CHROMATIN REMODELING PATHWAY (PW:0001339)

View Ontology Report

Description

Epigenetic changes, the modification and remodeling of chromatin, play a key role in the differential expression of genes. Chromatin modification and remodeling directly affect the relative relaxation or compaction of chromatin and thus, the extent to which DNA replication, transcription, damage response and repair, associated RNA processing and splicing are promoted or are silenced, respectively. The basic unit of chromatin is the nucleosome - it consists of 145-147 base pairs of DNA wrapped ar

Pathway Diagram:

Elsevier Inc. CHRAC complex NURF complex ACF complex NuRD complex WICH complex TRRAP/Tip60 complex SRCAP complex INO80 complex BAF complex PBAF complex gene expression CHRAC complex ---> gene expression ACF complex ---> gene expression ISWI ---> ataxia telangiectasia-mutated (ATM) signaling pathway ISWI SWI/SNF ---> ataxia telangiectasia-mutated (ATM) signaling pathway SWI/SNF WICH complex ---> DNA replication pathway INO80 complex ---> cell cycle checkpoint pathway TRRAP/Tip60 complex ---> ataxia telangiectasia-mutated (ATM) signaling pathway SRCAP complex ---> ataxia telangiectasia-mutated (ATM) signaling pathway NURF complex ---> gene expression NuRD complex ---> gene expression CHD INO80 ---> gene expression INO80 BAF complex ---> gene expression histone modification pathway DNA modification pathway DNA replication pathway cell cycle checkpoint pathway ataxia telangiectasia-mutated (ATM) signaling pathway PBAF complex ---> gene expression
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Genes in Pathway:

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altered SWI/SNF family mediated chromatin remodeling pathway term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Actl6a actin-like 6A JBrowse link 2 119,112,776 119,128,870 RGD:8694154
G Arid1a AT-rich interaction domain 1A JBrowse link 5 151,904,687 151,977,973 RGD:8694154
G Arid1b AT-rich interaction domain 1B JBrowse link 1 45,923,119 46,232,301 RGD:8694154
G Pbrm1 polybromo 1 JBrowse link 16 7,103,714 7,202,899 RGD:8694154
G Smarca4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 JBrowse link 8 22,648,323 22,739,468 RGD:8694154
CHD family mediated chromatin remodeling pathway term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Chd3 chromodomain helicase DNA binding protein 3 JBrowse link 10 55,943,467 55,970,417 RGD:9585661
G Chd4 chromodomain helicase DNA binding protein 4 JBrowse link 4 157,612,531 157,645,660 RGD:9585661
G Chd5 chromodomain helicase DNA binding protein 5 JBrowse link 5 169,519,212 169,572,059 RGD:9585661
G Gatad2a GATA zinc finger domain containing 2A JBrowse link 16 21,177,793 21,267,768 RGD:9585661
G Gatad2b GATA zinc finger domain containing 2B JBrowse link 2 189,654,871 189,735,056 RGD:9585661
G Hdac1 histone deacetylase 1 JBrowse link 5 147,716,664 147,743,723 RGD:9585661
G Hdac2 histone deacetylase 2 JBrowse link 20 43,084,870 43,108,198 RGD:9585661
G Mbd2 methyl-CpG binding domain protein 2 JBrowse link 18 65,814,026 65,885,115 RGD:9585661
G Mbd3 methyl-CpG binding domain protein 3 JBrowse link 7 12,179,046 12,186,251 RGD:9585661
G Mta1 metastasis associated 1 JBrowse link 6 137,911,302 137,950,066 RGD:9585661
G Mta2 metastasis associated 1 family, member 2 JBrowse link 1 225,140,863 225,149,584 RGD:9585661
G Mta3 metastasis associated 1 family, member 3 JBrowse link 6 6,904,449 7,036,929 RGD:9585661
G Rbbp4 RB binding protein 4, chromatin remodeling factor JBrowse link 5 147,499,880 147,535,240 RGD:9585661
G Rbbp7 RB binding protein 7, chromatin remodeling factor JBrowse link X 33,648,682 33,665,821 RGD:9585661
INO80 family mediated chromatin remodeling pathway term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Actb actin, beta JBrowse link 12 13,715,843 13,718,813 RGD:9495926
G Actl6a actin-like 6A JBrowse link 2 119,112,776 119,128,870 RGD:9495926
G Actr5 ARP5 actin-related protein 5 homolog JBrowse link 3 155,118,567 155,132,073 RGD:9495926
G Actr6 ARP6 actin-related protein 6 homolog JBrowse link 7 30,377,369 30,397,922 RGD:9495926
G Actr8 ARP8 actin-related protein 8 homolog JBrowse link 16 6,047,977 6,062,586 RGD:9495926
G Brd8 bromodomain containing 8 JBrowse link 18 27,375,645 27,423,989 RGD:9495926
G Dmap1 DNA methyltransferase 1-associated protein 1 JBrowse link 5 136,533,791 136,541,795 RGD:9495926
G Ep400 E1A binding protein p400 JBrowse link 12 51,948,650 52,055,274 RGD:9495926
G Epc1 enhancer of polycomb homolog 1 JBrowse link 17 57,303,968 57,394,975 RGD:9495926
G Epc2 enhancer of polycomb homolog 2 JBrowse link 3 33,641,616 33,741,219 RGD:9495926
G Ing3 inhibitor of growth family, member 3 JBrowse link 4 49,017,235 49,044,450 RGD:9495926
G Ino80 INO80 complex subunit JBrowse link 3 111,186,371 111,266,542 RGD:9495926
G Ino80b INO80 complex subunit B JBrowse link 4 113,954,612 113,957,774 RGD:9495926
G Ino80c INO80 complex subunit C JBrowse link 18 15,995,005 16,009,639 RGD:9495926
G Ino80d INO80 complex subunit D JBrowse link 9 69,820,520 69,887,475 RGD:9495926
G Ino80e INO80 complex subunit E JBrowse link 1 198,287,489 198,298,076 RGD:9495926
G Kat5 lysine acetyltransferase 5 JBrowse link 1 220,967,795 220,974,596 RGD:9495926
G Mcrs1 microspherule protein 1 JBrowse link 7 140,910,420 140,919,234 RGD:9495926
G Meaf6 MYST/Esa1-associated factor 6 JBrowse link 5 143,081,298 143,103,225 RGD:9495926
G Morf4l2 mortality factor 4 like 2 JBrowse link X 107,394,468 107,405,564 RGD:9495926
G Nfrkb nuclear factor related to kappa B binding protein JBrowse link 8 32,530,412 32,561,955 RGD:9495926
G Ruvbl1 RuvB-like AAA ATPase 1 JBrowse link 4 120,411,917 120,447,458 RGD:9495926
G Ruvbl2 RuvB-like AAA ATPase 2 JBrowse link 1 101,413,766 101,426,970 RGD:9495926
G Srcap Snf2-related CREBBP activator protein JBrowse link 1 198,957,764 199,007,576 RGD:9495926
G Tfpt TCF3 fusion partner JBrowse link 1 64,162,525 64,172,307 RGD:9495926
G Trrap transformation/transcription domain-associated protein JBrowse link 12 11,537,950 11,627,563 RGD:9495926
G Uchl5 ubiquitin C-terminal hydrolase L5 JBrowse link 13 60,568,102 60,603,812 RGD:9495926
G Vps72 vacuolar protein sorting 72 homolog JBrowse link 2 196,277,961 196,289,549 RGD:9495926
G Yeats4 YEATS domain containing 4 JBrowse link 7 60,287,477 60,294,618 RGD:9495926
G Yy1 YY1 transcription factor JBrowse link 6 132,702,443 132,726,848 RGD:9495926
G Znhit1 zinc finger, HIT-type containing 1 JBrowse link 12 22,726,643 22,732,917 RGD:9495926
ISWI family mediated chromatin remodeling pathway term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Baz1a bromodomain adjacent to zinc finger domain, 1A JBrowse link 6 75,793,223 75,873,854 RGD:9495920
G Baz1b bromodomain adjacent to zinc finger domain, 1B JBrowse link 12 24,478,882 24,536,851 RGD:9495920
G Bptf bromodomain PHD finger transcription factor JBrowse link 10 95,248,573 95,350,162 RGD:9495920
G Chrac1 chromatin accessibility complex 1 JBrowse link 7 114,323,542 114,326,930 RGD:9495920
G Pole3 DNA polymerase epsilon 3, accessory subunit JBrowse link 5 78,380,813 78,384,047 RGD:9495920
G Rbbp4 RB binding protein 4, chromatin remodeling factor JBrowse link 5 147,499,880 147,535,240 RGD:9495920
G Rbbp7 RB binding protein 7, chromatin remodeling factor JBrowse link X 33,648,682 33,665,821 RGD:9495920
G Smarca1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1 JBrowse link X 134,634,651 134,719,503 RGD:9495920
G Smarca5 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5 JBrowse link 19 30,936,703 30,969,454 RGD:9495920
SWI/SNF family mediated chromatin remodeling pathway term browser
Symbol Object Name JBrowse Chr Start Stop Reference
G Actb actin, beta JBrowse link 12 13,715,843 13,718,813 RGD:9495920
G Actl6a actin-like 6A JBrowse link 2 119,112,776 119,128,870 RGD:8694154
RGD:9495920
G Actl6b actin-like 6B JBrowse link 12 22,194,595 22,211,107 RGD:8694154
RGD:9495920
G Arid1a AT-rich interaction domain 1A JBrowse link 5 151,904,687 151,977,973 RGD:8694154
RGD:9495920
G Arid1b AT-rich interaction domain 1B JBrowse link 1 45,923,119 46,232,301 RGD:8694154
RGD:9495920
G Arid2 AT-rich interaction domain 2 JBrowse link 7 137,680,564 137,798,329 RGD:8694154
RGD:9495920
G Brd7 bromodomain containing 7 JBrowse link 19 19,672,780 19,701,484 RGD:8694154
RGD:9495920
G Brd9 bromodomain containing 9 JBrowse link 1 31,939,612 31,968,120 RGD:9495920
G Dpf1 double PHD fingers 1 JBrowse link 1 87,248,448 87,258,070 RGD:8694154
RGD:9495920
G Dpf2 double PHD fingers 2 JBrowse link 1 221,253,764 221,269,043 RGD:8694154
RGD:9495920
G Dpf3 double PHD fingers 3 JBrowse link 6 106,660,569 106,971,310 RGD:8694154
RGD:9495920
G Pbrm1 polybromo 1 JBrowse link 16 7,103,714 7,202,899 RGD:8694154
RGD:9495920
G Phf10 PHD finger protein 10 JBrowse link 1 56,951,516 56,967,893 RGD:8694154
RGD:9495920
G Smarca2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2 JBrowse link 1 244,615,811 244,783,736 RGD:8694154
RGD:9495920
G Smarca4 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 JBrowse link 8 22,648,323 22,739,468 RGD:8694154
RGD:9495920
G Smarcb1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily b, member 1 JBrowse link 20 13,679,955 13,702,821 RGD:8694154
RGD:9495920
G Smarcc1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 1 JBrowse link 8 118,206,678 118,326,264 RGD:8694154
RGD:9495920
G Smarcc2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2 JBrowse link 7 2,875,898 2,905,463 RGD:8694154
RGD:9495920
G Smarcd1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 1 JBrowse link 7 141,355,623 141,366,725 RGD:8694154
RGD:9495920
G Smarcd2 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2 JBrowse link 10 94,451,866 94,460,732 RGD:8694154
RGD:9495920
G Smarcd3 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3 JBrowse link 4 7,076,710 7,108,334 RGD:8694154
RGD:9495920
G Smarce1 SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily e, member 1 JBrowse link 10 87,116,827 87,138,890 RGD:8694154
RGD:9495920

Pathway Gene Annotations

References Associated with the chromatin remodeling pathway:

Ontology Path Diagram:

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