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Table 6 The mean peak near inferred TAD boundaries (2kb) for six functional elements for both with and without corner dot using the normalized Micro-C dataset over mouse ESCs at a lower 1kb resolution

From: A comparison of topologically associating domain callers over mammals at high resolution

  H3K9me3 H3K4me3 H3K36me3 RAD21 SMC3 CTCF H3K9me3 H3K4me3 H3K36me3 RAD21 SMC3 CTCF
With corner dot (extrusion loop) Without corner dot
Armatus 0.451 0.342 0.353 0.531 0.535 0.565 0.221 0.112 0.123 0.301 0.305 0.335
Arrowhead 0.531 0.392 0.409 0.599 0.617 0.356 0.301 0.162 0.179 0.369 0.387 0.426
CaTCH 0.428 0.324 0.339 0.569 0.597 0.436 0.198 0.094 0.109 0.339 0.367 0.206
Constrained HAC 0.595 0.441 0.468 0.649 0.712 0.574 0.365 0.211 0.238 0.419 0.482 0.344
CHDF 0.578 0.367 0.379 0.537 0.551 0.585 0.248 0.137 0.149 0.307 0.321 0.355
ClusterTAD 0.519 0.385 0.401 0.669 0.703 0.561 0.289 0.155 0.171 0.439 0.473 0.331
deDoc 0.543 0.411 0.427 0.599 0.612 0.614 0.313 0.181 0.197 0.369 0.382 0.384
DI 0.573 0.414 0.436 0.731 0.756 0.581 0.343 0.184 0.206 0.501 0.536 0.351
EAST 0.456 0.351 0.361 0.562 0.586 0.652 0.226 0.121 0.131 0.332 0.356 0.422
GMAP 0.485 0.358 0.372 0.551 0.609 0.611 0.255 0.128 0.142 0.321 0.379 0.381
GRiNCH 0.495 0.362 0.375 0.557 0.614 0.615 0.252 0.129 0.144 0.324 0.381 0.382
HiCExplorer 0.571 0.434 0.476 0.664 0.659 0.615 0.361 0.204 0.236 0.434 0.429 0.385
HiCKey 0.531 0.377 0.399 0.675 0.705 0.548 0.301 0.147 0.171 0.445 0.475 0.317
HiCseg 0.528 0.376 0.398 0.672 0.702 0.545 0.298 0.146 0.168 0.442 0.472 0.315
IC-Finder 0.539 0.398 0.416 0.658 0.656 0.628 0.309 0.168 0.186 0.428 0.426 0.398
InsulationScore 0.473 0.363 0.374 0.564 0.574 0.575 0.243 0.133 0.144 0.334 0.344 0.345
Matryoshka 0.472 0.356 0.371 0.586 0.588 0.563 0.242 0.126 0.141 0.356 0.358 0.333
MrTADFinder 0.413 0.314 0.324 0.446 0.467 0.627 0.183 0.084 0.095 0.236 0.237 0.397
MSTD 0.487 0.357 0.378 0.539 0.556 0.578 0.257 0.127 0.158 0.309 0.336 0.348
OnTAD 0.575 0.429 0.448 0.683 0.677 0.618 0.345 0.199 0.218 0.453 0.447 0.388
Spectral 0.389 0.307 0.316 0.445 0.447 0.617 0.159 0.077 0.086 0.215 0.217 0.387
SpectralTAD 0.509 0.387 0.406 0.582 0.609 0.624 0.279 0.157 0.176 0.352 0.379 0.394
TADBD 0.492 0.372 0.384 0.573 0.585 0.654 0.262 0.142 0.154 0.344 0.355 0.424
TADbit 0.559 0.398 0.422 0.718 0.755 0.608 0.329 0.168 0.192 0.488 0.546 0.378
TADpole 0.483 0.367 0.376 0.596 0.594 0.653 0.351 0.137 0.144 0.365 0.360 0.419
TADtree 0.482 0.365 0.375 0.594 0.592 0.651 0.352 0.135 0.145 0.364 0.362 0.421
TopDom 0.485 0.432 0.457 0.665 0.656 0.585 0.255 0.202 0.227 0.435 0.426 0.355
  1. Bold numbers show the leading result for every column