Nanopore Hackathon #2
We are excited to announce the second Nanopore Hackathon, this time on "Democratising RNA modification detection". The event will take place from 25.09 - 27.09.2024 and is organized in collaboration with Oxford Nanopore Technologies.
It is designed to be an exclusive but dynamic platform where selected Nanopore innovators, researchers, and RNA-enthusiasts from all over Germany and beyond come together to collaboratively tackle challenges in RNA modification detection using Nanopore sequencing and machine learning. The event will provide a unique opportunity to collaborate with like-minded individuals, engage in problem-solving, learn about the newest RNA modification callers and bioinformatic features from ONT and pioneer advancements in this rapidly evolving field.
For more information see the flyer below.
Best Master Thesis award
Vincent was awarded the prize for the best Master's thesis in Bioinformatics at JGU in 2023 - congratulations, Vincent!!!
Nanopore Hackathon
The Nanopore Hackathon was successfully concluded. For more information see the following recap from our co-organizers in the EPI2ME team at Oxford Nanopore Technologies:
https://labs.epi2me.io/mainz-hackathon/
Jugend forscht 2024
After scoring first place at the local Jugend Forscht Competition in Mainz, Can scored again first place in the 59th Rhineland-Palatinate state Jugend forscht competition in the field of Biology. Congratulations!
More information: https://crc1551.com/can-dit-it-again-1st-prize-at-jugend-forscht/
Jugend forscht 2024
Can Yildirim scored first place at the Jugend Forscht Competition. Congratulations from the entire AG Gerber. Well done!
More information: https://crc1551.com/sfb1551-jugend-forscht-2024/
Nanopore Hackathon
We are thrilled to announce our upcoming Nanopore Hackathon, on "Unleashing Real-Time Long-Read Analytics", scheduled to take place from 04.03 - 08.03.2024. This Hackathon will be held in collaboration with Oxford Nanopore Technologies and is designed to be an exclusive but dynamic platform where selected Nanopore innovators, researchers, and enthusiasts from all over Germany come together to tackle the challenges of real-time analysis in long-read Nanopore data.
Jugend forscht 2024
Can Yildirim completed his project at this year's "Jugend forscht 2024" competition in our research group. His topic was "Optimization in the ATAC-seq process: Quality improvement in the third-generation sequencing method for the acquisition of epigenetic data". Herewith he contributed to our subproject of the SFB 1551.
Mohit defended his Thesis
Fantastic, Dr. Navandar ! Sincerest congratulations!
Nicolas defended his Thesis
Congratulations, Dr. Nicolas Ruffini! You have done an amazing job !
CRC 1552 approved
We are excited about being part of the newly funded CRC 1552 - Defects and Defetc Engineering in Soft matter. Together with Prof. Andreas Walter we will work on Project C03.
CRC 1551 approved
We are proud to be part of the recently approved SFB 1551 - "Polymer concepts for understanding cellular functions". Together with Prof. Schweiger and Dr. Virnau, we will work on subproject R10: Investigation of Sequence–Structure Relationships in Interphase Chromatin
PromethION P24 and DGX A100 stations have been launched
We are delighted to have our PromethION P24 process biological and biomedical data at the Institute for Human Genetics at the University Medical Center Mainz. Together with our two DGX- A100 stations this allows us to process genomic data at scale and to solidify the benefits of high throughput third generation sequencing and GPU-assisted real-time analysis for patient care and research projects.
Monkey pox sequencing at the Mainz sequencing consortium
The Mainz sequencing consortium brings together facilities from the Mainz University Medical Center, Johannes Gutenberg University and StarSEQ and leverages cutting-edge technologies for detecting and monitoring new pathogens such as the SARS-CoV-2 virus.
The consortium has now successfully sequenced the monkey pox virus genome and has demonstrated that detection is possible within 10 min of sequencing due to real time analysis enabled by the Oxford nanopore sequencing technology.
You can read the official press release under the following link:
EMTHERA Computational Biomedicine Symposium
The EMTHERA Computational Biomedicine Symposium organized by Susanne Gerber, Hristo Todorov, and Peter WIld, took place at Wasem's Engelthal Monastery in Ingelheim. The event brought together leading experts in the fields of machine learning, RNA biology, and multi-omics. The talks and scientific discussions addressed the application and development of cutting-edge computational tools for solving complex biomedical questions such as uncovering disease mechanisms or predicting novel targets for drug treatments.
UCB Innovate Förderpreis
We are proud and happy to have won the UCB INNOVATE Project Grant 2021 for the project "Investigation of the pathogenesis of interstitial lung disease in RA and systemic sclerosis by transcriptome analysis". This prize was won in a collaborative effort with our colleagues Prof. Dr. Andreas Krause, Chief Physician at Immanuel Hospital Berlin and PD Dr. med Alexander Gerber, Specialist in occupational medicine, internal medicine and Rheumatology.
Tamer defended his Thesis
Dr. Tamer Butto successfully defended his PhD-Thesis. congratulations, Tamer, on Summa Cum Laude !
New PhD student joined the CSG
Stefan Mündnich joined the CSG group as a PhD-student. The position is co-supervised by Prof. Mark Helm.
Interview with Prof. Gerber in the Annual Report of the Carl Zeiss Foundation
Our group leader, Susanne Gerber, gave an exciting interview on which factors shaped her career path and how important interdisciplinary collaboration is. Prof. Gerber also shed light on her future research focus areas and offered some thoughtful insight into how a more practical approach to teaching paves the way for the next generation of young scientists. The interview was published in the annual report of the Carl Zeiss Foundation.
Best Master Thesis award
Stanislav was awarded a prize for the best master thesis in bioinformatics at JGU in 2020 - congratulations!
Sequencing Corona Virus Genomes
Our group is now stronger involved in fighting actively the Corona-Virus by participating in a strategic alliance to sequence Corona Virus Genomes. Please find here the press release.
Hristo defended his Thesis
Dr. Hristo Todorov successfully defended his PhD-Thesis. congratulations, Hristo !!!
Two new PhD-students joined the CSG group
Stanislav Sys and Stephan Weißbach joined the CSG group in May 2020 in their new role as PhD students.
Paper published in Science Advances
"SPA" - Low-cost scalable discretization, prediction, and feature selection for complex systems was published today in Science Advances.
Nanopore Sequencer MinION
We are very excited to start our first adventure in nanopore sequencing, using the portable MinION.
Funding for Emergent AI Center
Together with the Institutes of Physics, Computer Science and the Max-Planck-Institute for Polymer Research, we were able to raise funding from the Carl-Zeiss-Stiftung for an interdisciplinary research center on the topic "Algorithmic Intelligence as an Emergent Phenomenon". Further information can be found with in the press-release (in German) and here on the Emergent Algorithmic Intelligence Center's website.