MCHelper automatically curates transposable element libraries across eukaryotic species

Table 1.

NTE50 and LTE50 values of each library

Library D. melanogaster O. sativa C. cornix D. rerio Z. mays H. sapiens
NTE50 LTE50 NTE50 LTE50 NTE50 LTE50 NTE50 LTE50 NTE50 LTE50 NTE50 LTE50
RM2 3167 2188 25,075 1296 9699 769 582,490 378 207,065 2564 1,155,606 327
RM2 + MCHelper 2577 3007 19,235 1824 6953 1077 406,526 515 132,536 5046 676,997 464
EDTA 2342 3925 28,674 1584 3405 2164 623,608 340 382,400 1565 957,177 321
EDTA + MCHelper 3259 1762 24,031 1411 4453 1371 448,658 468 129,175 5328 680,093 464
REPET 2426 3514 19,675 1754 7108 979 559,160 337 138,840 4897 – –
REPET + MCHelper 2201 4082 18,144 2032 7150 1051 492,326 364 131,590 5074 – –
Reference 2570 3158 15,900 2279 13,088 569 457,644 439 120,514 5453 653,254 412

  • The NTE50 is calculated as the number of the largest copies needed to annotate 50% of the mobilome, while the LTE50 is defined as the length of the shortest TE annotation that annotates 50% of the mobilome (Jamilloux et al. 2017).

This Article

  1. Published in Advance December 9, 2024, doi: 10.1101/gr.278821.123 Genome Res. 34: 2256-2268

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