Transcription factors with Perturb-seq knockdown data for LMNTD2-AS1. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = LMNTD2-AS1 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of LMNTD2-AS1, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr11:288,466–289,320 | 268.5 kb | Distal (>10kb) Multiome | 400 | |
| chr11:313,383–314,476 | 243.7 kb | Distal (>10kb) Multiome | 421 | |
| chr11:316,978–318,064 | 240.4 kb | Distal (>10kb) Multiome | 100 | |
| chr11:333,722–334,610 | 223.3 kb | Distal (>10kb) Multiome | 238 | |
| chr11:355,654–356,479 | 201.4 kb | Distal (>10kb) Multiome | 894 | |
| chr11:370,037–370,556 | 187.4 kb | Distal (>10kb) Multiome | 205 | |
| chr11:406,008–408,661 | 150.3 kb | Distal (>10kb) Multiome | 587 | |
| chr11:416,764–417,613 | 140.2 kb | Distal (>10kb) Multiome | 431 | |
| chr11:447,919–448,752 | 109.4 kb | Distal (>10kb) Multiome | 808 | |
| chr11:449,838–451,194 | 107.3 kb | Distal (>10kb) Multiome | 836 | |
| chr11:506,153–507,989 | 50.4 kb | Distal (>10kb) Multiome | 977 | |
| chr11:534,525–536,399 | 21.9 kb | Distal (>10kb) Multiome | 673 | |
| chr11:536,654–537,918 | 20.1 kb | Distal (>10kb) Multiome | 558 | |
| chr11:554,380–556,321 | 2.4 kb | Proximal (<10kb) Multiome | 460 | |
| chr11:559,830–562,079 | 3.2 kb | Proximal (<10kb) Multiome | 791 | |
| chr11:567,850–569,533 | 11.0 kb | Distal (>10kb) Multiome | 672 | |
| chr11:574,830–576,748 | 18.5 kb | Distal (>10kb) Multiome | 793 | |
| chr11:613,334–614,059 | 56.1 kb | Distal (>10kb) Multiome | 215 | |
| chr11:615,262–616,320 | 58.3 kb | Distal (>10kb) Multiome | 443 | |
| chr11:636,786–637,700 | 79.5 kb | Distal (>10kb) Multiome | 161 | |
| chr11:693,835–696,330 | 137.8 kb | Distal (>10kb) Multiome | 873 | |
| chr11:705,737–706,270 | 148.5 kb | Distal (>10kb) Multiome | 361 | |
| chr11:720,619–721,074 | 163.3 kb | Distal (>10kb) Multiome | 156 | |
| chr11:727,901–728,499 | 170.6 kb | Distal (>10kb) Multiome | 686 | |
| chr11:746,704–748,069 | 189.7 kb | Distal (>10kb) Multiome | 755 | |
| chr11:776,216–778,328 | 219.8 kb | Distal (>10kb) Multiome | 770 | |
| chr11:783,385–783,909 | 226.1 kb | Distal (>10kb) Multiome | 278 | |
| chr11:797,112–798,675 | 240.7 kb | Distal (>10kb) Multiome | 697 | |
| chr11:804,241–805,812 | 247.7 kb | Distal (>10kb) Multiome | 725 | |
| chr11:808,894–810,402 | 252.1 kb | Distal (>10kb) Multiome | 976 | |
| chr11:818,369–820,592 | 262.0 kb | Distal (>10kb) Multiome | 749 | |
| chr11:828,933–831,262 | 272.8 kb | Distal (>10kb) Multiome | 491 | |
| chr11:832,323–833,565 | 275.3 kb | Distal (>10kb) Multiome | 562 | |
| chr11:842,034–843,556 | 285.1 kb | Distal (>10kb) Multiome | 794 | |
| chr11:843,773–845,220 | 286.9 kb | Distal (>10kb) Multiome | 664 | |
| chr11:849,082–850,270 | 292.2 kb | Distal (>10kb) Multiome | 229 |
Genomic view of the LMNTD2-AS1 locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.