CTCF • WERI-Rb-1 NGENC3ZSWLV4JF • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq WERI-Rb-1 TF Show metadata Download track Track metadata identifier NGENC3ZSWLV4JF data_source ENCODE Download track Download number_of_intervals 59,540 bp_covered 12,333,777 output_type IDR thresholded peaks genome_build hg38 cell_type WERI-Rb-1 biosample_type Cell line biosample_term_id EFO:0005715 tissue_category Eye encode_experiment_id ENCSR000DXW biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 1,007,568 downloaded_date 06/12/2022 release_date 09/25/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF349QKF.bed.gz processed_file_md5 a717a711170abf6ad792dd2f82972c6c wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF349QKF.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/ENCFF349QKF.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/ENCFF349QKF/@@download/ENCFF349QKF.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF349QKF.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 50ed2c63da745788b13f1ab8514f2f22 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens WERI-Rb-1;Lab=John Stamatoyannopoulos, UW;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ccre_inputv1,ENCYCLOPEDIAv2,ENCYCLOPEDIAv1,RegulomeDB_2_2;Life_stage_age=child 1 year;Reference=PMID:32728046;External_resources=UCSC-ENCODE-hg19:wgEncodeEH000402,GEO:GSM749768,FactorBook:ENCSR000DXW,SCREEN-GRCh38:WERI-Rb-1;Project=ENCODE;Award=U54HG004592;Experiment_date_released=2011-03-17,2011-11-17;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=WERI-Rb-1;ENCODE_cell_slims=neural cell,cancer cell;ENCODE_system_slims=sensory system;ENCODE_biosample_term_synonyms=WERI_Rb_1,WERI Rb 1;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:0005715;is_hg38_lifted=no system_category Sensory life_stage Child track_name ENCODE WERI-Rb-1 (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DXW] [Life stage: Child] [TF ChIP-seq peaks]
CTCF • GM12878 NGENC422S3YHHH • ENCODE22955616 | 41168159 | 31713622 ChIA-PET GM12878 Chromatin interactions Show metadata Download track Track metadata identifier NGENC422S3YHHH data_source ENCODE Download track Download number_of_intervals 414,032 bp_covered 307,445,562 output_type chromatin interactions genome_build hg38 cell_type GM12878 biosample_type Cell line biosample_term_id EFO:0002784 tissue_category Blood encode_experiment_id ENCSR184YZV biological_replicate 2 technical_replicate 2_1 antibody CTCF assay ChIA-PET file_format bed bed4+19 interact file_size 16,324,100 downloaded_date 09/20/2025 release_date 08/26/2021 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_ENCFF625CQS.bed.gz processed_file_md5 b56c62bdcbd259c0263fac62d72eb36b wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF625CQS.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_ENCFF625CQS.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/ENCFF625CQS/@@download/ENCFF625CQS.bedpe.gz raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ENCFF625CQS.bedpe.gz -P FILER2/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ raw_file_md5 de0e06fd2552c8ae5943c68a17298208 data_category Chromatin interactions Genomic feature type ChIA-PET chromatin interactions track_description version=2024;Biosample_summary=Homo sapiens GM12878;Lab=Yijun Ruan, JAX;ENCODE_internal_tags=NR;Life_stage_age=NR;Reference=NR;External_resources=4DN:4DNES7IB5LY9;Project=community;Award=1U54DK107967;Experiment_date_released=2021-09-09,2020-09-28;Submitted_track_name=LHG0066V.e500.clusters.cis.BE3.gz;ENCODE_preferred_default=false;ENCODE_biosample_term_name=GM12878;ENCODE_cell_slims=B 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=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:0002784;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE GM12878 (repl. 2) ChIA-PET CTCF chromatin interactions (bed4+19 interact) [Experiment: ENCSR184YZV] [Life stage: Adult] [Chromatin interactions]
CTCF • D721 Med NGENC45U7HRBMM • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq D721 Med TF Show metadata Download track Track metadata identifier NGENC45U7HRBMM data_source ENCODE Download track Download number_of_intervals 41,671 bp_covered 7,578,389 output_type conservative IDR thresholded peaks genome_build hg38 cell_type D721 Med biosample_type Cell line biosample_term_id EFO:0005696 tissue_category Brain encode_experiment_id ENCSR000DMY biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 745,192 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/ENCFF511YNI.bed.gz processed_file_md5 5939f91b168e4fc8f6e17cf9b353141e wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF511YNI.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/ENCFF511YNI.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/ENCFF511YNI/@@download/ENCFF511YNI.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF511YNI.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 77f65be51bb5acea9ec6962bfe196fc1 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 D721Med;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=child 2 years;Reference=NR;External_resources=UCSC-ENCODE-hg19:wgEncodeEH003440,GEO:GSM1006893,FactorBook:ENCSR000DMY,SCREEN-GRCh38:medulloblastoma;Project=ENCODE;Award=U54HG004563;Experiment_date_released=2012-08-27;Submitted_track_name=rep1_vs_rep2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=D721Med;ENCODE_cell_slims=neural cell;ENCODE_system_slims=central nervous system;ENCODE_biosample_term_synonyms=D-721 Med,D-721,D-721Med,D721;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:0005696;is_hg38_lifted=no system_category Nervous life_stage Child track_name ENCODE D721 Med (repl. 1, 2) TF ChIP-seq CTCF conservative IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DMY] [Life stage: Child] [TF ChIP-seq peaks]
CTCF • Endothelial cell NGENC474ZTCLRE • ENCODE22955616 | 41168159 | 31713622 ChIA-PET Endothelial cell Chromatin interactions Show metadata Download track Track metadata identifier NGENC474ZTCLRE data_source ENCODE Download track Download number_of_intervals 2,004,968 bp_covered 2,581,392,467 output_type chromatin interactions genome_build hg38 cell_type Endothelial cell biosample_type Primary cell biosample_term_id CL:0000115 tissue_category Umbilical Cord encode_experiment_id ENCSR404FPI biological_replicate 2 technical_replicate 2_1 antibody CTCF assay ChIA-PET file_format bed bed4+19 interact file_size 74,539,893 downloaded_date 09/20/2025 release_date 06/28/2021 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_ENCFF377RDA.bed.gz processed_file_md5 237e10936557f16eaec3e9ec8c5e7161 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF377RDA.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_ENCFF377RDA.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/ENCFF377RDA/@@download/ENCFF377RDA.bedpe.gz raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ENCFF377RDA.bedpe.gz -P FILER2/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ raw_file_md5 a9d8760d5c94612590598444c8adde95 data_category Chromatin interactions Genomic feature type ChIA-PET chromatin interactions track_description version=2024;Biosample_summary=Homo sapiens endothelial cell of umbilical vein newborn;Lab=Charles Lee;ENCODE_internal_tags=NR;Life_stage_age=NR;Reference=NR;External_resources=GEO:GSE177081;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2021-04-06,2020-09-28;Submitted_track_name=LHH0089V.e500.clusters.cis.BE3.gz;ENCODE_preferred_default=true;ENCODE_biosample_term_name=endothelial cell of umbilical vein;ENCODE_cell_slims=endothelial cell,epithelial cell;ENCODE_system_slims=circulatory system,reproductive system;ENCODE_biosample_term_synonyms=NR;Analysis_title=Lab custom GRCh38;GM=NR;Fragmentation_method=sonication (Branson Sonifier 250);Library_size=350-600, 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=CL:0002618;is_hg38_lifted=no system_category Embryo life_stage Newborn track_name ENCODE Endothelial cell (repl. 2) ChIA-PET CTCF chromatin interactions (bed4+19 interact) [Experiment: ENCSR404FPI] [Life stage: Newborn] [Chromatin interactions]
CTCF • Middle frontal area BA46 NGENC477P3TN6J • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Middle frontal area BA46 TF Show metadata Download track Track metadata identifier NGENC477P3TN6J data_source ENCODE Download track Download number_of_intervals 39,257 bp_covered 14,560,809 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 ENCSR251BHU biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 696,022 downloaded_date 06/12/2022 release_date 12/14/2021 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF896AZK.bed.gz processed_file_md5 9979bc220cd4cb625654f3c0d1c04f19 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF896AZK.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/ENCFF896AZK.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/ENCFF896AZK/@@download/ENCFF896AZK.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF896AZK.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 30966973fb538acefe16036c659529bb data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens dorsolateral prefrontal cortex tissue female adult (82 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RushAD,RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=adult 82 years;Reference=NR;External_resources=GEO:GSE209297;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2022-01-06,2021-09-21;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: ENCSR251BHU] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Epithelial cell NGENC47CWB2Z6G • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Epithelial cell TF Show metadata Download track Track metadata identifier NGENC47CWB2Z6G data_source ENCODE Download track Download number_of_intervals 34,069 bp_covered 8,234,368 output_type IDR thresholded peaks genome_build hg38 cell_type Epithelial cell biosample_type Primary cell biosample_term_id CL:0000066 tissue_category Kidney encode_experiment_id ENCSR000DVH biological_replicate 2 technical_replicate 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 557,070 downloaded_date 06/12/2022 release_date 09/25/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF841QPE.bed.gz processed_file_md5 10af25c5c68007b4dc81bc4beafbb59d wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF841QPE.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/ENCFF841QPE.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/ENCFF841QPE/@@download/ENCFF841QPE.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF841QPE.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 865b3b84dbb66a29e8c2d6a6861e0e73 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens kidney epithelial cell;Lab=John Stamatoyannopoulos, UW;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=PMID:32728046;External_resources=GEO:GSM749737,UCSC-ENCODE-hg19:wgEncodeEH000405,SCREEN-GRCh38:kidney_epithelial_cell,FactorBook:ENCSR000DVH;Project=ENCODE;Award=U54HG004592;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=kidney epithelial cell;ENCODE_cell_slims=epithelial cell;ENCODE_system_slims=excretory 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=CL:0002518;is_hg38_lifted=no system_category Renal life_stage Unknown track_name ENCODE Epithelial cell (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DVH] [TF ChIP-seq peaks]
CTCF • Epithelial cell NGENC4A23WXE6J • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Epithelial cell TF Show metadata Download track Track metadata identifier NGENC4A23WXE6J data_source ENCODE Download track Download number_of_intervals 55,636 bp_covered 12,701,771 output_type conservative IDR thresholded peaks genome_build hg38 cell_type Epithelial cell biosample_type Primary cell biosample_term_id CL:0000066 tissue_category Breast encode_experiment_id ENCSR000DUS biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 963,656 downloaded_date 06/12/2022 release_date 09/25/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF164SPU.bed.gz processed_file_md5 178409af4188c534fedbf25b897bebc2 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF164SPU.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/ENCFF164SPU.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/ENCFF164SPU/@@download/ENCFF164SPU.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF164SPU.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 abf6ba3f99ceb69361e6de22a34db1c8 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 mammary epithelial cell female;Lab=John Stamatoyannopoulos, UW;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=PMID:32728046;External_resources=GEO:GSM749753,FactorBook:ENCSR000DUS,SCREEN-GRCh38:mammary_epithelial_cell_female,UCSC-ENCODE-hg19:wgEncodeEH000419;Project=ENCODE;Award=U54HG004592;Experiment_date_released=2012-01-17,2011-03-17;Submitted_track_name=rep1_vs_rep2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=mammary epithelial cell;ENCODE_cell_slims=epithelial cell;ENCODE_system_slims=integumental system,exocrine system;ENCODE_biosample_term_synonyms=breast epithelial cell,mammary epithelial 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=CL:0002327;is_hg38_lifted=no system_category Reproductive life_stage Unknown track_name ENCODE Epithelial cell (repl. 1, 2) TF ChIP-seq CTCF conservative IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DUS] [TF ChIP-seq peaks]
CTCF • GM13977 NGENC4AAU2XKO5 • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq GM13977 TF Show metadata Download track Track metadata identifier NGENC4AAU2XKO5 data_source ENCODE Download track Download number_of_intervals 47,495 bp_covered 7,426,369 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 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 850,748 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/ENCFF528ESQ.bed.gz processed_file_md5 7302f665838e818ea35a05c3cc673913 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF528ESQ.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/ENCFF528ESQ.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/ENCFF528ESQ/@@download/ENCFF528ESQ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF528ESQ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 862e6f4b770678e0b6ebf2181d74647c 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=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;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. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DLB] [TF ChIP-seq peaks]
CTCF • SK-N-SH NGENC4CCGNZ5ON • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq SK-N-SH TF Show metadata Download track Track metadata identifier NGENC4CCGNZ5ON data_source ENCODE Download track Download number_of_intervals 49,146 bp_covered 21,077,638 output_type IDR thresholded peaks genome_build hg38 cell_type SK-N-SH biosample_type Cell line biosample_term_id EFO:0003072 tissue_category Brain encode_experiment_id ENCSR541AMF biological_replicate 2 technical_replicate 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 871,052 downloaded_date 06/12/2022 release_date 02/02/2021 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF318CVG.bed.gz processed_file_md5 ec3f669555cf0f76df532093869e36ce wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF318CVG.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/ENCFF318CVG.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/ENCFF318CVG/@@download/ENCFF318CVG.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF318CVG.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 6c93870056e6d0d46cb47922a999a622 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens SK-N-SH;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=child 4 years;Reference=PMCID:PMC7343189;External_resources=GEO:GSE123217,SCREEN-GRCh38:SK-N-SH,FactorBook:ENCSR541AMF;Project=ENCODE;Award=U54HG006991;Experiment_date_released=2017-11-13,2015-08-03;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=SK-N-SH;ENCODE_cell_slims=neuroblastoma cell,cancer cell;ENCODE_system_slims=central nervous system;ENCODE_biosample_term_synonyms=SKNSH;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:0003072;is_hg38_lifted=no system_category Nervous life_stage Child track_name ENCODE SK-N-SH (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR541AMF] [Life stage: Child] [TF ChIP-seq peaks]
CTCF • Lung NGENC4DFR7LB2F • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Lung TF Show metadata Download track Track metadata identifier NGENC4DFR7LB2F data_source ENCODE Download track Download number_of_intervals 38,521 bp_covered 13,373,521 output_type IDR thresholded peaks genome_build hg38 cell_type Lung biosample_type Tissue biosample_term_id UBERON:0002048 tissue_category Lung encode_experiment_id ENCSR972LYL biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 729,050 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/hg38/2/ENCFF962AIJ.bed.gz processed_file_md5 0e55d113c784e3b67a04b7f79b5f2c9a wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF962AIJ.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/ENCFF962AIJ.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/ENCFF962AIJ/@@download/ENCFF962AIJ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF962AIJ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 9052f1e9774d225ad2f949402530cbc9 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens upper lobe of left lung 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=SCREEN-GRCh38:upper_lobe_of_left_lung_female_adult_51_years,GEO:GSE105949,FactorBook:ENCSR972LYL;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2016-12-08;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=upper lobe of left lung;ENCODE_cell_slims=NR;ENCODE_system_slims=respiratory system;ENCODE_biosample_term_synonyms=lobus superior (pulmo sinister),left lung cranial lobe,superior lobe of left lung,lobus superior pulmonis sinistri,left upper lobe,left upper lobe of lung;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:0008952;is_hg38_lifted=no system_category Respiratory life_stage Adult track_name ENCODE Lung (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR972LYL] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Adrenal gland NGENC4E6MWWQKE • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Adrenal gland TF Show metadata Download track Track metadata identifier NGENC4E6MWWQKE data_source ENCODE Download track Download number_of_intervals 41,515 bp_covered 16,590,980 output_type IDR thresholded peaks genome_build hg38 cell_type Adrenal gland biosample_type Tissue biosample_term_id UBERON:0002369 tissue_category Endocrine encode_experiment_id ENCSR188XCX biological_replicate 2 technical_replicate 2_1, 2_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 728,475 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/hg38/1/ENCFF012JYH.bed.gz processed_file_md5 2b396d513c74b5aabf0bb9cbcf6f29fd wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF012JYH.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/ENCFF012JYH.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/ENCFF012JYH/@@download/ENCFF012JYH.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF012JYH.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 4ea37cdfaac7d3b91bd92ad90231c319 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens adrenal gland tissue female adult (41 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=adult 41 years;Reference=NR;External_resources=GEO:GSE187256;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-07-23,2020-07-06;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=adrenal gland;ENCODE_cell_slims=NR;ENCODE_system_slims=endocrine system;ENCODE_biosample_term_synonyms=glandula suprarenalis,glandula adrenalis;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:0002369;is_hg38_lifted=no system_category Endocrine life_stage Adult track_name ENCODE Adrenal gland (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR188XCX] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • T-cell NGENC4ELEOIWUZ • ENCODE22955616 | 41168159 | 31713622 ChIA-PET T-cell Chromatin interactions Show metadata Download track Track metadata identifier NGENC4ELEOIWUZ data_source ENCODE Download track Download number_of_intervals 347,264 bp_covered 148,458,432 output_type peaks genome_build hg38 cell_type T-cell biosample_type Primary cell biosample_term_id CL:0000084 tissue_category Immune encode_experiment_id ENCSR411UEL biological_replicate 1 technical_replicate 1_1 antibody CTCF assay ChIA-PET file_format bed narrowPeak file_size 8,915,777 downloaded_date 05/15/2024 release_date 05/24/2022 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/narrowPeak/hg38/ENCFF028KDV.bed.gz processed_file_md5 8f78b01921c6555b8ed9c10bf835c4ee wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/narrowPeak/hg38/ENCFF028KDV.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/ENCFF028KDV.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/ENCFF028KDV/@@download/ENCFF028KDV.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF028KDV.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 f99590c45311bba03787d7fd87aac951 data_category Chromatin interactions Genomic feature type ChIA-PET CTCF peaks track_description version=2024;Biosample_summary=Homo sapiens activated T-cell male adult (35 years) treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours;Lab=Charles Lee;ENCODE_internal_tags=NR;Life_stage_age=adult 35 years;Reference=NR;External_resources=GEO:GSE242624;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2022-06-29;Submitted_track_name=LHT1001.no_input_all_peaks.maxscore1000.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=activated T-cell;ENCODE_cell_slims=T cell,leukocyte,hematopoietic cell;ENCODE_system_slims=immune system;ENCODE_biosample_term_synonyms=NR;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=NTR:0000537;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Lymphatic life_stage Adult track_name ENCODE T-cell (repl. 1) ChIA-PET CTCF peaks (narrowPeak) [Experiment: ENCSR411UEL] [Life stage: Adult] [Chromatin interactions]
CTCF • Lung NGENC4FZZPSGDE • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Lung TF Show metadata Download track Track metadata identifier NGENC4FZZPSGDE data_source ENCODE Download track Download number_of_intervals 15,697 bp_covered 3,279,438 output_type IDR thresholded peaks genome_build hg38 cell_type Lung biosample_type Tissue biosample_term_id UBERON:0002048 tissue_category Lung encode_experiment_id ENCSR000DMH biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 246,225 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/ENCFF237NXK.bed.gz processed_file_md5 7d9c4038b6d2a3f280997277ab65ebf3 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF237NXK.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/ENCFF237NXK.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/ENCFF237NXK/@@download/ENCFF237NXK.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF237NXK.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 41eb19f56476a90592db2f2ca7f80607 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens lung tissue male adult (27 years) and male adult (35 years);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=NR;Reference=PMID:32728046;External_resources=UCSC-ENCODE-hg19:wgEncodeEH003462,GEO:GSM1006882,SCREEN-GRCh38:lung_male_adult_27_years_and_male_adult_35_years,FactorBook:ENCSR000DMH;Project=ENCODE;Award=U54HG004563;Experiment_date_released=2012-08-27;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=lung;ENCODE_cell_slims=NR;ENCODE_system_slims=respiratory system;ENCODE_biosample_term_synonyms=pulmo;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:0002048;is_hg38_lifted=no system_category Respiratory life_stage Adult track_name ENCODE Lung (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DMH] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • HCT116 NGENC4GZGDESML • ENCODE22955616 | 41168159 | 31713622 ChIA-PET HCT116 Chromatin interactions Show metadata Download track Track metadata identifier NGENC4GZGDESML data_source ENCODE Download track Download number_of_intervals 123,479 bp_covered 107,897,263 output_type peaks genome_build hg38 cell_type HCT116 biosample_type Cell line biosample_term_id EFO:0002824 tissue_category Digestive encode_experiment_id ENCSR278IZK biological_replicate 2 technical_replicate 2_1 antibody CTCF assay ChIA-PET file_format bed broadPeak file_size 1,942,593 downloaded_date 06/12/2022 release_date 03/31/2021 date_added_to_filer 11/07/2022 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF256ZQI.bed.gz processed_file_md5 68aa273803482be158d57fc8e284e52f wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF256ZQI.bed.gz -P GADB/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF256ZQI.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF256ZQI/@@download/ENCFF256ZQI.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF256ZQI.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 7a62351195a7198aad2aeec4d804561b data_category Chromatin interactions Genomic feature type ChIA-PET CTCF peaks track_description version=2024;Biosample_summary=Homo sapiens HCT116;Lab=Charles Lee;ENCODE_internal_tags=NR;Life_stage_age=adult 48 years;Reference=NR;External_resources=GEO:GSE176973;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2021-04-06;Submitted_track_name=LHH0127V.for.BROWSER.spp.z6.broadPeak.bb;ENCODE_preferred_default=true;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=NR;schema=BED6+3;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=no;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. 2) ChIA-PET CTCF peaks (broadPeak) [Experiment: ENCSR278IZK] [Life stage: Adult] [Chromatin interactions]
CTCF • Endothelial cell NGENC4HDTKLJEK • ENCODE22955616 | 41168159 | 31713622 ChIA-PET Endothelial cell Chromatin interactions Show metadata Download track Track metadata identifier NGENC4HDTKLJEK data_source ENCODE Download track Download number_of_intervals 24,683 bp_covered 17,215,728 output_type peaks genome_build hg38 cell_type Endothelial cell biosample_type Primary cell biosample_term_id CL:0000115 tissue_category Umbilical Cord encode_experiment_id ENCSR404FPI biological_replicate 2 technical_replicate 2_1 antibody CTCF assay ChIA-PET file_format bed broadPeak file_size 410,960 downloaded_date 06/12/2022 release_date 06/29/2021 date_added_to_filer 11/07/2022 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF557ORM.bed.gz processed_file_md5 c8cbd9e8e36f5e72083c994ca6d62f03 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF557ORM.bed.gz -P GADB/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF557ORM.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF557ORM/@@download/ENCFF557ORM.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF557ORM.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 8620d4ef8fd07e7dbb7598068bee9845 data_category Chromatin interactions Genomic feature type ChIA-PET CTCF peaks track_description version=2024;Biosample_summary=Homo sapiens endothelial cell of umbilical vein newborn;Lab=Charles Lee;ENCODE_internal_tags=NR;Life_stage_age=NR;Reference=NR;External_resources=GEO:GSE177081;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2021-04-06,2020-09-28;Submitted_track_name=LHH0089V.for.BROWSER.spp.z6.broadPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=endothelial cell of umbilical vein;ENCODE_cell_slims=endothelial cell,epithelial cell;ENCODE_system_slims=reproductive system,circulatory system;ENCODE_biosample_term_synonyms=NR;Analysis_title=Lab custom GRCh38;GM=NR;schema=BED6+3;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=no;dataSource_acknowledgements=https://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/ENCODE.html;original_biosample_term_id=CL:0002618;is_hg38_lifted=no system_category Embryo life_stage Newborn track_name ENCODE Endothelial cell (repl. 2) ChIA-PET CTCF peaks (broadPeak) [Experiment: ENCSR404FPI] [Life stage: Newborn] [Chromatin interactions]
CTCF • MCF-7 NGENC4HUEUEY3G • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq MCF-7 TF Show metadata Download track Track metadata identifier NGENC4HUEUEY3G data_source ENCODE Download track Download number_of_intervals 52,931 bp_covered 9,251,648 output_type IDR thresholded peaks genome_build hg38 cell_type MCF-7 biosample_type Cell line biosample_term_id EFO:0001203 tissue_category Breast encode_experiment_id ENCSR000DMS biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 922,758 downloaded_date 09/10/2024 release_date 09/26/2020 date_added_to_filer 10/01/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF306NMO.bed.gz processed_file_md5 b3aa865587a75ef6ad1159415c04941c wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF306NMO.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/ENCFF306NMO.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/ENCFF306NMO/@@download/ENCFF306NMO.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF306NMO.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 838a28a7e2af65923827c81e898b1943 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens MCF-7 treated with 100 nM 17_-estradiol for 45 minutes;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=adult 69 years;Reference=NR;External_resources=FactorBook:ENCSR000DMS,GEO:GSM822309,UCSC-ENCODE-hg19:wgEncodeEH001131,SCREEN-GRCh38:MCF-7_treated_with_17beta-estradiol;Project=ENCODE;Award=U54HG004563;Experiment_date_released=2011-03-17;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=MCF-7;ENCODE_cell_slims=cancer cell,epithelial cell;ENCODE_system_slims=integumental system,exocrine system;ENCODE_biosample_term_synonyms=MCF7 cell,MCF-7 cell,MCF7;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:0001203;is_hg38_lifted=no system_category Reproductive life_stage Adult track_name ENCODE MCF-7 (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DMS] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Caco-2 NGENC4IUYB6TFX • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Caco-2 TF Show metadata Download track Track metadata identifier NGENC4IUYB6TFX data_source ENCODE Download track Download number_of_intervals 48,989 bp_covered 9,941,936 output_type IDR thresholded peaks genome_build hg38 cell_type Caco-2 biosample_type Cell line biosample_term_id EFO:0001099 tissue_category Digestive encode_experiment_id ENCSR000DQN biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 822,285 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/ENCFF934QYS.bed.gz processed_file_md5 bf1508c5b4b4f9e64629a286dd9da395 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF934QYS.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/ENCFF934QYS.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/ENCFF934QYS/@@download/ENCFF934QYS.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF934QYS.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 20a3ace9b64984b87558ad7ee3427d2b data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens Caco-2;Lab=John Stamatoyannopoulos, UW;ENCODE_internal_tags=RegulomeDB_1_0,ccre_inputv2,RegulomeDB_2_0,RegulomeDB_2_1,ccre_inputv1,ENCYCLOPEDIAv2,ENCYCLOPEDIAv1,RegulomeDB_2_2;Life_stage_age=adult 72 years;Reference=PMID:32728046;External_resources=GEO:GSM749748,FactorBook:ENCSR000DQN,UCSC-ENCODE-hg19:wgEncodeEH000404,SCREEN-GRCh38:Caco-2;Project=ENCODE;Award=U54HG004592;Experiment_date_released=2011-03-17,2011-02-11;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=Caco-2;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=Caco2;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:0001099;is_hg38_lifted=no system_category Digestive life_stage Adult track_name ENCODE Caco-2 (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DQN] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • HCT116 NGENC4JGTOV6DC • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq HCT116 TF Show metadata Download track Track metadata identifier NGENC4JGTOV6DC data_source ENCODE Download track Download number_of_intervals 55,004 bp_covered 23,343,423 output_type IDR thresholded peaks genome_build hg38 cell_type HCT116 biosample_type Cell line biosample_term_id EFO:0002824 tissue_category Digestive encode_experiment_id ENCSR352EIC biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 951,887 downloaded_date 07/10/2025 release_date 07/20/2022 date_added_to_filer 07/30/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF925YUV.bed.gz processed_file_md5 924a775b77070d96767d7fe11cdfecd1 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF925YUV.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/ENCFF925YUV.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/ENCFF925YUV/@@download/ENCFF925YUV.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF925YUV.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 78e194194af48c3290f5cb71f22e33e0 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks 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;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,Degron,RegulomeDB_2_1;Life_stage_age=adult 48 years;Reference=NR;External_resources=GEO:GSE231032;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2022-07-21;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=HCT116;ENCODE_cell_slims=cancer cell,epithelial cell;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=HCT116 cell,HCT-116 cell;Analysis_title=ENCODE4 v1.8.0 GRCh38;GM=[Method:CRISPR|Category:insertion];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:0002824;is_hg38_lifted=no system_category Digestive life_stage Adult track_name ENCODE HCT116 (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR352EIC] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • A549 NGENC4MDCTL3VK • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq A549 TF Show metadata Download track Track metadata identifier NGENC4MDCTL3VK data_source ENCODE Download track Download number_of_intervals 39,171 bp_covered 14,236,109 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 ENCSR414CQB biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 683,778 downloaded_date 07/10/2025 release_date 10/02/2020 date_added_to_filer 07/30/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF218LUA.bed.gz processed_file_md5 87a6694d88a1a230e878e09d283362c3 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF218LUA.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/ENCFF218LUA.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/ENCFF218LUA/@@download/ENCFF218LUA.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF218LUA.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 af01dc36e746c235cba0fb9da66f6638 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 12 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:GSE92805,FactorBook:ENCSR414CQB;Project=GGR;Award=U01HG007900;Experiment_date_released=2016-12-20;Submitted_track_name=rep1-pr1_vs_rep1-pr2.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;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) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR414CQB] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Keratinocyte NGENC4OJ44CBZA • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Keratinocyte TF Show metadata Download track Track metadata identifier NGENC4OJ44CBZA data_source ENCODE Download track Download number_of_intervals 32,106 bp_covered 7,593,141 output_type IDR thresholded peaks genome_build hg38 cell_type Keratinocyte biosample_type Primary cell biosample_term_id CL:0000312 tissue_category Skin encode_experiment_id ENCSR000DWX biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 537,143 downloaded_date 06/12/2022 release_date 09/25/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF035RGR.bed.gz processed_file_md5 201836138024b4cf22474b1a1d3540cc wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF035RGR.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/ENCFF035RGR.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/ENCFF035RGR/@@download/ENCFF035RGR.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF035RGR.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 207a8e9b86c1aa99aeb315f14dba2136 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens keratinocyte female;Lab=John Stamatoyannopoulos, UW;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=GEO:GSM749747,FactorBook:ENCSR000DWX,UCSC-ENCODE-hg19:wgEncodeEH000406;Project=ENCODE;Award=U54HG004592;Experiment_date_released=2011-03-17;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=keratinocyte;ENCODE_cell_slims=keratinocyte,epithelial cell;ENCODE_system_slims=integumental system;ENCODE_biosample_term_synonyms=keratinized cell of epidermis,malpighian 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=CL:0000312;is_hg38_lifted=no system_category Integumentary life_stage Unknown track_name ENCODE Keratinocyte (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DWX] [TF ChIP-seq peaks]