---
title: "Can Fiber-seq be used to study DNA-binding proteins?"
slug: "can-fiber-seq-be-used-to-study-dna-binding-proteins"
updated: 2025-11-10T15:13:34Z
published: 2025-11-11T13:00:01Z
canonical: "support.epicypher.com/can-fiber-seq-be-used-to-study-dna-binding-proteins"
---

> ## Documentation Index
> Fetch the complete documentation index at: https://support.epicypher.com/llms.txt
> Use this file to discover all available pages before exploring further.

# Can Fiber-seq be used to study DNA-binding proteins?

Yes, Fiber-seq provides near-nucleotide resolution of chromatin accessibility, enabling detection of protein footprints.

**Important Notes:**

- Success depends on protein binding dynamics, occupancy, and footprint size.
- Multiple labs have successfully published on TF and polymerase footprinting using Fiber-seq.
- EpiCypher recommends using fibertools and fiberseq-qc ([https://github.com/fiberseq](https://github.com/fiberseq)) for Fiber-seq data analysis.

**Check out these papers for real-world examples:**

- [Tullius et al., Mol. Cell (2024)](https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00667-1?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS1097276524006671%3Fshowall%3Dtrue)
- [Dubocanin et al., Cell Genomics (2025)](https://www.cell.com/cell-genomics/pdf/S2666-979X(25)00075-8.pdf)
- [Vollger et al., bioRxiv (2024)](https://www.biorxiv.org/content/10.1101/2024.06.14.599122v2)