News

Berlins Bioinformatic social meeting, which is supported by CompCancer, went virtual as well. The next gathering is this Wednesday, May 27th, at 5 pm.

The speakers will be:

Jakub Bartoszewicz (RKI / HPI) – “Sequence-based detection of novel pathogens using interpretable deep learning” 

Jessica Zhou (University of California San Diego / BIMSB / HPI) – “Characterizing the activity of multiple regulatory elements and interactions between them by analyzing multiplexed single cell CRISPR regulatory screens”

All meetings with the Zoom-ID and password are announced on the mailing list https://lists.fu-berlin.de/listinfo/compbio-social

After a short break the series LAP – Life after PhD is back. We are inviting different people who have done their PhD and moved on in various directions. Careers in industry, education, science and health etc. will be introduced and they will share their experiences and decisions for their career moves. On May 5th we have Ralf Bortfeldt, who works as a Bioinformatician and IT-Manager at IFN Schönow, as a guest in our webinar.

Date: May 5th
Time: 4:30 p.m.
Venue: Zoom
Speaker: Ralf Bortfeldt – IT manager

Password upon reasonable request (contact: compcancer at charite dot de). You will find regular updates at https://www.regulatory-genome.hu-berlin.de/en/events/lectures/lap-series.

On Wednesday, April 22nd, two PhD students of CompCancer are giving a small tutorial on Neural Nets and Uncertaintity in Deep Learning.

Date: April 22nd
Time: 10 a.m.
Venue: Zoom
Speaker: Bettina Schmidt / Lorenz Rumberger

Uncertainty in deep learning (Lorenz Rumberger)

The tutorial gives an overview about methods for parameter and data related uncertainty quantification common in deep learning for regression and classification problems. After an introduction to the theoretical background, students will implement some of the discussed methods with tensorflow.

A short theoretical intro into neural nets (Bettina Schmidt)

Short derivation of mathematical formulation of simplest case of neural net (here: a classification) from logistic regression. Concept of activation function (relu) , loss / cost / objective function, backpropagation (problem of vanishing gradient), optizers (Adam), hyperparameteroptimization

We are starting a new webinar series "Cancer and Immunology" for CompCancer PhD students. The series is part of  the qualification program and aims to introduce some biological background relevant for research questions within CompCancer.

Date: March 25th / April 2nd
Time: 3:30 p.m.
Venue: Zoom
Speaker: Markus Morkel

Abstract:

Colorectal Cancer (CRC) is driven by oncogenic mutations that deregulate signaling networks governing cell turnover in the colon epithelium. These two lectures give an overview of cell signal transduction, clinical features and cell heterogeneity in CRC.

Date: March 26th
Time: 3:30 p.m.
Venue: Zoom
Speaker: Philip Bischoff

Diagnostic standard procedures in the Institute of Pathology

In this session you will get to know the general workflow in diagnostic pathology, how samples are processed until the pathologist makes the diagnosis and how this affects the therapy of the patient. Taking colorectal cancer as an example, I will give a quick introduction to histology using standard H&E stainings and immunostainings.

The Ph.D. programs of the IRI for Life Sciences are joining forces and in March we are starting a new series: LAP – Life after Ph.D. We are inviting different people who have done their Ph.D. and moved on in various directions. Careers in industry, education, science, health, and more will be introduced and they will share their experiences and decisions for their career moves. We hope that you will get new ideas, get inspired and see that there are so many options open to you after you have finished your Ph.D.
You will find more information at

https://www.regulatory-genome.hu-berlin.de/en/events/lectures/lap-series.

While COVID-19 takes control of our working life, we will hold the first webinar of our "LAP - Life after Ph.D." series with Joram Schwartzmann, Science Communicator, on Tuesday, 17 March at 4:30 p.m.