Explore projects

Alina Ritz- Heard Group;

Christian Tischer, Arif Khan - CBA;

Nextflow, python, nuclear cytoplasmic intensity measurements, MoBIE;

This source code extracts distributions of nups inside core and non-core regions; and was developed to quantify different nups for the manuscript below: Otsuka "A quantitative map of nuclear pore assembly reveals two distinct mechanisms"

Rust coder/decoder for Nucleotide Archive Format (NAF) files.

Iterative Gene clUster Analysis, a high-throughput method for gene cluster family identification.

Lucas Alfredo Defelipe, Maria Garcia - EMBL Hamburg;

Christian Tischer, Arif Khan - Data Science, EMBL Heidelberg;

Ziqiang Huang - IC LM, EMBL Heidelberg.

Cornelius Pauli - Frye Lab, DKFZ Heidelberg;

Christian Tischer - BAST

This script implements a machine learning pipeline that integrates the ESM2 transformer-based protein model with a Logistic Regression classifier to predict the detectability of microprotein sequences by Mass Spectrometry. The script preprocesses data, extracts embeddings from sequences, performs feature selection, trains a logistic regression model, and evaluates its performance using multiple metrics.

Source code related to the publication "Visualization of loop extrusion by DNA nanoscale tracing in single human cells" by Beckwith, Ødegård-Fougner et.al. DOI: https://doi.org/10.1101/2021.04.12.439407

This project aims to offer a platform for sharing ideas, resources, tools & techniques, interesting publications, interviews and stories from all our community members. https://grp-bio-it.embl-community.io/blog/