CHD2

chromodomain helicase DNA binding protein 2 | DKFZp547I1315, DKFZp686E01200, DKFZp781D1727, FLJ38614

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. Alternatively spliced transcript variants encoding distinct isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

Member of: DE-4 DE-4.22

Biological processes 23 terms

ATP binding (GO:0005524)ATP hydrolysis activity (GO:0016887)ATP hydrolysis activity (GO:0016887)ATP-dependent chromatin remodeler activity (GO:0140658)DNA binding (GO:0003677)DNA binding (GO:0003677)RNA binding (GO:0003723)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)chromatin (GO:0000785)chromatin binding (GO:0003682)chromatin remodeling (GO:0006338)gene expression (GO:0010467)histone binding (GO:0042393)histone binding (GO:0042393)histone binding (GO:0042393)muscle organ development (GO:0007517)muscle organ development (GO:0007517)nucleosome organization (GO:0034728)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)

Expression (TPM)

TFs regulating CHD2 0 TFs

Transcription factors with Perturb-seq knockdown data for CHD2. 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 = CHD2 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

Rows:

Elements linked to CHD2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of CHD2, 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.

Element	Dist. to TSS	Link type	TFs
chr15:92,634,312–92,635,219	265.5 kb	Distal (>10kb) Multiome	57
chr15:92,647,486–92,648,715	252.3 kb	Distal (>10kb) Multiome	186
chr15:92,655,159–92,656,121	244.7 kb	Distal (>10kb) Multiome	425
chr15:92,667,223–92,667,908	232.9 kb	Distal (>10kb) Multiome	251
chr15:92,711,051–92,711,898	188.8 kb	Distal (>10kb) Multiome	157
chr15:92,714,124–92,715,096	185.6 kb	Distal (>10kb) Multiome	524
chr15:92,808,119–92,810,229	91.0 kb	Distal (>10kb) Multiome HiCAR	1196
chr15:92,820,255–92,820,821	79.8 kb	Distal (>10kb) Multiome	703
chr15:92,831,519–92,832,242	68.4 kb	Distal (>10kb) Multiome	904
chr15:92,881,916–92,883,525	17.8 kb	Distal (>10kb) Multiome	906
chr15:92,899,945–92,900,660	44 bp	At TSS Multiome	712
chr15:92,903,883–92,904,823	4.0 kb	Proximal (<10kb) Multiome	1080
chr15:93,029,697–93,031,417	130.5 kb	Distal (>10kb) Multiome	387
chr15:93,061,337–93,062,093	161.5 kb	Distal (>10kb) Multiome	112
chr15:93,072,427–93,074,030	172.9 kb	Distal (>10kb) Multiome	430
chr15:93,087,724–93,089,709	189.0 kb	Distal (>10kb) Multiome	499
chr15:93,236,114–93,237,540	336.9 kb	Distal (>10kb) Multiome	241
chr15:93,241,594–93,242,623	341.7 kb	Distal (>10kb) Multiome	214
chr15:93,264,156–93,264,841	364.0 kb	Distal (>10kb) Multiome	90
chr15:93,280,128–93,280,916	380.1 kb	Distal (>10kb) Multiome	194
chr15:94,230,728–94,232,470	1331.2 kb	Distal (>10kb) Multiome HiCAR	567

Genome Browser

Genomic view of the CHD2 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.