---
license: cc0-1.0
task_categories:
  - feature-extraction
tags:
  - biology
  - genomics
  - ChIP-seq
  - epigenomics
  - histone-modifications
  - ENCODE
size_categories:
  - 10M<n<100M
---

# ENCODE Histone ChIP-seq Subset (bigWig signal tracks)

Subset of **Histone ChIP-seq** signal tracks (bigWig format) downloaded from the
[ENCODE](https://www.encodeproject.org/) consortium. This is a convenience subset
for vectorization / embedding experiments — it is **not** the full ENCODE release.

## Contents

- **46 bigWig files**, ~38.7 GB total
- **3 histone marks**: H3K27ac, H3K4me3, H3K27me3
- **7 experiments** (ENCSR accessions):
  - `ENCSR349EHZ` (10 files)
  - `ENCSR491RBV` (10 files)
  - `ENCSR527FRO` (10 files)
  - `ENCSR714ZJT` (10 files)
  - `ENCSR837DVF` (2 files)
  - `ENCSR864OOO` (2 files)
  - `ENCSR954JMZ` (2 files)
- **Assemblies**:
  - 40 files on **mm10** (mouse, 56–57 chromosomes, ~2729 Mb genome)
  - 6 files on **hg38** (human, 160–166 chromosomes incl. alt scaffolds, ~3100 Mb genome)
- **File size range**: 0.51 GB – 1.28 GB per file

## File naming

```
<ENCSR_accession>_<ENCFF_accession>.bigWig
```

Example: `ENCSR527FRO_ENCFF713EIC.bigWig`

The `ENCSR` prefix identifies the experiment; the `ENCFF` prefix identifies the
specific signal file (replicate / treatment / control). Look up metadata at
`https://www.encodeproject.org/experiments/<ENCSR_accession>/`.

## Signal distribution (sampled from `ENCSR527FRO_ENCFF713EIC.bigWig`, chr1, 500 bins × 100 kb)

| Statistic | Mean per bin | Peak per bin |
|---|---|---|
| min  | 0.0002 | 0.0002 |
| max  | 11.35  | 455.77 |
| mean | 0.54   | 40.14  |
| median | 0.13 | 9.59 |
| stdev | 1.05 | — |

Distribution is strongly right-skewed (median ≪ mean), as expected for ChIP-seq
signal tracks: most of the genome is intergenic background with sparse, sharp
peaks at binding/enrichment sites.

## Provenance

- **Source**: ENCODE Data Coordination Center
- **Downloaded**: 2026-08-16 via `download_encode_v2.py` (filtered for
  `assay_title=Histone+ChIP-seq`, `target.label` in {H3K27ac, H3K4me3, H3K27me3},
  `status=released`, `.bigWig` files only, capped at ~38 GB).
- **Original accessions**: see filenames; each maps to a public ENCODE experiment.
- **No transformation**: files are byte-identical to the ENCODE originals.

## License

ENCODE data is released under a permissive license; see
https://www.encodeproject.org/about/terms-of-use/. This subset is redistributed
under CC0 for convenience. Attribution to ENCODE is requested for any derivative use.