# Cooltools: Enabling high-resolution Hi-C analysis in Python

*PRI Rank #1 · Topics and Trends in Most Cited Genomics and Chromatin Dynamics Papers, Class of 2026*

*Canonical URL: https://pri.pepkio.com/top-papers/genomics-and-chromatin-dynamics/2026/rank-1*

| Field | Value |
| --- | --- |
| Rank | #1 |
| 18m citations | 137 |
| Journal | PLoS Computational Biology |
| Year | 2024 |
| DOI | 10.1371/journal.pcbi.1012067 |
| Corresponding authors | Open2C, Nezar Abdennur, Sameer Abraham, Geoffrey Fudenberg, Ilya M. Flyamer, Aleksandra A. Galitsyna, Anton Goloborodko, Maxim Imakaev, Betül Akgöl Oksuz, Sergey V. Venev |
| Institution | University of Massachusetts Chan Medical School, United States |

**Ranking page:** [Topics and Trends in Most Cited Genomics and Chromatin Dynamics Papers, Class of 2026](https://pri.pepkio.com/top-papers/genomics-and-chromatin-dynamics/2026)

**Paper link:** [10.1371/journal.pcbi.1012067](https://doi.org/10.1371/journal.pcbi.1012067)

## Topics

cooltools · Hi-C analysis · Chromosome conformation capture · 3C technologies · Contact frequency · 3D genome organization · cooler format · high-resolution datasets · computational analysis pipeline · Python API · command line interface · scalable analysis · genome folding datasets · open2c · high-performance computing clusters · interactive analysis environments

## Cite this ranking

```
Pepkio Research Index (PRI). Topics and Trends in Most Cited Genomics and Chromatin Dynamics Papers, Class of 2026. https://pri.pepkio.com/top-papers/genomics-and-chromatin-dynamics/2026. Accessed 2026-10-28.

Zheng Su, Tinsley Li, Thematic Shifts in Early-High-Impact Cancer Genomics and Diagnostics Research: A Bibliometric and Semantic Analysis. bioRxiv 2026.07.04.736459; doi: https://doi.org/10.64898/2026.07.04.736459
```