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csoneson merged 1 commit into from
May 15, 2026
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Update citation #2

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6 changes: 3 additions & 3 deletions README.md
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## An organoid model of the menstrual cycle reveals the role of the luminal epithelium in regeneration of the human endometrium
## An in vitro menstrual cycle using organoids captures epithelial cell transitions during menstruation and regeneration of the human endometrium

This repository contains the code used to perform the computational analysis
and generate the figures in

* Nikolakopoulou et al: An organoid model of the menstrual cycle reveals the role of the luminal epithelium in regeneration of the human endometrium. [bioRxiv (2025)](https://doi.org/10.1101/2025.07.03.663000)
* Nikolakopoulou et al.: An in vitro menstrual cycle using organoids captures epithelial cell transitions during menstruation and regeneration of the human endometrium. [Cell Stem Cell 33(5):747-762.e8 (2026)](https://doi.org/10.1016/j.stem.2026.04.005)

To browse the rendered reports, go to [https://fmicompbio.github.io/IVMC-protocol/](https://fmicompbio.github.io/IVMC-protocol/)

A code snapshot corresponding to the preprint is also archived on [Zenodo](https://doi.org/10.5281/zenodo.19334152)
Code snapshots corresponding to the published paper as well as the preprint are archived on [Zenodo](https://doi.org/10.5281/zenodo.19334152)
60 changes: 50 additions & 10 deletions index.html
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11 changes: 10 additions & 1 deletion index.qmd
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Expand Up @@ -23,6 +23,10 @@ author:
email:
affiliations:
- ref: fmi
- name: Tereza Cindrova-Davies
email:
affiliations:
- ref: cambridge
- name: Hans-Rudolf Hotz
orcid: 0000-0002-2799-424X
email: hansrudolf.hotz@fmi.ch
Expand Down Expand Up @@ -59,6 +63,10 @@ affiliations:
postal-code: 4056
city: Basel
country: Switzerland
- id: cambridge
name: Loke Centre for Trophoblast Research, University of Cambridge
city: Cambridge
country: United Kingdom
license: MIT License
format:
html:
Expand All @@ -80,10 +88,11 @@ format:

The accompanying manuscript is:

Nikolakopoulou et al.: An organoid model of the menstrual cycle reveals the role of the luminal epithelium in regeneration of the human endometrium (2025)
Nikolakopoulou et al.: An in vitro menstrual cycle using organoids captures epithelial cell transitions during menstruation and regeneration of the human endometrium. Cell Stem Cell 33(5):747-762.e8 (2026)

which is available from:

- [Cell Stem Cell](https://doi.org/10.1016/j.stem.2026.04.005)
- [bioRxiv](https://doi.org/10.1101/2025.07.03.663000)

## Links to analysis code
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