README file for the 3DGenome_TAD_bed3_hg38 dataset I. Description of the dataset -------------------------------- Data source: 3DGenome Data source URL: http://3dgenome.fsm.northwestern.edu/publications.html Genome build: hg38 File format: bed bed3, bgzip-compressed and tabix-indexed Contents: TAD Dataset URL: https://tf.lisanwanglab.org/GADB/FILER2/Annotationtracks/3DGenome/TAD/bed3/hg38/ Acknowledgements: http://tf.lisanwanglab.org/GADB/FILER2/acknowledgements/3DGenome.html II. Dataset version number -------------------------------- v2_0529_2026 III. Files in the dataset -------------------------------- See MANIFEST for the complete file list. Summary: - Files: 28 *.bed.gz files - Auxiliary indexes: giggle_index/ IV. Contributors -------------------------------- Jeffrey Cifello Prabhakaran Gangadharan Luke Carter Pavel P. Kuksa Fanny Leung V. Workflow description -------------------------------- Files were processed and standardized using FILER data integration and harmonization pipeline (hipFG). VI. Input files and Resources -------------------------------- Original files were obtained from http://3dgenome.fsm.northwestern.edu/publications.html. VII. File Contents -------------------------------- 1. Example annotation file: formatted_output_Dixon_2015_H1-ESC_raw_TADs.bed.gz File schema: fieldName sqlType fieldDescription chrom string Reference sequence chromosome chromStart uint Start position in chromosome, 0-based coordinate system chromEnd uint End position in chromosome 2. Example tabix index file: formatted_output_Dixon_2015_H1-ESC_raw_TADs.bed.gz.tbi The annotation track is tabix-indexed to allow efficient retrieval of annotations by chromosome and position. --------------------------------- Generated from: - Metadata: https://tf.lisanwanglab.org/FILER2/metadata/filer2.latest.hg38.template - File schemas: https://tf.lisanwanglab.org/FILER2/metadata/filer2.schemas.latest.tsv - README template: https://tf.lisanwanglab.org/GADB/metadata/filer.dataset.readme.template - Generation date: 06/05/2026