CTCF • Placenta NGENCJBF6TFT5L • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Placenta TF Show metadata Download track Track metadata identifier NGENCJBF6TFT5L data_source ENCODE Download track Download number_of_intervals 16,715 bp_covered 7,592,704 output_type IDR thresholded peaks genome_build hg38 cell_type Placenta biosample_type Tissue biosample_term_id UBERON:0001987 tissue_category Placenta encode_experiment_id ENCSR782BSY biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 282,441 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/ENCFF261YDN.bed.gz processed_file_md5 b0f48c6dd66a9ad540309dd2a2278ee7 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF261YDN.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/ENCFF261YDN.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/ENCFF261YDN/@@download/ENCFF261YDN.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF261YDN.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 9920e808d0bf4e1ccb4103aaf52ca1cc data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens placenta tissue male embryo;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=NR;Reference=NR;External_resources=GEO:GSE209109;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2022-06-09,2022-06-07;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=placenta;ENCODE_cell_slims=NR;ENCODE_system_slims=reproductive system;ENCODE_biosample_term_synonyms=eutherian placenta,allantoic placenta;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:0001987;is_hg38_lifted=no system_category Placental life_stage Embryonic track_name ENCODE Placenta (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR782BSY] [Life stage: Embryonic] [TF ChIP-seq peaks]
CTCF • Thyroid gland NGENCJF5CIJNNA • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Thyroid gland TF Show metadata Download track Track metadata identifier NGENCJF5CIJNNA data_source ENCODE Download track Download number_of_intervals 39,284 bp_covered 11,992,327 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 ENCSR955BIB biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 729,118 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/ENCFF204HWS.bed.gz processed_file_md5 c087e56ec812a47c862c7cff649a74f5 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF204HWS.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/ENCFF204HWS.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/ENCFF204HWS/@@download/ENCFF204HWS.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF204HWS.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 a4d43d3abb59f2c7eed98566bf3ca0ee 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 (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:thyroid_gland_female_adult_51_years,GEO:GSE105921,FactorBook:ENCSR955BIB;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=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: ENCSR955BIB] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • H54 NGENCJGYR5QR3R • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq H54 TF Show metadata Download track Track metadata identifier NGENCJGYR5QR3R data_source ENCODE Download track Download number_of_intervals 52,979 bp_covered 10,205,072 output_type IDR thresholded peaks genome_build hg38 cell_type H54 biosample_type Cell line biosample_term_id EFO:0002782 tissue_category Brain encode_experiment_id ENCSR000DKN biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 933,496 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/ENCFF255TVO.bed.gz processed_file_md5 caabe0494c7ffeee24013e58605f0ef9 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF255TVO.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/ENCFF255TVO.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/ENCFF255TVO/@@download/ENCFF255TVO.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF255TVO.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 830b8e250b8e696baf401c8012ef1f9d data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens H54;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 36 years;Reference=PMID:32728046;External_resources=SCREEN-GRCh38:H54,GEO:GSM822303,UCSC-ENCODE-hg19:wgEncodeEH001135,FactorBook:ENCSR000DKN;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=true;ENCODE_biosample_term_name=H54;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=central nervous system;ENCODE_biosample_term_synonyms=H54;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:0002782;is_hg38_lifted=no system_category Nervous life_stage Adult track_name ENCODE H54 (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DKN] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • CD4+ alpha-beta T cell NGENCJH27PYC6C • ENCODE22955616 | 41168159 | 31713622 ChIA-PET CD4+ alpha-beta T cell Chromatin interactions Show metadata Download track Track metadata identifier NGENCJH27PYC6C data_source ENCODE Download track Download number_of_intervals 22,163 bp_covered 12,491,598 output_type peaks genome_build hg38 cell_type CD4+ alpha-beta T cell biosample_type Primary cell biosample_term_id CL:0000624 tissue_category Blood encode_experiment_id ENCSR962FFY biological_replicate 1 technical_replicate 1_1 antibody CTCF assay ChIA-PET file_format bed broadPeak file_size 337,828 downloaded_date 06/12/2022 release_date 07/16/2021 date_added_to_filer 11/07/2022 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF267JEX.bed.gz processed_file_md5 124c5cc65b8967969c57487d3b541a18 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF267JEX.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/ENCFF267JEX.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/ENCFF267JEX/@@download/ENCFF267JEX.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF267JEX.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 6b4a67ea90ef0d6a01f2051ed444972f data_category Chromatin interactions Genomic feature type ChIA-PET CTCF peaks track_description version=2024;Biosample_summary=Homo sapiens activated CD4-positive, alpha-beta T cell male adult (20 years) treated with 10 ng/mL Interleukin-2 for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days;Lab=Yijun Ruan, JAX;ENCODE_internal_tags=NR;Life_stage_age=adult 20 years;Reference=NR;External_resources=GEO:GSE187786;Project=ENCODE;Award=UM1HG009409;Experiment_date_released=2021-07-21;Submitted_track_name=LHT0035H.for.BROWSER.spp.z6.broadPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=activated CD4-positive, alpha-beta T cell;ENCODE_cell_slims=T cell,leukocyte,CD4+ T cell,hematopoietic cell;ENCODE_system_slims=immune system;ENCODE_biosample_term_synonyms=activated CD4-positive, alpha-beta T lymphocyte,activated CD4-positive, alpha-beta T-cell,activated CD4-positive, alpha-beta T-lymphocyte;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=NTR:0000663;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE CD4+ alpha-beta T cell (repl. 1) ChIA-PET CTCF peaks (broadPeak) [Experiment: ENCSR962FFY] [Life stage: Adult] [Chromatin interactions]
CTCF • LNCAP NGENCJH54NHMOQ • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq LNCAP TF Show metadata Download track Track metadata identifier NGENCJH54NHMOQ data_source ENCODE Download track Download number_of_intervals 44,590 bp_covered 19,382,099 output_type IDR thresholded peaks genome_build hg38 cell_type LNCAP biosample_type Cell line biosample_term_id EFO:0002071 tissue_category Male Reproductive encode_experiment_id ENCSR673WZL biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 789,325 downloaded_date 09/10/2024 release_date 01/14/2021 date_added_to_filer 10/01/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF797RTH.bed.gz processed_file_md5 bbae4781691f2cb5ddad0afdf8bd3fdf wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF797RTH.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/ENCFF797RTH.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/ENCFF797RTH/@@download/ENCFF797RTH.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF797RTH.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 3d7204698d23b5452cad6205a524fe3e data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens LNCAP 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=adult 50 years;Reference=NR;External_resources=GEO:GSE105648,SCREEN-GRCh38:LNCAP_treated_with_17beta-hydroxy-5alpha-androstan-3-one,FactorBook:ENCSR673WZL;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2017-06-29,2017-03-20;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=LNCAP;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=reproductive system;ENCODE_biosample_term_synonyms=LNCAP cell;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:0002071;is_hg38_lifted=no system_category Reproductive life_stage Adult track_name ENCODE LNCAP (repl. 1, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR673WZL] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Ishikawa NGENCJHOKC2AGK • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Ishikawa TF Show metadata Download track Track metadata identifier NGENCJHOKC2AGK data_source ENCODE Download track Download number_of_intervals 23,199 bp_covered 5,122,573 output_type conservative IDR thresholded peaks genome_build hg38 cell_type Ishikawa biosample_type Cell line biosample_term_id EFO:0005718 tissue_category Female Reproductive encode_experiment_id ENCSR000BQE biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 420,803 downloaded_date 07/10/2025 release_date 09/26/2020 date_added_to_filer 07/30/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF492QXD.bed.gz processed_file_md5 37af9f88d5623a54142abe6f448ec112 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/3/ENCFF492QXD.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/ENCFF492QXD.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/ENCFF492QXD/@@download/ENCFF492QXD.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF492QXD.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 44bc5f9a8bd2b44c604369efe4d378c5 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 Ishikawa treated with 0.02% dimethyl sulfoxide for 1 hour;Lab=Richard Myers, HAIB;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 39 years;Reference=PMID:22710073;External_resources=FactorBook:ENCSR000BQE,GEO:GSM1010774,SCREEN-GRCh38:Ishikawa_treated_with_dimethyl_sulfoxide,UCSC-ENCODE-hg19:wgEncodeEH002300;Project=ENCODE;Award=U54HG004576;Experiment_date_released=2012-02-29,2011-07-18;Submitted_track_name=rep1_vs_rep2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=Ishikawa;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=reproductive system;ENCODE_biosample_term_synonyms=Ishikawa 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:0005718;is_hg38_lifted=no system_category Reproductive life_stage Adult track_name ENCODE Ishikawa (repl. 1, 2) TF ChIP-seq CTCF conservative IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000BQE] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Neural crest cell NGENCJI6BXQUTR • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Neural crest cell TF Show metadata Download track Track metadata identifier NGENCJI6BXQUTR data_source ENCODE Download track Download number_of_intervals 57,769 bp_covered 24,296,338 output_type IDR thresholded peaks genome_build hg38 cell_type Neural crest cell biosample_type In vitro differentiated cells biosample_term_id CL:0011012 tissue_category Embryo encode_experiment_id ENCSR218MVT biological_replicate 2 technical_replicate 2_1, 2_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 995,468 downloaded_date 06/12/2022 release_date 07/09/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF336ESM.bed.gz processed_file_md5 68ab5000c58b2e78d8cd3f5dfb5ba7d8 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF336ESM.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/ENCFF336ESM.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/ENCFF336ESM/@@download/ENCFF336ESM.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF336ESM.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 2aae54dfc914bb297b19142531aa56b9 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens neural crest cell;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=embryonic 5 days;Reference=NR;External_resources=GEO:GSE175095;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-04-13,2020-07-06;Submitted_track_name=rep2-pr1_vs_rep2-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=neural crest cell;ENCODE_cell_slims=embryonic cell,stem cell;ENCODE_system_slims=NR;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.5.0 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=CL:0011012;is_hg38_lifted=no system_category Embryo life_stage Embryonic track_name ENCODE Neural crest cell (repl. 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR218MVT] [Life stage: Embryonic] [TF ChIP-seq peaks]
CTCF • Right ventricle NGENCJIOD3PE7X • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Right ventricle TF Show metadata Download track Track metadata identifier NGENCJIOD3PE7X data_source ENCODE Download track Download number_of_intervals 50,774 bp_covered 18,335,929 output_type IDR thresholded peaks genome_build hg38 cell_type Right ventricle biosample_type Tissue biosample_term_id UBERON:0002080 tissue_category Heart encode_experiment_id ENCSR105KGD biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 881,672 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/ENCFF435TKW.bed.gz processed_file_md5 eb3920933a87de9c0e837ab9ca10c7fc wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF435TKW.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/ENCFF435TKW.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/ENCFF435TKW/@@download/ENCFF435TKW.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF435TKW.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 669c4553a901a7cf23261221ae6c91ea data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens heart right ventricle tissue male adult (55 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=adult 55 years;Reference=NR;External_resources=GEO:GSE208847;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2022-06-09,2022-06-07;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=heart right ventricle;ENCODE_cell_slims=NR;ENCODE_system_slims=circulatory system;ENCODE_biosample_term_synonyms=right ventricle,right ventricle of heart,cardiac right ventricle;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:0002080;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE Right ventricle (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR105KGD] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • B cell NGENCJIWZW4QLI • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq B cell TF Show metadata Download track Track metadata identifier NGENCJIWZW4QLI data_source ENCODE Download track Download number_of_intervals 10,480 bp_covered 6,707,200 output_type IDR thresholded peaks genome_build hg38 cell_type B cell biosample_type Primary cell biosample_term_id CL:0000236 tissue_category Blood encode_experiment_id ENCSR105HEC biological_replicate 1 technical_replicate 1_1, 1_2, 1_3 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 205,019 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/ENCFF418DVI.bed.gz processed_file_md5 84be9b2c930bb044644ed6eab021239e wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF418DVI.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/ENCFF418DVI.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/ENCFF418DVI/@@download/ENCFF418DVI.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF418DVI.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 109e38894af0a7bf520b4baaea032a87 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens activated B cell male adult (22 years) treated with 0.5 _M CpG ODN for 24 hours;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=adult 22 years;Reference=NR;External_resources=GEO:GSE208844;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2022-06-09,2022-06-07;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=activated B cell;ENCODE_cell_slims=hematopoietic cell,leukocyte,B cell;ENCODE_system_slims=immune 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=NTR:0000506;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE B cell (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR105HEC] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Vagina NGENCJJVEAXO3X • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Vagina TF Show metadata Download track Track metadata identifier NGENCJJVEAXO3X data_source ENCODE Download track Download number_of_intervals 25,806 bp_covered 7,820,005 output_type IDR thresholded peaks genome_build hg38 cell_type Vagina biosample_type Tissue biosample_term_id UBERON:0000996 tissue_category Female Reproductive encode_experiment_id ENCSR606TNN biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 499,978 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/ENCFF057QBG.bed.gz processed_file_md5 6f2fa89362bf5740a3df7cd15e6e9c55 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF057QBG.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/ENCFF057QBG.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/ENCFF057QBG/@@download/ENCFF057QBG.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF057QBG.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 ca4fea4c7bc84ba21992431147381ad1 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens vagina tissue female adult (53 years);Lab=Michael Snyder, Stanford;ENCODE_internal_tags=ccre_inputv2,ENTEx,ENCYCLOPEDIAv2,RegulomeDB_2_1,RegulomeDB_2_2;Life_stage_age=adult 53 years;Reference=NR;External_resources=FactorBook:ENCSR606TNN,SCREEN-GRCh38:vagina_female_adult_53_years,GEO:GSE105477;Project=ENCODE;Award=U54HG006996;Experiment_date_released=2017-01-30;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=vagina;ENCODE_cell_slims=NR;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=UBERON:0000996;is_hg38_lifted=no system_category Reproductive life_stage Adult track_name ENCODE Vagina (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR606TNN] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • A549 NGENCJJVUCG43X • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq A549 TF Show metadata Download track Track metadata identifier NGENCJJVUCG43X data_source ENCODE Download track Download number_of_intervals 49,291 bp_covered 13,440,024 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 ENCSR000DPF biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 888,355 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/ENCFF034FVO.bed.gz processed_file_md5 a3e87f1dd54e6e0101df9126c709d9fa wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF034FVO.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/ENCFF034FVO.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/ENCFF034FVO/@@download/ENCFF034FVO.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF034FVO.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 dd7d88d8654f762945dd1701b1854757 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;Lab=John Stamatoyannopoulos, UW;ENCODE_internal_tags=RegulomeDB_1_0,RegulomeDB_2_0,RegulomeDB_2_1,ccre_inputv1,ENCYCLOPEDIAv2,ENCYCLOPEDIAv1,RegulomeDB_2_2;Life_stage_age=adult 58 years;Reference=PMID:32728046;External_resources=GEO:GSM1022640,UCSC-ENCODE-hg19:wgEncodeEH001890,FactorBook:ENCSR000DPF;Project=ENCODE;Award=U54HG004592;Experiment_date_released=2012-01-17,2011-11-17;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=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, 2) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR000DPF] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • HCT116 NGENCJKZQETZMQ • ENCODE22955616 | 41168159 | 31713622 ChIA-PET HCT116 Chromatin interactions Show metadata Download track Track metadata identifier NGENCJKZQETZMQ data_source ENCODE Download track Download number_of_intervals 529,972 bp_covered 465,238,728 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 ENCSR440JFJ biological_replicate 1 technical_replicate 1_1 antibody CTCF assay ChIA-PET file_format bed bed4+19 interact file_size 18,561,905 downloaded_date 09/20/2025 release_date 02/07/2022 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_ENCFF760CVH.bed.gz processed_file_md5 e38a7cd096df35a92542eaf6e21119bd wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF760CVH.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_ENCFF760CVH.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/ENCFF760CVH/@@download/ENCFF760CVH.bedpe.gz raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ENCFF760CVH.bedpe.gz -P FILER2/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ raw_file_md5 94b5e66106ca5ad20b06fd20cfb0c8ce 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 MED14;Lab=Charles Lee;ENCODE_internal_tags=Degron;Life_stage_age=adult 48 years;Reference=NR;External_resources=GEO:GSE242627;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2022-02-15;Submitted_track_name=LHH0206.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: ENCSR440JFJ] [Life stage: Adult] [Chromatin interactions]
CTCF • Prostate gland NGENCJLNOTYVDM • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Prostate gland TF Show metadata Download track Track metadata identifier NGENCJLNOTYVDM data_source ENCODE Download track Download number_of_intervals 10,785 bp_covered 5,172,507 output_type IDR thresholded peaks genome_build hg38 cell_type Prostate gland biosample_type Tissue biosample_term_id UBERON:0002367 tissue_category Male Reproductive encode_experiment_id ENCSR230ORT biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 180,286 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/ENCFF552XML.bed.gz processed_file_md5 19ea2281e9410ad2e0c9e3aa2667c773 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF552XML.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/ENCFF552XML.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/ENCFF552XML/@@download/ENCFF552XML.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF552XML.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 a0f5365ba671db24faf5298567ce39b4 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens prostate gland tissue male adult (54 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,ENTEx,RegulomeDB_2_1;Life_stage_age=adult 54 years;Reference=NR;External_resources=GEO:GSE142934,FactorBook:ENCSR230ORT;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2019-09-11,2017-08-28;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=prostate gland;ENCODE_cell_slims=NR;ENCODE_system_slims=reproductive system;ENCODE_biosample_term_synonyms=male prostate,prostate;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:0002367;is_hg38_lifted=no system_category Reproductive life_stage Adult track_name ENCODE Prostate gland (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR230ORT] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Endodermal cell NGENCJLOZXSSQH • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Endodermal cell TF Show metadata Download track Track metadata identifier NGENCJLOZXSSQH data_source ENCODE Download track Download number_of_intervals 115,294 bp_covered 45,447,387 output_type conservative IDR thresholded peaks genome_build hg38 cell_type Endodermal cell biosample_type In vitro differentiated cells biosample_term_id CL:0000223 tissue_category Embryo encode_experiment_id ENCSR398RET biological_replicate 1, 2 technical_replicate 1_1, 1_2, 2_1, 2_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 2,056,844 downloaded_date 06/12/2022 release_date 07/09/2020 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF471YCZ.bed.gz processed_file_md5 c30dcf2b8024da6cc715c6edf66b68b1 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF471YCZ.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/ENCFF471YCZ.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/ENCFF471YCZ/@@download/ENCFF471YCZ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF471YCZ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 3bafe07078bab4a07c9fc304b6332a47 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 endodermal cell;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=embryonic 5 days;Reference=NR;External_resources=GEO:GSE175231;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-04-13,2020-07-06;Submitted_track_name=rep1_vs_rep2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=endodermal cell;ENCODE_cell_slims=embryonic cell;ENCODE_system_slims=NR;ENCODE_biosample_term_synonyms=endoderm cell;Analysis_title=ENCODE4 v1.5.0 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=CL:0000223;is_hg38_lifted=no system_category Embryo life_stage Embryonic track_name ENCODE Endodermal cell (repl. 1, 2) TF ChIP-seq CTCF conservative IDR thresholded peaks (narrowPeak) [Experiment: ENCSR398RET] [Life stage: Embryonic] [TF ChIP-seq peaks]
CTCF • CD8+ alpha-beta memory cell NGENCJM4K5U75C • ENCODE22955616 | 41168159 | 31713622 ChIA-PET CD8+ alpha-beta memory cell Chromatin interactions Show metadata Download track Track metadata identifier NGENCJM4K5U75C data_source ENCODE Download track Download number_of_intervals 31,503 bp_covered 26,014,302 output_type peaks genome_build hg38 cell_type CD8+ alpha-beta memory cell biosample_type Primary cell biosample_term_id CL:0000909 tissue_category Blood encode_experiment_id ENCSR697ZHG biological_replicate 1 technical_replicate 1_1 antibody CTCF assay ChIA-PET file_format bed broadPeak file_size 494,912 downloaded_date 06/12/2022 release_date 07/27/2021 date_added_to_filer 11/07/2022 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF941RQT.bed.gz processed_file_md5 7a1186200b9ee9ae29de0eb69299b1e4 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/ChIA-PET/broadPeak/hg38/ENCFF941RQT.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/ENCFF941RQT.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/ENCFF941RQT/@@download/ENCFF941RQT.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF941RQT.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 2bb3cf5530e712002e4e4cab7b1b36fc data_category Chromatin interactions Genomic feature type ChIA-PET CTCF peaks track_description version=2024;Biosample_summary=Homo sapiens activated CD8-positive, alpha-beta memory T cell male adult (30 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 30 years;Reference=NR;External_resources=GEO:GSE187691;Project=ENCODE;Award=UM1HG009409;Experiment_date_released=2021-10-06;Submitted_track_name=LHT0084V.for.BROWSER.spp.z6.broadPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=activated CD8-positive, alpha-beta memory T cell;ENCODE_cell_slims=T cell,CD8+ T cell,leukocyte,hematopoietic cell;ENCODE_system_slims=immune 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=NTR:0000504;is_hg38_lifted=no system_category Cardiovascular life_stage Adult track_name ENCODE CD8+ alpha-beta memory cell (repl. 1) ChIA-PET CTCF peaks (broadPeak) [Experiment: ENCSR697ZHG] [Life stage: Adult] [Chromatin interactions]
CTCF • HCT116 NGENCJODRDBVS2 • ENCODE22955616 | 41168159 | 31713622 ChIA-PET HCT116 Chromatin interactions Show metadata Download track Track metadata identifier NGENCJODRDBVS2 data_source ENCODE Download track Download number_of_intervals 1,028,748 bp_covered 1,073,433,952 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 ENCSR394XYY biological_replicate 2 technical_replicate 2_1 antibody CTCF assay ChIA-PET file_format bed bed4+19 interact file_size 37,270,437 downloaded_date 09/20/2025 release_date 02/02/2022 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_ENCFF058LYU.bed.gz processed_file_md5 35d2a345eb6ab464abf0294a9af9e736 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/loops/ChIA-PET/bed4plus19_interact/hg38/formatted_output_ENCFF058LYU.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_ENCFF058LYU.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/ENCFF058LYU/@@download/ENCFF058LYU.bedpe.gz raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ENCFF058LYU.bedpe.gz -P FILER2/Annotationtracks/Downloads/ENCODE/chromatin_interaction/ raw_file_md5 c1726f52190c60bde022c0327e855d70 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 BRD4;Lab=Charles Lee;ENCODE_internal_tags=Degron;Life_stage_age=adult 48 years;Reference=NR;External_resources=GEO:GSE242614;Project=ENCODE;Award=3UM1HG009409-04S1;Experiment_date_released=2022-02-03;Submitted_track_name=LHH0201.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. 2) ChIA-PET CTCF chromatin interactions (bed4+19 interact) [Experiment: ENCSR394XYY] [Life stage: Adult] [Chromatin interactions]
CTCF • Middle frontal area BA46 NGENCJPOE5KAIF • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Middle frontal area BA46 TF Show metadata Download track Track metadata identifier NGENCJPOE5KAIF data_source ENCODE Download track Download number_of_intervals 61,562 bp_covered 26,805,226 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 ENCSR443NWG biological_replicate 1 technical_replicate 1_1, 1_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 1,056,378 downloaded_date 06/12/2022 release_date 09/16/2021 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF277CZQ.bed.gz processed_file_md5 adba5b37a1fa08d4f00c74ae48678294 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF277CZQ.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/ENCFF277CZQ.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/ENCFF277CZQ/@@download/ENCFF277CZQ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF277CZQ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 689901926a5b838225a098efe681ba65 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 (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:GSE187758;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=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: ENCSR443NWG] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Gastrocnemius medialis NGENCJPRTAQYTT • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Gastrocnemius medialis TF Show metadata Download track Track metadata identifier NGENCJPRTAQYTT data_source ENCODE Download track Download number_of_intervals 35,145 bp_covered 13,686,174 output_type IDR thresholded peaks genome_build hg38 cell_type Gastrocnemius medialis biosample_type Tissue biosample_term_id UBERON:0011907 tissue_category Skeletal Muscle encode_experiment_id ENCSR355ALW biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 614,820 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/ENCFF556QRC.bed.gz processed_file_md5 72b63acf4080a3a5008733097ee29011 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/2/ENCFF556QRC.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/ENCFF556QRC.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/ENCFF556QRC/@@download/ENCFF556QRC.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF556QRC.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 d6ad34bd0b15d4aab581e85b79182e19 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens gastrocnemius medialis 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=FactorBook:ENCSR355ALW,GEO:GSE170549;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2019-09-12,2019-09-06;Submitted_track_name=rep1-pr1_vs_rep1-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=gastrocnemius medialis;ENCODE_cell_slims=NR;ENCODE_system_slims=musculature;ENCODE_biosample_term_synonyms=caput mediale musculus gastrocnemii,caput mediale (musculus gastrocnemius),medial head of gastrocnemius,medial head of gastrocnemius muscle;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:0011907;is_hg38_lifted=no system_category Muscular life_stage Adult track_name ENCODE Gastrocnemius medialis (repl. 1) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR355ALW] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • Spleen NGENCJPZNOSZMS • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq Spleen TF Show metadata Download track Track metadata identifier NGENCJPZNOSZMS data_source ENCODE Download track Download number_of_intervals 27,143 bp_covered 5,208,016 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 ENCSR000DNI biological_replicate 1 technical_replicate 1_1 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 459,005 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/ENCFF276ZXC.bed.gz processed_file_md5 e34c2030b99c41a6df81c6e19996ee48 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF276ZXC.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/ENCFF276ZXC.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/ENCFF276ZXC/@@download/ENCFF276ZXC.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF276ZXC.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 fc9f3b56091dab9f0b1133c90ae09ed6 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 (20 years) and female adult (30 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=NR;External_resources=FactorBook:ENCSR000DNI,GEO:GSM1006883,SCREEN-GRCh38:spleen_female_adult_20_years_and_female_adult_30_years,UCSC-ENCODE-hg19:wgEncodeEH003464;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=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: ENCSR000DNI] [Life stage: Adult] [TF ChIP-seq peaks]
CTCF • H9 NGENCJQ6TZIPAA • ENCODE22955616 | 41168159 | 31713622 TF ChIP-seq H9 TF Show metadata Download track Track metadata identifier NGENCJQ6TZIPAA data_source ENCODE Download track Download number_of_intervals 82,349 bp_covered 32,111,425 output_type IDR thresholded peaks genome_build hg38 cell_type H9 biosample_type Stem cell biosample_term_id EFO:0003045 tissue_category Embryo encode_experiment_id ENCSR871MKQ biological_replicate 1, 2, 3 technical_replicate 1_1, 1_2, 2_1, 2_2, 3_1, 3_2 antibody CTCF assay TF ChIP-seq file_format bed narrowPeak file_size 1,440,707 downloaded_date 06/12/2022 release_date 06/23/2021 date_added_to_filer 08/21/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF451WLG.bed.gz processed_file_md5 9bf466fe2be42a28a29c13bcc41fa5ec wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/TF-ChIP-seq/narrowpeak/hg38/1/ENCFF451WLG.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/ENCFF451WLG.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/ENCFF451WLG/@@download/ENCFF451WLG.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF451WLG.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 6b14f05575d1e2066bbdca2757fa7130 data_category TF ChIP-seq peaks Genomic feature type TF ChIP-seq CTCF IDR thresholded peaks track_description version=2024;Biosample_summary=Homo sapiens H9;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,RegulomeDB_2_1;Life_stage_age=embryonic 5 days;Reference=NR;External_resources=GEO:GSE175278;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-04-13,2020-07-06;Submitted_track_name=pooled-pr1_vs_pooled-pr2.idr0.05.bfilt.regionPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=H9;ENCODE_cell_slims=embryonic cell,stem cell;ENCODE_system_slims=NR;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=EFO:0003045;is_hg38_lifted=no system_category Embryo life_stage Embryonic track_name ENCODE H9 (repl. 1, 2, 3) TF ChIP-seq CTCF IDR thresholded peaks (narrowPeak) [Experiment: ENCSR871MKQ] [Life stage: Embryonic] [TF ChIP-seq peaks]