Skip to main content

Table 1 The association between differential expression and gene overlapping is gene-type dependent

From: Comparison of stranded and non-stranded RNA-seq transcriptome profiling and investigation of gene overlap

Gene_type Differential analysis Overlapping
All genes DE genes Ratioa (%) DE genes Non_DE genes
# % # % No Yes No Yes
Protein_coding 13219 80.39 810 46.26 6.13 226 584 8082 4327
Antisense 924 5.62 363 20.73 39.29 48 315 225 336
Pseudogene 845 5.14 365 20.85 43.20 304 61 398 82
LincRNA 764 4.65 100 5.71 13.09 43 57 571 93
Processed_transcript 182 1.11 36 2.06 19.78 7 29 76 70
Sense_intronic 113 0.69 19 1.09 16.81 12 7 90 4
Other 396 2.41 58 3.31 14.65 53 5 325 13
Total 16443 100 1751 100 10.65 693 1058 9767 4925
  1. a Note: Ratio = (# of DE genes)/(# of All expressed genes). It represents what percentage of genes is differentially expressed. For a gene in each category, it is either a DE or Non_DE (not differential expression) gene, and then it is further broken into two classes based upon whether it overlaps with one or more genes transcribed from opposite strands. Therefore, the sum of the last four columns is equal to the total number of genes in that category