The CHD family of proteins is characterized by the presence of chromo (chromatin organization modifier) domains and SNF2-related helicase/ATPase domains. CHD genes alter gene expression possibly by modification of chromatin structure thus altering access of the transcriptional apparatus to its chromosomal DNA template. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for CHD1. 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 = CHD1 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 CHD1, 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 |
|---|---|---|---|---|
| chr5:97,400,449–97,401,105 | 1528.2 kb | Distal (>10kb) Multiome HiCAR | 185 | |
| chr5:98,656,235–98,657,234 | 272.3 kb | Distal (>10kb) Multiome | 134 | |
| chr5:98,742,386–98,744,121 | 185.4 kb | Distal (>10kb) Multiome | 77 | |
| chr5:98,752,174–98,753,835 | 176.3 kb | Distal (>10kb) Multiome | 226 | |
| chr5:98,767,947–98,770,957 | 160.7 kb | Distal (>10kb) Multiome | 756 | |
| chr5:98,772,851–98,774,947 | 155.5 kb | Distal (>10kb) Multiome | 1033 | |
| chr5:98,880,190–98,880,396 | 8.0 kb | Proximal (<10kb) | 58 | |
| chr5:98,880,499–98,880,887 | 8.3 kb | Proximal (<10kb) | 53 | |
| chr5:98,927,278–98,927,531 | 1.5 kb | Proximal (<10kb) | 183 | |
| chr5:98,927,768–98,929,898 | 148 bp | At TSS Multiome | 1088 | |
| chr5:99,099,143–99,100,135 | 170.9 kb | Distal (>10kb) Multiome | 114 |
Genomic view of the CHD1 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.