-51	8	8	2	up	NA
AT1G11170	2	3.464122	54	3.26064	2.76E-62	3	162	3	up	NA
AT3G43270	4	2.352608	194	4.30147	1.03E-108	1	194	4	up	NA
AT5G15830	2	3.873782	33	6.779295	1.88E-56	6.5	214.5	5	up	AtbZIP3
AT2G13810	3	5.147604	10	4.602503	1.83E-21	42	420	6	up	ALD1
AT5G23360	5	3.082765	88	3.312275	1.88E-56	6.5	572	7	up	NA
AT5G07550	5	3.759361	36	8.162229	3.32E-36	16	576	8	up	ATGRP19
AT5G57785	6	5.970996	6	5.74865	2.69E-10	100	600	9	up	NA
AT3G59850	2	2.594872	156	4.139314	1.55E-59	4	624	10	up	NA

The “withPeakN” column represents the peak number located in the scan region. The “sumRP” column represents the RP calculated by calcRP_TFHit. The “RP_rank” column represents the rank of gene’s RP. The “log2FoldChange” and “padj” columns represent expression fold change and adjust p-value, respectively. The “diff_rank” column represents the rank of gene’s padj. The “rankProduct” represents the results of “RP_rank” and “diff_rank”. The “rankOf_rankProduct” represents the rank of “rankProduct” column. The “gene_category” column stands for the gene group according to their expression trend (up, down or static) upon induction of LEC2. The “symbol” column represents the gene symbol in the TAIR database. NA not available

ISSN: 1471-2164