H3K4me1 • Smooth muscle tissue NGENC7VIBW2PM3 • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Smooth muscle tissue Histone Show metadata Download track Track metadata identifier NGENC7VIBW2PM3 data_source ENCODE Download track Download number_of_intervals 82,945 bp_covered 45,392,946 output_type pseudoreplicated peaks genome_build hg38 cell_type Smooth muscle tissue biosample_type Tissue biosample_term_id UBERON:0001135 tissue_category Digestive encode_experiment_id ENCSR475HRT biological_replicate 2 technical_replicate 2_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 1,829,023 downloaded_date 06/12/2022 release_date 01/30/2021 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF197VEM.bed.gz processed_file_md5 98eb2cac3c98d44cc27906778c87abf6 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF197VEM.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF197VEM.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF197VEM/@@download/ENCFF197VEM.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF197VEM.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 21a58d239e0b57c3b3af179138dc7326 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens rectal smooth muscle tissue tissue female adult (50 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=ENCYCLOPEDIAv1,RegulomeDB_2_2,ENCYCLOPEDIAv2;Life_stage_age=adult 50 years;Reference=PMID:32728046;External_resources=GEO:GSM669964;Project=Roadmap;Award=U01ES017155;Experiment_date_released=2013-07-31;Submitted_track_name=NR;ENCODE_preferred_default=true;ENCODE_biosample_term_name=rectal smooth muscle tissue;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system,musculature;ENCODE_biosample_term_synonyms=rectum smooth muscle,smooth muscle of rectum,rectal smooth muscle tissue;Analysis_title=ENCODE4 v1.7.0 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0018112;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Digestive life_stage Adult track_name ENCODE Smooth muscle tissue (repl. 2) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR475HRT] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • Transverse colon NGENC7VTFAWUP5 • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Transverse colon Histone Show metadata Download track Track metadata identifier NGENC7VTFAWUP5 data_source ENCODE Download track Download number_of_intervals 48,116 bp_covered 56,669,360 output_type replicated peaks genome_build hg38 cell_type Transverse colon biosample_type Tissue biosample_term_id UBERON:0001157 tissue_category Digestive encode_experiment_id ENCSR482OKN biological_replicate 1, 2 technical_replicate 1_1, 2_1, 2_2 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 1,295,737 downloaded_date 06/12/2022 release_date 09/22/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF801AWT.bed.gz processed_file_md5 11b73688b1fd9d0a6c04223983faad77 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF801AWT.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF801AWT.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF801AWT/@@download/ENCFF801AWT.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF801AWT.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 1dc58e204ee2fdfa6c3535408e62182d data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 replicated peaks track_description version=2024;Biosample_summary=Homo sapiens transverse colon tissue male adult (54 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,ENTEx;Life_stage_age=adult 54 years;Reference=NR;External_resources=GEO:GSE167826;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2020-01-23,2017-08-28;Submitted_track_name=rep1_vs_rep2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=transverse colon;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=colon transversum;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0001157;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Digestive life_stage Adult track_name ENCODE Transverse colon (repl. 1, 2) Histone ChIP-seq H3K4me1 replicated peaks (narrowPeak) [Experiment: ENCSR482OKN] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • BLaER1 NGENC7WEGJ37ZH • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq BLaER1 Histone Show metadata Download track Track metadata identifier NGENC7WEGJ37ZH data_source ENCODE Download track Download number_of_intervals 155,116 bp_covered 289,298,053 output_type replicated peaks genome_build hg38 cell_type BLaER1 biosample_type Cell line biosample_term_id EFO:0030018 tissue_category Blood encode_experiment_id ENCSR716KBL biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 4,329,829 downloaded_date 05/15/2024 release_date 02/27/2023 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF313YXV.bed.gz processed_file_md5 0636c31b189898625b4e85f505d122cc wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF313YXV.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF313YXV.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF313YXV/@@download/ENCFF313YXV.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF313YXV.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 3924d7adfa12a0c0e2427b6ca6fc3057 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 replicated peaks track_description version=2024;Biosample_summary=Homo sapiens BLaER1 72 hours after the sample was treated with 100 nM 17_-estradiol, 10 ng/mL Interleukin-3, 10 ng/mL CSF1;Lab=Roderic Guigo, CRG;ENCODE_internal_tags=RegulomeDB_2_2;Life_stage_age=NR;Reference=NR;External_resources=GEO:GSE258091;Project=community;Award=ERC-2011-AdG-294653-RNA-MAPS;Experiment_date_released=2022-05-10;Submitted_track_name=rep1_vs_rep2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=BLaER1;ENCODE_cell_slims=NR;ENCODE_system_slims=immune system,skeletal system;ENCODE_biosample_term_synonyms=B cell Leukemia C/EBPalphaER clone 1;Analysis_title=ENCODE4 v1.8.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0030018;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Cardiovascular life_stage Unknown track_name ENCODE BLaER1 (repl. 1, 2) Histone ChIP-seq H3K4me1 replicated peaks (narrowPeak) [Experiment: ENCSR716KBL] [Histone ChIP-seq peaks]
H3K4me1 • RWPE2 NGENC7XA2YGLUE • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq RWPE2 Histone Show metadata Download track Track metadata identifier NGENC7XA2YGLUE data_source ENCODE Download track Download number_of_intervals 92,558 bp_covered 102,705,780 output_type pseudoreplicated peaks genome_build hg38 cell_type RWPE2 biosample_type Cell line biosample_term_id EFO:0007610 tissue_category Male Reproductive encode_experiment_id ENCSR161GUA biological_replicate 1 technical_replicate 1_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 2,623,836 downloaded_date 06/12/2022 release_date 08/25/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF658SMF.bed.gz processed_file_md5 2373226c76ea66f12b0d1ac1fe1f067b wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF658SMF.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF658SMF.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF658SMF/@@download/ENCFF658SMF.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF658SMF.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 bf0e55eb1ad2a7f509b0820d67c9284a data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens RWPE2;Lab=Michael Snyder, Stanford;ENCODE_internal_tags=RegulomeDB_2_2;Life_stage_age=NR;Reference=NR;External_resources=GEO:GSE175026;Project=ENCODE;Award=UM1HG009442;Experiment_date_released=2021-04-06,2020-08-28;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=RWPE2;ENCODE_cell_slims=epithelial cell;ENCODE_system_slims=reproductive system;ENCODE_biosample_term_synonyms=CRL-11610,RWPE_2,RWPE 2;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0007610;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Reproductive life_stage Unknown track_name ENCODE RWPE2 (repl. 1) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR161GUA] [Histone ChIP-seq peaks]
H3K4me1 • T-helper 2 cell NGENC7XRTT3F7L • ENCODE22955616 | 41168159 | 31713622 Mint-ChIP-seq T-helper 2 cell Histone Show metadata Download track Track metadata identifier NGENC7XRTT3F7L data_source ENCODE Download track Download number_of_intervals 291,474 bp_covered 158,280,148 output_type pseudoreplicated peaks genome_build hg38 cell_type T-helper 2 cell biosample_type Primary cell biosample_term_id CL:0000546 tissue_category Immune encode_experiment_id ENCSR545YER biological_replicate 1 technical_replicate 1_1, 1_2 antibody H3K4me1 assay Mint-ChIP-seq file_format bed narrowPeak file_size 7,831,035 downloaded_date 06/12/2022 release_date 06/18/2021 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF917DIG.bed.gz processed_file_md5 e623f13b26e25487d7eab95abf202c57 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF917DIG.bed.gz -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF917DIG.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF917DIG/@@download/ENCFF917DIG.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF917DIG.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 49259667e55e5cb961f63ae7e4411a60 data_category Histone ChIP-seq peaks Genomic feature type Mint-ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens activated T-helper 2 cell male adult (35 years) treated with 5 _g/mL Interferon-gamma antibody for 36 hours, anti-CD3 and anti-CD28 coated beads for 24 hours, 10 ng/mL Interleukin-2 for 14 days, anti-CD3 and anti-CD28 coated beads for 14 days, 100 ng/mL Interleukin-4 for 36 hours;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=NR;Life_stage_age=adult 35 years;Reference=NR;External_resources=GEO:GSE187648;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-06-24;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=activated T-helper 2 cell;ENCODE_cell_slims=T cell,leukocyte,CD4+ T cell,hematopoietic 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://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=NTR:0000634;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Lymphatic life_stage Adult track_name ENCODE T-helper 2 cell (repl. 1) Mint-ChIP-seq H3K4me1-histone-mark pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR545YER] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • Mesendoderm NGENC7YOTKOKEW • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Mesendoderm Histone Show metadata Download track Track metadata identifier NGENC7YOTKOKEW data_source ENCODE Download track Download number_of_intervals 53,788 bp_covered 18,876,471 output_type pseudoreplicated peaks genome_build hg38 cell_type Mesendoderm biosample_type In vitro differentiated cells biosample_term_id BTO:0003953 tissue_category Embryo encode_experiment_id ENCSR664KWY biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 1,127,816 downloaded_date 06/12/2022 release_date 11/13/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF107KLK.bed.gz processed_file_md5 8b6b27e4218a3b199f0b8a0b021d7c8b wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF107KLK.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF107KLK.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF107KLK/@@download/ENCFF107KLK.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF107KLK.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 6c2db36fca65743721ae5cf40b2c0f43 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens mesendoderm originated from H1;Lab=Bing Ren, UCSD;ENCODE_internal_tags=ENCYCLOPEDIAv1,RegulomeDB_2_2,ENCYCLOPEDIAv2;Life_stage_age=NR;Reference=PMID:32728046;External_resources=GEO:GSM752978,GEO:GSM752977;Project=Roadmap;Award=U01ES017166;Experiment_date_released=2013-07-31;Submitted_track_name=pooled-pr1_vs_pooled-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=mesendoderm;ENCODE_cell_slims=NR;ENCODE_system_slims=NR;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.6.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=NTR:0000856;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Embryo life_stage Embryonic track_name ENCODE Mesendoderm (repl. 1, 2) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR664KWY] [Life stage: Embryonic] [Histone ChIP-seq peaks]
H3K4me1 • Thymus NGENC7Z2QXQVYD • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Thymus Histone Show metadata Download track Track metadata identifier NGENC7Z2QXQVYD data_source ENCODE Download track Download number_of_intervals 123,273 bp_covered 98,820,531 output_type pseudoreplicated peaks genome_build hg38 cell_type Thymus biosample_type Tissue biosample_term_id UBERON:0002370 tissue_category Immune Organ encode_experiment_id ENCSR479YCJ biological_replicate 1 technical_replicate 1_2 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 2,974,816 downloaded_date 06/12/2022 release_date 08/14/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF968RPB.bed.gz processed_file_md5 2db5525b8815eeaef858b337c89732a6 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF968RPB.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF968RPB.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF968RPB/@@download/ENCFF968RPB.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF968RPB.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 d0ed3a4e7817d066bba654e5b671f8d3 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens thymus tissue female embryo (110 days);Lab=John Stamatoyannopoulos, UW;ENCODE_internal_tags=ENCYCLOPEDIAv1,RegulomeDB_2_2,ENCYCLOPEDIAv2;Life_stage_age=embryonic 110 days;Reference=PMID:32728046;External_resources=GEO:GSM1027298;Project=Roadmap;Award=U01ES017156;Experiment_date_released=2013-07-31;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=thymus;ENCODE_cell_slims=NR;ENCODE_system_slims=endocrine system,immune system;ENCODE_biosample_term_synonyms=thymus gland,thymus organ;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0002370;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Lymphatic life_stage Embryonic track_name ENCODE Thymus (repl. 1) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR479YCJ] [Life stage: Embryonic] [Histone ChIP-seq peaks]
H3K4me1 • CD4+ alpha-beta T cell NGENC7ZIVHH4DS • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq CD4+ alpha-beta T cell Histone Show metadata Download track Track metadata identifier NGENC7ZIVHH4DS data_source ENCODE Download track Download number_of_intervals 121,658 bp_covered 110,926,971 output_type pseudoreplicated 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 ENCSR466XPN biological_replicate 1 technical_replicate 1_2 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 3,041,748 downloaded_date 06/12/2022 release_date 11/12/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF010ILZ.bed.gz processed_file_md5 94899b7d5b4cd5ddcef4d21857d40b29 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF010ILZ.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF010ILZ.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF010ILZ/@@download/ENCFF010ILZ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF010ILZ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 9d243237bb8c1b1508fb559f23831d9e data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens CD4-positive, alpha-beta T cell male adult (37 years);Lab=John Stamatoyannopoulos, UW;ENCODE_internal_tags=RegulomeDB_2_2,ENCYCLOPEDIAv2;Life_stage_age=adult 37 years;Reference=PMID:32728046;External_resources=GEO:GSM1220567;Project=Roadmap;Award=U01ES017156;Experiment_date_released=2013-07-31;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=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=CD4-positive, alpha-beta T-cell,CD4-positive, alpha-beta T lymphocyte,CD4-positive, alpha-beta T-lymphocyte;Analysis_title=ENCODE4 v1.6.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=CL:0000624;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Cardiovascular life_stage Adult track_name ENCODE CD4+ alpha-beta T cell (repl. 1) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR466XPN] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • Keratinocyte NGENCA43LDM5JG • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Keratinocyte Histone Show metadata Download track Track metadata identifier NGENCA43LDM5JG data_source ENCODE Download track Download number_of_intervals 81,451 bp_covered 51,620,144 output_type pseudoreplicated peaks genome_build hg38 cell_type Keratinocyte biosample_type Primary cell biosample_term_id CL:0000312 tissue_category Skin encode_experiment_id ENCSR243ZGI biological_replicate 2 technical_replicate 2_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 2,187,230 downloaded_date 07/10/2025 release_date 12/04/2020 date_added_to_filer 07/30/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF501AIZ.bed.gz processed_file_md5 d5faaedcc9acc601fe9e741170026e11 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF501AIZ.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF501AIZ.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF501AIZ/@@download/ENCFF501AIZ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF501AIZ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 3e48349fe9526dc00682b8ddc2236f55 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens foreskin keratinocyte male newborn (2-4 days) treated with 1.2 mM calcium for 5.5 days;Lab=Michael Snyder, Stanford;ENCODE_internal_tags=NR;Life_stage_age=newborn 2-4 days;Reference=NR;External_resources=GEO:GSE175125;Project=GGR;Award=U01HG007919;Experiment_date_released=2017-10-10;Submitted_track_name=rep2-pr1_vs_rep2-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=foreskin keratinocyte;ENCODE_cell_slims=keratinocyte,epithelial cell;ENCODE_system_slims=reproductive system,integumental system;ENCODE_biosample_term_synonyms=NR;Analysis_title=ENCODE4 v1.6.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=CL:1001606;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Integumentary life_stage Newborn track_name ENCODE Keratinocyte (repl. 2) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR243ZGI] [Life stage: Newborn] [Histone ChIP-seq peaks]
H3K4me1 • Transverse colon NGENCA4YE3TFUQ • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Transverse colon Histone Show metadata Download track Track metadata identifier NGENCA4YE3TFUQ data_source ENCODE Download track Download number_of_intervals 102,586 bp_covered 94,971,287 output_type pseudoreplicated peaks genome_build hg38 cell_type Transverse colon biosample_type Tissue biosample_term_id UBERON:0001157 tissue_category Digestive encode_experiment_id ENCSR482OKN biological_replicate 2 technical_replicate 2_1, 2_2 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 2,612,404 downloaded_date 06/12/2022 release_date 09/22/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF330OHF.bed.gz processed_file_md5 4c869f740fab960534570013be3f9ce0 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF330OHF.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF330OHF.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF330OHF/@@download/ENCFF330OHF.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF330OHF.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 2b1efc098c898bb961893b19851e0321 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens transverse colon tissue male adult (54 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,ENTEx;Life_stage_age=adult 54 years;Reference=NR;External_resources=GEO:GSE167826;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2020-01-23,2017-08-28;Submitted_track_name=rep2-pr1_vs_rep2-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=transverse colon;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=colon transversum;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0001157;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Digestive life_stage Adult track_name ENCODE Transverse colon (repl. 2) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR482OKN] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • CD8+ alpha-beta naive T cell NGENCA5JF2C7OO • ENCODE22955616 | 41168159 | 31713622 Mint-ChIP-seq CD8+ alpha-beta naive T cell Histone Show metadata Download track Track metadata identifier NGENCA5JF2C7OO data_source ENCODE Download track Download number_of_intervals 294,645 bp_covered 165,859,569 output_type pseudoreplicated peaks genome_build hg38 cell_type CD8+ alpha-beta naive T cell biosample_type Primary cell biosample_term_id CL:0000900 tissue_category Blood encode_experiment_id ENCSR260TLP biological_replicate 1 technical_replicate 1_1, 1_2 antibody H3K4me1 assay Mint-ChIP-seq file_format bed narrowPeak file_size 7,752,778 downloaded_date 06/12/2022 release_date 06/18/2021 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF251MUL.bed.gz processed_file_md5 142fd9129f0facbcf75f9ee5ef89fd9a wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF251MUL.bed.gz -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF251MUL.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF251MUL/@@download/ENCFF251MUL.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF251MUL.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 82f9b6b04e702beb148aeb78f602318b data_category Histone ChIP-seq peaks Genomic feature type Mint-ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens activated naive CD8-positive, alpha-beta T cell male adult (30 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=NR;Life_stage_age=adult 30 years;Reference=NR;External_resources=GEO:GSE187215;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-06-24;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=activated naive CD8-positive, alpha-beta 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=ENCODE4 v1.8.0 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=NTR:0000502;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Cardiovascular life_stage Adult track_name ENCODE CD8+ alpha-beta naive T cell (repl. 1) Mint-ChIP-seq H3K4me1-histone-mark pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR260TLP] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • A549 NGENCA6W3YAA5H • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq A549 Histone Show metadata Download track Track metadata identifier NGENCA6W3YAA5H data_source ENCODE Download track Download number_of_intervals 84,167 bp_covered 98,724,855 output_type replicated peaks genome_build hg38 cell_type A549 biosample_type Cell line biosample_term_id EFO:0001086 tissue_category Lung encode_experiment_id ENCSR171ZJG biological_replicate 1, 2 technical_replicate 1_1, 2_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 2,293,116 downloaded_date 07/10/2025 release_date 11/13/2020 date_added_to_filer 07/30/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF889LXU.bed.gz processed_file_md5 fa505f8cf415a7a34fd99db1a42adc1d wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF889LXU.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF889LXU.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF889LXU/@@download/ENCFF889LXU.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF889LXU.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 0ca1277d6343330c93f0b03f0c755c66 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 replicated peaks track_description version=2024;Biosample_summary=Homo sapiens A549 treated with 100 nM dexamethasone (agonist) for 3 hours;Lab=Tim Reddy, Duke;ENCODE_internal_tags=NR;Life_stage_age=adult 58 years;Reference=NR;External_resources=GEO:GSE91213;Project=GGR;Award=U01HG007900;Experiment_date_released=2016-07-21;Submitted_track_name=rep1_vs_rep2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=A549;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=respiratory system;ENCODE_biosample_term_synonyms=A549 cell,A-549;Analysis_title=ENCODE4 v1.6.1 GRCh38;GM=NR;Bio_rep=1, 2, 3;Tech_rep=1_1, 2_1, 3_1;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0001086;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Respiratory life_stage Adult track_name ENCODE A549 (repl. 1, 2) Histone ChIP-seq H3K4me1 replicated peaks (narrowPeak) [Experiment: ENCSR171ZJG] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • Fibroblast NGENCAAVG2WNMV • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Fibroblast Histone Show metadata Download track Track metadata identifier NGENCAAVG2WNMV data_source ENCODE Download track Download number_of_intervals 169,625 bp_covered 122,379,510 output_type pseudoreplicated peaks genome_build hg38 cell_type Fibroblast biosample_type Primary cell biosample_term_id CL:0000057 tissue_category Skin encode_experiment_id ENCSR000ARV biological_replicate 2 technical_replicate 2_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 4,324,506 downloaded_date 06/12/2022 release_date 10/29/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF874JKE.bed.gz processed_file_md5 5f8f076e6d51868bd9f680e943a07468 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF874JKE.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF874JKE.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF874JKE/@@download/ENCFF874JKE.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF874JKE.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 4cdc1ef6ff432ad358ba2fa535547518 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens fibroblast of dermis;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=ENCYCLOPEDIAv1,RegulomeDB_2_2,ENCYCLOPEDIAv2;Life_stage_age=NR;Reference=PMID:32728046;External_resources=GEO:GSM1003526,UCSC-ENCODE-hg19:wgEncodeEH002429;Project=ENCODE;Award=U54HG004570;Experiment_date_released=2012-03-06,2011-02-10;Submitted_track_name=rep2-pr1_vs_rep2-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=fibroblast of dermis;ENCODE_cell_slims=fibroblast,connective tissue cell;ENCODE_system_slims=integumental 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://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=CL:0002551;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Integumentary life_stage Unknown track_name ENCODE Fibroblast (repl. 2) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR000ARV] [Histone ChIP-seq peaks]
H3K4me1 • Neural progenitor cell NGENCAAW434AEU • ENCODE22955616 | 41168159 | 31713622 Mint-ChIP-seq Neural progenitor cell Histone Show metadata Download track Track metadata identifier NGENCAAW434AEU data_source ENCODE Download track Download number_of_intervals 272,421 bp_covered 139,024,161 output_type pseudoreplicated peaks genome_build hg38 cell_type Neural progenitor cell biosample_type In vitro differentiated cells biosample_term_id CL:0011020 tissue_category Brain encode_experiment_id ENCSR536DCS biological_replicate 1 technical_replicate 1_1, 1_2 antibody H3K4me1 assay Mint-ChIP-seq file_format bed narrowPeak file_size 7,431,654 downloaded_date 06/12/2022 release_date 05/12/2021 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF996AWZ.bed.gz processed_file_md5 a26550ff51f8480296af162bf7ae2421 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF996AWZ.bed.gz -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF996AWZ.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF996AWZ/@@download/ENCFF996AWZ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF996AWZ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 32f4749d37a683e74a886d7be1383e1a data_category Histone ChIP-seq peaks Genomic feature type Mint-ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens neural progenitor cell;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=NR;Life_stage_age=embryonic 5 days;Reference=NR;External_resources=GEO:GSE177263;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-05-24,2020-07-06;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=neural progenitor cell;ENCODE_cell_slims=progenitor cell;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://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=CL:0011020;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Nervous life_stage Embryonic track_name ENCODE Neural progenitor cell (repl. 1) Mint-ChIP-seq H3K4me1-histone-mark pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR536DCS] [Life stage: Embryonic] [Histone ChIP-seq peaks]
H3K4me1 • Brain NGENCABVZLPDSD • ENCODE22955616 | 41168159 | 31713622 Mint-ChIP-seq Brain Histone Show metadata Download track Track metadata identifier NGENCABVZLPDSD data_source ENCODE Download track Download number_of_intervals 195,586 bp_covered 264,722,683 output_type pseudoreplicated peaks genome_build hg38 cell_type Brain biosample_type Organoid biosample_term_id UBERON:0000955 tissue_category Brain encode_experiment_id ENCSR534KYA biological_replicate 1 technical_replicate 1_1, 1_2 antibody H3K4me1 assay Mint-ChIP-seq file_format bed narrowPeak file_size 5,814,071 downloaded_date 06/12/2022 release_date 05/12/2021 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF376UGZ.bed.gz processed_file_md5 f2e9ce7fad6309a0a232d18d3cc91a28 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF376UGZ.bed.gz -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ENCFF376UGZ.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Mint-ChIP-seq/narrowpeak/hg38/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF376UGZ/@@download/ENCFF376UGZ.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF376UGZ.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 27ebdaa44721b20fac4335bed25cbdb7 data_category Histone ChIP-seq peaks Genomic feature type Mint-ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens brain organoid, 90 days post differentiation;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=NR;Life_stage_age=embryonic 5 days;Reference=NR;External_resources=GEO:GSE177238;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2021-05-24,2020-07-06;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=brain;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://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0000955;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Nervous life_stage Embryonic track_name ENCODE Brain (repl. 1) Mint-ChIP-seq H3K4me1-histone-mark pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR534KYA] [Life stage: Embryonic] [Histone ChIP-seq peaks]
H3K4me1 • Transverse colon NGENCACQ6OMNW6 • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Transverse colon Histone Show metadata Download track Track metadata identifier NGENCACQ6OMNW6 data_source ENCODE Download track Download number_of_intervals 146,841 bp_covered 163,058,454 output_type pseudoreplicated peaks genome_build hg38 cell_type Transverse colon biosample_type Tissue biosample_term_id UBERON:0001157 tissue_category Digestive encode_experiment_id ENCSR516QFO biological_replicate 1, 2 technical_replicate 1_1, 1_2, 2_1, 2_2 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 3,932,933 downloaded_date 06/12/2022 release_date 09/22/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF665HDU.bed.gz processed_file_md5 6180def635f65de8003e89ed082dc81d wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF665HDU.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF665HDU.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF665HDU/@@download/ENCFF665HDU.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF665HDU.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 e2335d204c0fbb1e0e888b3c338a48f6 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens transverse colon tissue male adult (37 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,ENTEx;Life_stage_age=adult 37 years;Reference=NR;External_resources=GEO:GSE143000;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2019-02-12,2017-08-28;Submitted_track_name=pooled-pr1_vs_pooled-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=transverse colon;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system;ENCODE_biosample_term_synonyms=colon transversum;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0001157;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Digestive life_stage Adult track_name ENCODE Transverse colon (repl. 1, 2) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR516QFO] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • Gastroesophageal sphincter NGENCAD2LMQDK3 • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Gastroesophageal sphincter Histone Show metadata Download track Track metadata identifier NGENCAD2LMQDK3 data_source ENCODE Download track Download number_of_intervals 8,189 bp_covered 5,616,498 output_type pseudoreplicated peaks genome_build hg38 cell_type Gastroesophageal sphincter biosample_type Tissue biosample_term_id UBERON:0004550 tissue_category Digestive encode_experiment_id ENCSR238SWA biological_replicate 1 technical_replicate 1_1, 1_2 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 176,320 downloaded_date 06/12/2022 release_date 09/22/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF041JSY.bed.gz processed_file_md5 aebaf311c9f5e7a425486179cafe2fde wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF041JSY.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF041JSY.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF041JSY/@@download/ENCFF041JSY.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF041JSY.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 c96c350dccfdc8d37a90c33802551801 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens gastroesophageal sphincter tissue male adult (54 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,ENTEx;Life_stage_age=adult 54 years;Reference=NR;External_resources=GEO:GSE167767;Project=ENCODE;Award=UM1HG009390;Experiment_date_released=2019-02-12,2019-02-11;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=true;ENCODE_biosample_term_name=gastroesophageal sphincter;ENCODE_cell_slims=NR;ENCODE_system_slims=digestive system,musculature;ENCODE_biosample_term_synonyms=inferior esophageal sphincter,gastroesophageal sphincter,gastroesophageal sphincter muscle,cardiac sphincter;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0004550;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Digestive life_stage Adult track_name ENCODE Gastroesophageal sphincter (repl. 1) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR238SWA] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • Cingulate gyrus NGENCAEBTLLPP7 • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq Cingulate gyrus Histone Show metadata Download track Track metadata identifier NGENCAEBTLLPP7 data_source ENCODE Download track Download number_of_intervals 114,288 bp_covered 102,556,840 output_type pseudoreplicated peaks genome_build hg38 cell_type Cingulate gyrus biosample_type Tissue biosample_term_id UBERON:0002967 tissue_category Brain encode_experiment_id ENCSR443NEP biological_replicate 1 technical_replicate 1_3 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 2,666,033 downloaded_date 06/12/2022 release_date 01/30/2021 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF391NOU.bed.gz processed_file_md5 51798315d5e0d7c38e691616c455161a wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF391NOU.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF391NOU.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF391NOU/@@download/ENCFF391NOU.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF391NOU.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 274cae56ba3947e7215ecdbc4d0c8243 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens cingulate gyrus tissue male adult (81 years);Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=RegulomeDB_2_2,dbGaP,ENCYCLOPEDIAv2;Life_stage_age=adult 81 years;Reference=PMID:32728046;External_resources=GEO:GSM773007;Project=Roadmap;Award=U01ES017155;Experiment_date_released=2013-07-31;Submitted_track_name=NR;ENCODE_preferred_default=true;ENCODE_biosample_term_name=cingulate gyrus;ENCODE_cell_slims=NR;ENCODE_system_slims=central nervous system;ENCODE_biosample_term_synonyms=upper limbic gyrus,cingulate area,cingulate region,falciform lobe;Analysis_title=ENCODE4 v1.7.0 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=UBERON:0002967;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Nervous life_stage Adult track_name ENCODE Cingulate gyrus (repl. 1) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR443NEP] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • GM12878 NGENCAEGPTBYX4 • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq GM12878 Histone Show metadata Download track Track metadata identifier NGENCAEGPTBYX4 data_source ENCODE Download track Download number_of_intervals 78,120 bp_covered 59,694,021 output_type pseudoreplicated peaks genome_build hg38 cell_type GM12878 biosample_type Cell line biosample_term_id EFO:0002784 tissue_category Blood encode_experiment_id ENCSR000AKF biological_replicate 1 technical_replicate 1_1 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 1,761,117 downloaded_date 06/12/2022 release_date 11/12/2020 date_added_to_filer 08/22/2024 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF626ZKT.bed.gz processed_file_md5 5ee17ee8313256d50bb9f2834032d212 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF626ZKT.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ENCFF626ZKT.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/1/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF626ZKT/@@download/ENCFF626ZKT.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF626ZKT.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 2179b8cb2edb968ef37542ba2542a194 data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens GM12878;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=ENCYCLOPEDIAv1,RegulomeDB_2_2,ENCYCLOPEDIAv2;Life_stage_age=NR;Reference=PMID:32728046;External_resources=UCSC-ENCODE-hg19:wgEncodeEH000033,GEO:GSM733772;Project=ENCODE;Award=U54HG004570;Experiment_date_released=2011-02-10;Submitted_track_name=rep1-pr1_vs_rep1-pr2.overlap.bfilt.narrowPeak.bb;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=ENCODE4 v1.6.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0002784;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Cardiovascular life_stage Adult track_name ENCODE GM12878 (repl. 1) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR000AKF] [Life stage: Adult] [Histone ChIP-seq peaks]
H3K4me1 • A549 NGENCAEQ7EU6CD • ENCODE22955616 | 41168159 | 31713622 Histone ChIP-seq A549 Histone Show metadata Download track Track metadata identifier NGENCAEQ7EU6CD data_source ENCODE Download track Download number_of_intervals 48,364 bp_covered 51,701,244 output_type pseudoreplicated peaks genome_build hg38 cell_type A549 biosample_type Cell line biosample_term_id EFO:0001086 tissue_category Lung encode_experiment_id ENCSR000AUM biological_replicate 2 technical_replicate 2_2 antibody H3K4me1 assay Histone ChIP-seq file_format bed narrowPeak file_size 1,220,077 downloaded_date 07/10/2025 release_date 10/29/2020 date_added_to_filer 07/30/2025 processed_file_download_url https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF202ZFL.bed.gz processed_file_md5 188721b0d931090cc6ecce73984c6d16 wget_command wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF202ZFL.bed.gz -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ tabix_index_download wget https://filer2.niagads.org/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ENCFF202ZFL.bed.gz.tbi -P GADB/Annotationtracks/ENCODE/data/Histone_ChIP-seq/narrowpeak/hg38/2/ link_out_url https://www.encodeproject.org raw_file_url https://www.encodeproject.org/files/ENCFF202ZFL/@@download/ENCFF202ZFL.bigBed raw_file_download wget https://filer2.niagads.org/Annotationtracks/Downloads/ENCODE/ENCFF202ZFL.bigBed -P GADB/Annotationtracks/Downloads/ENCODE/ raw_file_md5 f82f12bc989189f212c30a3e91fa2f4e data_category Histone ChIP-seq peaks Genomic feature type Histone ChIP-seq H3K4me1 pseudoreplicated peaks track_description version=2024;Biosample_summary=Homo sapiens A549 treated with 0.02% ethanol for 1 hour;Lab=Bradley Bernstein, Broad;ENCODE_internal_tags=ENCYCLOPEDIAv1,ENCYCLOPEDIAv2;Life_stage_age=adult 58 years;Reference=PMID:32728046;External_resources=GEO:GSM1003453,UCSC-ENCODE-hg19:wgEncodeEH003122;Project=ENCODE;Award=U54HG004570;Experiment_date_released=2012-08-06;Submitted_track_name=rep2-pr1_vs_rep2-pr2.overlap.bfilt.narrowPeak.bb;ENCODE_preferred_default=false;ENCODE_biosample_term_name=A549;ENCODE_cell_slims=cancer cell;ENCODE_system_slims=respiratory system;ENCODE_biosample_term_synonyms=A549 cell,A-549;Analysis_title=ENCODE4 v1.5.1 GRCh38;GM=NR;schema=BED6+4;dataSource_pubmed_id=22955616|41168159|31713622;in_trackHub=yes;dataSource_acknowledgements=https://filer2.niagads.org/acknowledgements/ENCODE.html;original_biosample_term_id=EFO:0001086;is_hg38_lifted=no;narrowPeak_filter=qValueLog10 system_category Respiratory life_stage Adult track_name ENCODE A549 (repl. 2) Histone ChIP-seq H3K4me1 pseudoreplicated peaks (narrowPeak) [Experiment: ENCSR000AUM] [Life stage: Adult] [Histone ChIP-seq peaks]