stem-cells

Scientific Agent for evidence-grounded evaluation of cell-therapy products.

💊🩺🩹 List of Awesome Open-Source Regenerative Medicine Tools🌟 Star if you like it! 🌟

Jupyter notebooks for analyzing data from a study on Shh⁺ cell lineage and gene expression in regenerating axolotl spinal cords.

Originally developed for scientific outreach presentation at the SFBD-JSDB Conference 2022 held at Strasbourg.

Comprehensive Enumeration of Cancer Stem-like Cell Heterogeneity Using Deep Neural Network

OSCI: Ontology for Stem Cell Investigations

ColonyQuant is a command-line toolkit for fully automated quantification and morphometric analysis of AP-stained embryonic stem cell colonies, with integrated visualization and clustering workflows.

Single-cell RNA-seq analysis — Pandey et al. 2022

"Transcriptional Heterogeneity and Cell Cycle Regulation as Central Determinants of Primitive Endoderm Priming" published in eLife (2022)

Un proyecto universitario que consiste en dos etapas. La primera; recopilar información pública de la web utilizando webscraping avanzado, acerca de diferentes casos de estudio sobre células madre pluripotentes humanas. Finalmente, analiza los aspectos que influyen en la duración de los estudios mediante un árbol de decisión regresor.

Hybrid Analytical–Numerical Modeling of Electroporation Dynamics and Swept-Frequency Impedance Spectroscopy for Label-Free Characterization of hMSCs in a Microfluidic Platform — Sherif, Ghallab & Ismail

Parameter estimation of haematopoietic stem cell differentiation dynamics. Alternative dynamical model. Reproducing and extending Busch et al. (Nature, 2015) https://doi.org/10.1038/nature14242

Growth Hormone effect on Cartilage Growth Plate; Light-Sheet Microscopy; Pseudocoloring | Projects I started and still working on in Andrei Chagin Lab | Karolinska Institutet

A collection of summaries and reflective notes from molecular biology courses, including genetics, epigenetics, gene regulation, genome interpretation, stem cells and RNA biology, designed to strengthen fundamental knowledge and bridge classical molecular biology with modern applications in cancer research and bioinformatics.

A repository for our science project on bioethics

Dose and timing-dependent model of Wnt/β-catenin signaling and the produced cell fate from it. Synthesizes why CHIR99021 is used at µM when its Ki is nM, and why the cord blood optimum is non-monotonic. Cardiac mesoderm and cord blood HSPC modules on a shared core.

The aim was to re-analyze published of RNAseq differential expression datasets

CellDreamer: World Models for Stem Cell Differentiation

Code for the MiSTR microfluidic stem cell atlas study of early human neural patterning.

A stem-cell differentiation copilot for computational biology teams — CABS 2026 intern project.