CTCF • A549 NGENCHVB3FJBDT • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq A549 TF Show metadata Download track Track metadata identifier NGENCHVB3FJBDT data_source ENCODE Download track Download number_of_intervals 44,227 bp_covered 13,860,736 output_type IDR thresholded peaks genome_build hg38 cell_type A549 biosample_type Cell line biosample_term_id EFO:0001086 tissue_category Lung encode_experiment_id ENCSR876UZD biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 778,492 downloaded_date 09/10/2024 release_date 10/01/2020 date_added_to_filer 10/01/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF568VNH.bed.gz processed_file_md5 b8ab526070589a01c41ab06889a69fc1 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF568VNH.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF568VNH.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF568VNH/@@download/ENCFF568VNH.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF568VNH.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 22a3fcf86efc9d994fa3f06f9b676a25 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens A549 treated with 100 nM dexamethasone (agonist) for 5 hours;Lab=Tim Reddy, Duke;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=adult 58 years;Reference=NR;External_resources=GEO:GSE92832,FactorBook:ENCSR876UZD;Project=GGR;Award=U01HG007900;Experiment_date_released=2016-12-20;Submitted_track_name=rep1_vs_rep2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=A549;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=respiratory system;ENCODE_biosample_term_synonyms=A-549,A549 cell;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;Bio_rep=1, 2, 3;Tech_rep=1_1, 2_1, 3_1;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0001086;is_hg38_lifted=no system_category Respiratory life_stage Adult track_name ENCODE A549 (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR876UZD] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • CD4+ alpha-beta naive T cell NGENCHWHQYFV7T • ENCODE22955616 | 41168159 | 31713622 ChIA-PET CD4+ alpha-beta naive T cell Chromatin interactions Show metadata Download track Track metadata identifier NGENCHWHQYFV7T data_source ENCODE Download track Download number_of_intervals 1,614,814 bp_covered 1,665,980,089 output_type chromatin interactions genome_build hg38 cell_type CD4+ alpha-beta naive T cell biosample_type Primary cell biosample_term_id CL:0000895 tissue_category Blood encode_experiment_id ENCSR731OFF biological_replicate 1 technical_replicate 1_1 antibody CTCF assay ChIA-PET file_format bed bed4+19 interact file_size 67,123,292 downloaded_date 09/20/2025 release_date 07/17/2021 date_added_to_filer 10/27/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF483FUL.bed.gz processed_file_md5 8ac819a6fd967fcaaa834756e10ff379 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF483FUL.bed.gz -P FILER2/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF483FUL.bed.gz.tbi -P FILER2/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/ link_out_url https://www.encodeproject.org/ raw_file_url https://www.encodeproject.org/files/ENCFF483FUL/@@download/ENCFF483FUL.bedpe.gz raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ENCFF483FUL.bedpe.gz -P FILER2/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ raw_file_md5 6382a2924e3193d9ef4ae2fd6a9a3029 data_category Chromatin interactions Genomic feature type ChIA-PET chromatin interactions track_description version=2024;Biosample_summary=Homo sapiens activated naive CD4-positive, alpha-beta T cell male adult (43 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours;Lab=Yijun Ruan, JAX;ENCODE_internal_tags=NR;Life_stage_age=adult 43 years;Reference=NR;External_resources=GEO:GSE187991;Project=ENCODE;Award=UM1HG009409;Experiment_date_released=2021-07-21;Submitted_track_name=LHT0050H.e500.clusters.cis.BE3.gz;ENCODE_preferred_default=true;ENCODE_biosample_term_name=activated naive CD4-positive, alpha-beta T cell;ENCODE_cell_slims=CD4+ T cell,T cell,leukocyte,hematopoietic cell;ENCODE_system_slims=immune system;ENCODE_biosample_term_synonyms=NR;Analysis_title=Lab custom GRCh38;GM=NR;Fragmentation_method=sonication (Branson Sonifier 250);Library_size=350-600;schema=BED4+19;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=NTR:0000497;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE CD4+ alpha-beta naive T cell (repl. 1) ChIA-PET CTCF chromatin interactions (bed4+19 interact) [Experiment: ENCSR731OFF] [Life stage: Adult] [Chromatin interactions]
CTCF • GM12878 NGENCHX7YIDZLD • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq GM12878 TF Show metadata Download track Track metadata identifier NGENCHX7YIDZLD data_source ENCODE Download track Download number_of_intervals 28,674 bp_covered 4,697,126 output_type IDR thresholded peaks genome_build hg38 cell_type GM12878 biosample_type Cell line biosample_term_id EFO:0002784 tissue_category Blood encode_experiment_id ENCSR000DKV biological_replicate 2 technical_replicate 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 453,545 downloaded_date 06/12/2022 release_date 09/26/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF459SZO.bed.gz processed_file_md5 98adb80f718565324ecaaff012d626d6 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF459SZO.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF459SZO.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF459SZO/@@download/ENCFF459SZO.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF459SZO.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 909d232d21a7d9a8eb517a07ee24c8ee data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens GM12878;Lab=Vishwanath Iyer, UTA;ENCODE_internal_tags=RegulomeDB_1_0,RegulomeDB_2_0,RegulomeDB_2_1,ENCYCLOPEDIAv2,ENCYCLOPEDIAv1,RegulomeDB_2_2;Life_stage_age=NR;Reference=PMID:32728046;External_resources=FactorBook:ENCSR000DKV,UCSC-ENCODE-hg19:wgEncodeEH000532,GEO:GSM822312;Project=ENCODE;Award=U54HG004563;Experiment_date_released=2011-03-17;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=GM12878;ENCODE_cell_slims=hematopoietic cell,leukocyte,B cell;ENCODE_system_slims=immune system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0002784;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE GM12878 (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DKV] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Loucy NGENCHXIZP36NB • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Loucy TF Show metadata Download track Track metadata identifier NGENCHXIZP36NB data_source ENCODE Download track Download number_of_intervals 63,050 bp_covered 23,348,728 output_type IDR thresholded peaks genome_build hg38 cell_type Loucy biosample_type Cell line biosample_term_id EFO:0007112 tissue_category Blood encode_experiment_id ENCSR464DKE biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 1,104,332 downloaded_date 06/12/2022 release_date 10/20/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF544KSF.bed.gz processed_file_md5 fde39b0351dd8c4e2959c2a57f77c01a wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF544KSF.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF544KSF.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF544KSF/@@download/ENCFF544KSF.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF544KSF.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 f2f5d87d224d7f398666d2273031955c data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens Loucy;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ENCYCLOPEDIAv2,RegulomeDB_2_2;Life_stage_age=adult 38 years;Reference=NR;External_resources=FactorBook:ENCSR464DKE,SCREEN-GRCh38:Loucy,GEO:GSE123214;Project=ENCODE;Award=U54HG006991;Experiment_date_released=2014-09-04,2014-11-20;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=Loucy;ENCODE_cell_slims=T cell,hematopoietic cell,leukocyte;ENCODE_system_slims=immune system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0007112;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE Loucy (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR464DKE] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Epithelium NGENCHYRQLNFZV • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Epithelium TF Show metadata Download track Track metadata identifier NGENCHYRQLNFZV data_source ENCODE Download track Download number_of_intervals 49,021 bp_covered 16,451,944 output_type IDR thresholded peaks genome_build hg38 cell_type Epithelium biosample_type Tissue biosample_term_id NCIT:C12710 tissue_category Digestive encode_experiment_id ENCSR450FRI biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 903,045 downloaded_date 06/12/2022 release_date 09/01/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF037IYT.bed.gz processed_file_md5 b7d8e904efeec714eaa5e7247a0ecd9b wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF037IYT.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF037IYT.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF037IYT/@@download/ENCFF037IYT.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF037IYT.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 055071f21b5ae9e7563cd382ad71be2c data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens esophagus squamous epithelium tissue male adult (54 years);Lab=Michael Snyder, Stanford;ENCODE_internal_tags=ccre_inputv2,ENTEx,ENCYCLOPEDIAv2,RegulomeDB_2_1,RegulomeDB_2_2;Life_stage_age=adult 54 years;Reference=NR;External_resources=SCREEN-GRCh38:esophagus_squamous_epithelium_male_adult_54_years,GEO:GSE105614,FactorBook:ENCSR450FRI;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2016-12-13;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=esophagus squamous epithelium;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0006920;is_hg38_lifted=no system_category Digestive life_stage Adult track_name ENCODE Epithelium (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR450FRI] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • 22Rv1 NGENCHYTYKE7Y6 • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq 22Rv1 TF Show metadata Download track Track metadata identifier NGENCHYTYKE7Y6 data_source ENCODE Download track Download number_of_intervals 87,157 bp_covered 57,954,823 output_type IDR thresholded peaks genome_build hg38 cell_type 22Rv1 biosample_type Cell line biosample_term_id EFO:0002095 tissue_category Male Reproductive encode_experiment_id ENCSR847XGE biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 1,454,906 downloaded_date 09/10/2024 release_date 09/01/2020 date_added_to_filer 10/01/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF679QSU.bed.gz processed_file_md5 d61a7460121167ac47371dc0462e3862 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF679QSU.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF679QSU.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF679QSU/@@download/ENCFF679QSU.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF679QSU.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 44123676a8119f4447ab565c377a411d data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens 22Rv1 treated with 10 nM 17_-hydroxy-5_-androstan-3-one for 4 hours;Lab=Michael Snyder, Stanford;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ENCYCLOPEDIAv2,RegulomeDB_2_2;Life_stage_age=NR;Reference=NR;External_resources=SCREEN-GRCh38:22Rv1_treated_with_17beta-hydroxy-5alpha-androstan-3-one,GEO:GSE105966,FactorBook:ENCSR847XGE;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2017-06-29,2016-11-30;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=22Rv1;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=reproductive system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0002095;is_hg38_lifted=no system_category Reproductive life_stage Unknown track_name ENCODE 22Rv1 (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR847XGE] [TF ChIP-seq peaks]
CTCF • HCT116 NGENCHZ6VPI4EV • ENCODE22955616 | 41168159 | 31713622 ChIA-PET HCT116 Chromatin interactions Show metadata Download track Track metadata identifier NGENCHZ6VPI4EV data_source ENCODE Download track Download number_of_intervals 1,466,190 bp_covered 1,172,351,012 output_type chromatin interactions genome_build hg38 cell_type HCT116 biosample_type Cell line biosample_term_id EFO:0002824 tissue_category Digestive encode_experiment_id ENCSR160MHZ biological_replicate 1 technical_replicate 1_1 antibody CTCF assay ChIA-PET file_format bed bed4+19 interact file_size 57,529,984 downloaded_date 09/20/2025 release_date 03/07/2022 date_added_to_filer 10/27/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF174CIH.bed.gz processed_file_md5 70af964ce47c49397886dca3dfecf805 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF174CIH.bed.gz -P FILER2/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF174CIH.bed.gz.tbi -P FILER2/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/ link_out_url https://www.encodeproject.org/ raw_file_url https://www.encodeproject.org/files/ENCFF174CIH/@@download/ENCFF174CIH.bedpe.gz raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ENCFF174CIH.bedpe.gz -P FILER2/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ raw_file_md5 e96792ec9729fc93671f1684e5a19cb5 data_category Chromatin interactions Genomic feature type ChIA-PET chromatin interactions track_description version=2024;Biosample_summary=Homo sapiens HCT116 genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, (insertion) using CRISPR targeting H. sapiens SMARCA5 treated with 1 _M 5-Phenyl-1H-indole-3-acetic acid for 6 hours;Lab=Charles Lee;ENCODE_internal_tags=Degron;Life_stage_age=adult 48 years;Reference=NR;External_resources=GEO:GSE242630;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2022-03-14;Submitted_track_name=LHH00240.e500.clusters.cis.BE3.gz;ENCODE_preferred_default=false;ENCODE_biosample_term_name=HCT116;ENCODE_cell_slims=cancer cell,epithelial cell;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=HCT-116 cell,HCT116 cell;Analysis_title=Lab custom GRCh38;GM=[Method:CRISPR|Category:Insertion];Fragmentation_method=sonication (Branson Sonifier 250);Library_size=300-600;schema=BED4+19;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0002824;is_hg38_lifted=no system_category Digestive life_stage Adult track_name ENCODE HCT116 (repl. 1) ChIA-PET CTCF chromatin interactions (bed4+19 interact) [Experiment: ENCSR160MHZ] [Life stage: Adult] [Chromatin interactions]
CTCF • PC-9 NGENCHZUFQDHNL • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq PC-9 TF Show metadata Download track Track metadata identifier NGENCHZUFQDHNL data_source ENCODE Download track Download number_of_intervals 62,797 bp_covered 30,302,584 output_type conservative IDR thresholded peaks genome_build hg38 cell_type PC-9 biosample_type Cell line biosample_term_id EFO:0002847 tissue_category Lung encode_experiment_id ENCSR243INX biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 1,077,104 downloaded_date 06/12/2022 release_date 01/26/2021 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF539ULB.bed.gz processed_file_md5 8e54eedef7fe9dfcce8fa2d52f9ad834 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF539ULB.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF539ULB.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF539ULB/@@download/ENCFF539ULB.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF539ULB.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 aca7917ca1bc31218094b932a01cd9e6 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF conservative IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens PC-9;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ccre_inputv1,ENCYCLOPEDIAv2,ENCYCLOPEDIAv1,RegulomeDB_2_2;Life_stage_age=NR;Reference=NR;External_resources=FactorBook:ENCSR243INX,SCREEN-GRCh38:PC-9,GEO:GSE101051;Project=ENCODE;Award=U54HG006991;Experiment_date_released=2017-01-12,2016-05-06;Submitted_track_name=rep1_vs_rep2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=PC-9;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=respiratory system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.6.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0002847;is_hg38_lifted=no system_category Respiratory life_stage Unknown track_name ENCODE PC-9 (repl. 1, 2) TF ChIP-seq CTCF conservative IDR thresholded peaks (narrowPeak) [Experiment: ENCSR243INX] [TF ChIP-seq peaks]
CTCF • Stomach NGENCI22IHOER6 • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Stomach TF Show metadata Download track Track metadata identifier NGENCI22IHOER6 data_source ENCODE Download track Download number_of_intervals 25,389 bp_covered 8,798,523 output_type IDR thresholded peaks genome_build hg38 cell_type Stomach biosample_type Tissue biosample_term_id UBERON:0000945 tissue_category Digestive encode_experiment_id ENCSR361KVZ biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 431,239 downloaded_date 06/12/2022 release_date 09/23/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF767CVC.bed.gz processed_file_md5 5c7554e13ff9f406b178380887f3b73a wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF767CVC.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF767CVC.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF767CVC/@@download/ENCFF767CVC.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF767CVC.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 0b9da3d6d2aa68b479c543ab92d1c72c data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens stomach tissue female adult (51 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,ENTEx,RegulomeDB_2_1;Life_stage_age=adult 51 years;Reference=NR;External_resources=GEO:GSE175207,FactorBook:ENCSR361KVZ;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2018-12-14;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=stomach;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0000945;is_hg38_lifted=no system_category Digestive life_stage Adult track_name ENCODE Stomach (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR361KVZ] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Spleen NGENCI2U7477JC • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Spleen TF Show metadata Download track Track metadata identifier NGENCI2U7477JC data_source ENCODE Download track Download number_of_intervals 32,950 bp_covered 10,773,596 output_type IDR thresholded peaks genome_build hg38 cell_type Spleen biosample_type Tissue biosample_term_id UBERON:0002106 tissue_category Immune Organ encode_experiment_id ENCSR482PMN biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 625,967 downloaded_date 06/12/2022 release_date 08/13/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF077XIZ.bed.gz processed_file_md5 3d98a31abe558e4ec06ebd0a7afed070 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF077XIZ.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF077XIZ.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF077XIZ/@@download/ENCFF077XIZ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF077XIZ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 3d02eef5a31f5651c4bd81ff4b2afd31 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens spleen tissue female adult (51 years);Lab=Michael Snyder, Stanford;ENCODE_internal_tags=ccre_inputv2,ENTEx,ENCYCLOPEDIAv2,RegulomeDB_2_1,RegulomeDB_2_2;Life_stage_age=adult 51 years;Reference=NR;External_resources=GEO:GSE105690,FactorBook:ENCSR482PMN,SCREEN-GRCh38:spleen_female_adult_51_years;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2016-07-11,2016-05-18;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=spleen;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system,immune system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0002106;is_hg38_lifted=no system_category Lymphatic life_stage Adult track_name ENCODE Spleen (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR482PMN] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Sigmoid colon NGENCI53G65DLO • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Sigmoid colon TF Show metadata Download track Track metadata identifier NGENCI53G65DLO data_source ENCODE Download track Download number_of_intervals 24,887 bp_covered 8,371,346 output_type IDR thresholded peaks genome_build hg38 cell_type Sigmoid colon biosample_type Tissue biosample_term_id UBERON:0001159 tissue_category Digestive encode_experiment_id ENCSR222SQE biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 461,027 downloaded_date 06/12/2022 release_date 10/10/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF086DZH.bed.gz processed_file_md5 6dd63633839fa8edcc4003375d347b4f wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF086DZH.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF086DZH.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF086DZH/@@download/ENCFF086DZH.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF086DZH.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 7203572cab79a7eef62c767569853a27 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens sigmoid colon tissue male adult (54 years);Lab=Michael Snyder, Stanford;ENCODE_internal_tags=ccre_inputv2,ENTEx,ENCYCLOPEDIAv2,RegulomeDB_2_1,RegulomeDB_2_2;Life_stage_age=adult 54 years;Reference=NR;External_resources=GEO:GSE105339,SCREEN-GRCh38:sigmoid_colon_male_adult_54_years,FactorBook:ENCSR222SQE;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2016-11-07,2016-09-20;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=sigmoid colon;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0001159;is_hg38_lifted=no system_category Digestive life_stage Adult track_name ENCODE Sigmoid colon (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR222SQE] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • A673 NGENCI5QVMJ5U7 • ENCODE22955616 | 41168159 | 31713622 ChIA-PET A673 Chromatin interactions Show metadata Download track Track metadata identifier NGENCI5QVMJ5U7 data_source ENCODE Download track Download number_of_intervals 529,920 bp_covered 477,677,953 output_type chromatin interactions genome_build hg38 cell_type A673 biosample_type Cell line biosample_term_id EFO:0002106 tissue_category Skeletal Muscle encode_experiment_id ENCSR549TMF biological_replicate 2 technical_replicate 2_1 antibody CTCF assay ChIA-PET file_format bed bed4+19 interact file_size 19,527,440 downloaded_date 09/20/2025 release_date 04/06/2022 date_added_to_filer 10/27/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF547ZPZ.bed.gz processed_file_md5 249fb6c63280d21eae9ab92b591aa19d wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF547ZPZ.bed.gz -P FILER2/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF547ZPZ.bed.gz.tbi -P FILER2/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/ link_out_url https://www.encodeproject.org/ raw_file_url https://www.encodeproject.org/files/ENCFF547ZPZ/@@download/ENCFF547ZPZ.bedpe.gz raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ENCFF547ZPZ.bedpe.gz -P FILER2/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ raw_file_md5 54b6408ab8425a8586d6745379f2b3b3 data_category Chromatin interactions Genomic feature type ChIA-PET chromatin interactions track_description version=2024;Biosample_summary=Homo sapiens A673;Lab=Charles Lee;ENCODE_internal_tags=Deeply Profiled;Life_stage_age=child 15 years;Reference=NR;External_resources=GEO:GSE242593;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2022-05-30;Submitted_track_name=LHA0033.e500.clusters.cis.BE3.gz;ENCODE_preferred_default=false;ENCODE_biosample_term_name=A673;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=musculature;ENCODE_biosample_term_synonyms=NR;Analysis_title=Lab custom GRCh38;GM=NR;Fragmentation_method=sonication (Branson Sonifier 250);Library_size=300-600;schema=BED4+19;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0002106;is_hg38_lifted=no system_category Muscular life_stage Child track_name ENCODE A673 (repl. 2) ChIA-PET CTCF chromatin interactions (bed4+19 interact) [Experiment: ENCSR549TMF] [Life stage: Child] [Chromatin interactions]
CTCF • Middle frontal area BA46 NGENCIB2S43VSN • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Middle frontal area BA46 TF Show metadata Download track Track metadata identifier NGENCIB2S43VSN data_source ENCODE Download track Download number_of_intervals 40,262 bp_covered 14,478,064 output_type IDR thresholded peaks genome_build hg38 cell_type Middle frontal area BA46 biosample_type Tissue biosample_term_id UBERON:0006483 tissue_category Brain encode_experiment_id ENCSR841XDW biological_replicate 2 technical_replicate 2_1, 2_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 714,200 downloaded_date 06/12/2022 release_date 06/06/2022 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF428ZYK.bed.gz processed_file_md5 3b7c14e7896d83cf5f2201d93933c9e4 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF428ZYK.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF428ZYK.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF428ZYK/@@download/ENCFF428ZYK.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF428ZYK.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 ce572119e27491eb1abca5b1f60a6abc data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens with Alzheimer's disease| dorsolateral prefrontal cortex tissue female adult (90 or above years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RushAD,RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=adult 90 or above years;Reference=NR;External_resources=GEO:GSE209336;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2022-06-09,2022-06-07;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=dorsolateral prefrontal cortex;ENCODE_cell_slims=NR;ENCODE_system_slims=central nervous system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.8.0 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0006483;is_hg38_lifted=no system_category Nervous life_stage Adult track_name ENCODE Middle frontal area BA46 (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR841XDW] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Caco-2 NGENCIC2WNG7UA • ENCODE22955616 | 41168159 | 31713622 ChIA-PET Caco-2 Chromatin interactions Show metadata Download track Track metadata identifier NGENCIC2WNG7UA data_source ENCODE Download track Download number_of_intervals 333,831 bp_covered 134,846,816 output_type peaks genome_build hg38 cell_type Caco-2 biosample_type Cell line biosample_term_id EFO:0001099 tissue_category Digestive encode_experiment_id ENCSR185PEE biological_replicate 2 technical_replicate 2_1 antibody CTCF assay ChIA-PET file_format bed narrowPeak file_size 8,450,980 downloaded_date 06/12/2022 release_date 03/30/2022 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/narrowPeak/hg38/ENCFF280CYK.bed.gz processed_file_md5 167d45aa3aacfa57b8586135a7361ad9 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/narrowPeak/hg38/ENCFF280CYK.bed.gz -P GADB/Annotationtracks/ENCODE/data/ChIA-PET/narrowPeak/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/narrowPeak/hg38/ENCFF280CYK.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/ChIA-PET/narrowPeak/hg38/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF280CYK/@@download/ENCFF280CYK.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF280CYK.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 a9ef9daa19c9253d4736222ee61f8cfe data_category Chromatin interactions Genomic feature type ChIA-PET CTCF peaks track_description version=2024;Biosample_summary=Homo sapiens Caco-2;Lab=Charles Lee;ENCODE_internal_tags=Deeply Profiled;Life_stage_age=adult 72 years;Reference=NR;External_resources=GEO:GSE242657;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2022-05-30;Submitted_track_name=LHC0005.no_input_all_peaks.maxscore1000.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=Caco-2;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=Caco2;Analysis_title=Lab custom GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0001099;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Digestive life_stage Adult track_name ENCODE Caco-2 (repl. 2) ChIA-PET CTCF peaks (narrowPeak) [Experiment: ENCSR185PEE] [Life stage: Adult] [Chromatin interactions]
CTCF • Cardiac muscle cell NGENCICIPIXLMM • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Cardiac muscle cell TF Show metadata Download track Track metadata identifier NGENCICIPIXLMM data_source ENCODE Download track Download number_of_intervals 43,094 bp_covered 12,385,337 output_type IDR thresholded peaks genome_build hg38 cell_type Cardiac muscle cell biosample_type Primary cell biosample_term_id CL:0000746 tissue_category Heart encode_experiment_id ENCSR000DTI biological_replicate 2 technical_replicate 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 766,342 downloaded_date 06/12/2022 release_date 09/26/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF941RYX.bed.gz processed_file_md5 7ab23e215f07aa7a97338de4d4e17649 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF941RYX.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF941RYX.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF941RYX/@@download/ENCFF941RYX.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF941RYX.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 1c73a54b79b6bb1e95d2a4ccb1066e94 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens cardiac muscle cell;Lab=John Stamatoyannopoulos, UW;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1,RegulomeDB_1_0,ENCYCLOPEDIAv2,ccre_inputv1,ENCYCLOPEDIAv1,ccre_inputv2,RegulomeDB_2_0;Life_stage_age=NR;Reference=PMID:32728046;External_resources=SCREEN-GRCh38:cardiac_muscle_cell_primary,UCSC-ENCODE-hg19:wgEncodeEH001894,GEO:GSM1022677,FactorBook:ENCSR000DTI;Project=ENCODE;Award=U54HG004592;Experiment_date_released=2012-01-17,2011-02-11;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=cardiac muscle cell;ENCODE_cell_slims=cardiocyte;ENCODE_system_slims=musculature,circulatory system;ENCODE_biosample_term_synonyms=heart muscle cell,cardiac myocyte,cardiac muscle fiber,cardiomyocyte;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=CL:0000746;is_hg38_lifted=no system_category Cardiovascular life_stage Unknown track_name ENCODE Cardiac muscle cell (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DTI] [TF ChIP-seq peaks]
CTCF • GM13977 NGENCICQQFUJGW • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq GM13977 TF Show metadata Download track Track metadata identifier NGENCICQQFUJGW data_source ENCODE Download track Download number_of_intervals 42,140 bp_covered 6,900,399 output_type IDR thresholded peaks genome_build hg38 cell_type GM13977 biosample_type Cell line biosample_term_id EFO:0005346 tissue_category Blood encode_experiment_id ENCSR000DLB biological_replicate 2 technical_replicate 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 740,649 downloaded_date 06/12/2022 release_date 09/26/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF013UGH.bed.gz processed_file_md5 27009831cf2586afc844978f1343f185 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF013UGH.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF013UGH.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF013UGH/@@download/ENCFF013UGH.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF013UGH.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 c837923ca89940a510ff3702093e4d3a data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens GM13977;Lab=Vishwanath Iyer, UTA;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ccre_inputv1,ENCYCLOPEDIAv2,ENCYCLOPEDIAv1,RegulomeDB_2_2;Life_stage_age=unknown 20 years;Reference=NR;External_resources=FactorBook:ENCSR000DLB,GEO:GSM1006869,SCREEN-GRCh38:GM13977,UCSC-ENCODE-hg19:wgEncodeEH003456;Project=ENCODE;Award=U54HG004563;Experiment_date_released=2012-08-27;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=GM13977;ENCODE_cell_slims=hematopoietic cell,leukocyte,B cell;ENCODE_system_slims=immune system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0005346;is_hg38_lifted=no system_category Cardiovascular life_stage Unknown track_name ENCODE GM13977 (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DLB] [TF ChIP-seq peaks]
CTCF • Thyroid gland NGENCIDMCXSRBJ • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Thyroid gland TF Show metadata Download track Track metadata identifier NGENCIDMCXSRBJ data_source ENCODE Download track Download number_of_intervals 18,589 bp_covered 8,129,191 output_type IDR thresholded peaks genome_build hg38 cell_type Thyroid gland biosample_type Tissue biosample_term_id UBERON:0002046 tissue_category Endocrine encode_experiment_id ENCSR331OGX biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 333,724 downloaded_date 06/12/2022 release_date 09/24/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF905YHF.bed.gz processed_file_md5 d356709852dc5c4fbbffad963ddb3d8f wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF905YHF.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF905YHF.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF905YHF/@@download/ENCFF905YHF.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF905YHF.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 2eae506ef1b8bccd2ca3585f8ddf877a data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens thyroid gland tissue female adult (53 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,ENTEx,RegulomeDB_2_1;Life_stage_age=adult 53 years;Reference=NR;External_resources=GEO:GSE142953,FactorBook:ENCSR331OGX;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2019-09-11,2016-08-09;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=thyroid gland;ENCODE_cell_slims=NR;ENCODE_system_slims=endocrine system;ENCODE_biosample_term_synonyms=thyroid;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0002046;is_hg38_lifted=no system_category Endocrine life_stage Adult track_name ENCODE Thyroid gland (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR331OGX] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • OCI-LY3 NGENCIEKFGQG6M • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq OCI-LY3 TF Show metadata Download track Track metadata identifier NGENCIEKFGQG6M data_source ENCODE Download track Download number_of_intervals 54,822 bp_covered 19,054,416 output_type IDR thresholded peaks genome_build hg38 cell_type OCI-LY3 biosample_type Cell line biosample_term_id EFO:0006710 tissue_category Blood encode_experiment_id ENCSR756ZKG biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 953,964 downloaded_date 06/12/2022 release_date 10/10/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF699BHO.bed.gz processed_file_md5 5f59ce47ae414ade31ce7b1406f02800 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF699BHO.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF699BHO.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF699BHO/@@download/ENCFF699BHO.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF699BHO.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 305f9d3d6b87585506e6d7ffcbe4c0bb data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens OCI-LY3;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ENCYCLOPEDIAv2,RegulomeDB_2_2;Life_stage_age=adult 52 years;Reference=NR;External_resources=GEO:GSE123225,FactorBook:ENCSR756ZKG,SCREEN-GRCh38:OCI-LY3;Project=ENCODE;Award=U54HG006991;Experiment_date_released=2014-07-11;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=OCI-LY3;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=skeletal system,immune system;ENCODE_biosample_term_synonyms=Oci-Ly-3,Oci-Ly-3 cell;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0006710;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE OCI-LY3 (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR756ZKG] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Middle frontal area BA46 NGENCIF7OZSCNB • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Middle frontal area BA46 TF Show metadata Download track Track metadata identifier NGENCIF7OZSCNB data_source ENCODE Download track Download number_of_intervals 46,343 bp_covered 18,234,680 output_type IDR thresholded peaks genome_build hg38 cell_type Middle frontal area BA46 biosample_type Tissue biosample_term_id UBERON:0006483 tissue_category Brain encode_experiment_id ENCSR378BVM biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 810,074 downloaded_date 06/12/2022 release_date 04/12/2021 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF696ASB.bed.gz processed_file_md5 3ec412ece98f9d15aa078e37751c0b2b wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF696ASB.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF696ASB.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF696ASB/@@download/ENCFF696ASB.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF696ASB.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 bf2889c5de59900be4add6549ae5b0f5 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens with mild cognitive impairment| dorsolateral prefrontal cortex tissue female adult (87 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RushAD,RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=adult 87 years;Reference=NR;External_resources=GEO:GSE187347;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-07-23,2021-04-12;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=dorsolateral prefrontal cortex;ENCODE_cell_slims=NR;ENCODE_system_slims=central nervous system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.8.0 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0006483;is_hg38_lifted=no system_category Nervous life_stage Adult track_name ENCODE Middle frontal area BA46 (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR378BVM] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • VCaP NGENCIFU5GPKGJ • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq VCaP TF Show metadata Download track Track metadata identifier NGENCIFU5GPKGJ data_source ENCODE Download track Download number_of_intervals 77,124 bp_covered 43,932,034 output_type IDR thresholded peaks genome_build hg38 cell_type VCaP biosample_type Cell line biosample_term_id EFO:0007752 tissue_category Male Reproductive encode_experiment_id ENCSR265ARE biological_replicate 2 technical_replicate 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 1,271,896 downloaded_date 06/12/2022 release_date 09/01/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF879XOT.bed.gz processed_file_md5 8334f81b3dbd8395efbe8aa017ad08de wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF879XOT.bed.gz -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF879XOT.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF879XOT/@@download/ENCFF879XOT.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF879XOT.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 dcd17a752d36b5a85ccc8be7e80075d6 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens VCaP;Lab=Michael Snyder, Stanford;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ENCYCLOPEDIAv2,RegulomeDB_2_2;Life_stage_age=adult 59 years;Reference=NR;External_resources=FactorBook:ENCSR265ARE,GEO:GSE105403,SCREEN-GRCh38:VCaP;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2017-07-21,2017-04-10;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=VCaP;ENCODE_cell_slims=cancer cell,epithelial cell;ENCODE_system_slims=reproductive system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0007752;is_hg38_lifted=no system_category Reproductive life_stage Adult track_name ENCODE VCaP (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR265ARE] [Life stage: Adult] [TF ChIP-seq peaks]