Bioinformatics Seminar & Journal Club

General Information

Welcome the Bioinformatic Seminar series and journal club. We are meeting once a month to listen to exciting talks in an informal atmosphere. The Seminar talks are mostly held by PhD students and they are presenting their latest results, challenging problems, or also give a lecture like introduction into various Bioinformatic topics.

The Journal Club is bi-weekly and we are discussing hot papers in the realm of Bioinformatics. One student is preparing a short 15 min talk which then forms the basis for an open ended discussion. We are flexible and curious, wandering between different topics and discussing the latest trends.

If this sounds interesting to you and you want to participate, please feel free to join at any time by shooting a quick Email to Richard and be included into the mailing list so you won’t miss a session.

Corona Information: Given the current status of the pandemic, the Journal Club as well as the Seminar are held in Online only format.

Spring 2021

Date	Type	Speaker	Topic
19.01.2021	JC	Tobias	Making proteomics data accessible and reusable: current state of proteomics databases and repositories
26.01.2021	Seminar	Philipp
02.02.2021	JC		CANCELLED
16.02.2021	JC	Alexander	The pros and cons of peptide-centric proteomics
23.02.2021	Seminar	Juan	Generative adverserial Neural Networks
02.03.2021	JC	Mathias	Prosit: proteome-wide prediction of peptide tandem mass spectra by deep learning
16.03.2021	JC	Niklas	High-quality MS/MS spectrum prediction for data-dependent and data-independent acquisition data analysis
23.03.2021	Seminar	Vasileios	Community Projects in Computational Proteomics: EuBIC Developer's meeting
13.04.2021	JC	Anne	Adversarial generation of gene expression data
20.04.2021	JC	Johannes	Designing Feature-Controlled Humanoid Antibody Discovery Libraries Using Generative Adversarial Networks
27.04.2021	JC	Tobias	MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data
04.05.2021	Seminar	Canceled
18.05.2021	JC	Zsofia	Deep sequencing of pre-translational mRNPs reveals hidden flux through evolutionarily conserved alternative splicing nonsense-mediated decay pathways
25.05.2021	JC	Juan	Enhancing Photorealism Enhancement
08.06.2021	Sminar	Maria & Johannes	Antibody Maturation: factors increasing or limiting the diversity
22.06.2021	JC	Tobias

Fall 2020

Date	Type	Speaker	Topic
06.10.2020	Seminar	Vikas	Studies of membrane transport in biology
20.10.2020	Seminar	Tobias	Big Data, privacy and disease
27.10.2020	JC	Maria	Haque, Ashraful, et al. "A practical guide to single-cell RNA-sequencing for biomedical research and clinical applications." Genome medicine 9.1 (2017): 1-12.
03.11.2020	JC	Johannes	Grün, Dominic, Lennart Kester, and Alexander Van Oudenaarden. "Validation of noise models for single-cell transcriptomics." Nature methods 11.6 (2014): 637-640.
10.11.2020	JC	Anne	Buettner, Florian, et al. "Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells." Nature biotechnology 33.2 (2015): 155-160.
17.11.2020	JC	Mathias	Eraslan, Gökcen, et al. "Single-cell RNA-seq denoising using a deep count autoencoder." Nature communications 10.1 (2019): 1-14.
01.12.2020	Seminar	Zsofia	Predicting exon vulnerability using empirical data.
08.12.2020	JC	Louise	Aebersold, Ruedi, and Matthias Mann. "Mass-spectrometric exploration of proteome structure and function." Nature 537.7620 (2016): 347-355.
15.12.2020	JC	Tobias	Sinitcyn, Pavel, Jan Daniel Rudolph, and Jürgen Cox. "Computational methods for understanding mass spectrometry–based shotgun proteomics data." Annual Review of Biomedical Data Science 1 (2018): 207-234.

Spring 2020

Date	Type	Speaker	Topic
05.03.2020	JC	Richard	Lonsdale, Andrew, et al. "Ten simple rules for a bioinformatics journal club." (2016): e1004526.
Surprised by first lockdown, we continued with Seminar only
02.04.2020	Seminar	Anne	Federated analysis of gene expression data
02.04.2020	Seminar	Konrad	Looking for therapeutic antibodies in next generation sequencing datasets.
30.04.2020	Seminar	Dominika	Differentially evolutionary-conserved regions in populations
30.04.2020	Seminar	Tobias	MS2 prediction based on MS1 data.
04.06.2020	Seminar	Katharina	VulExMap - Detection Of Constitutive Vulnerable Exons
04.06.2020	Seminar	Andreas	Deep learning enables accurate clustering with batch effect removal in single-cell RNA-seq analysis
08.07.2020	Seminar	All	Virtual Recomb Session.