Hackl, Lena Maria;Fenn, Amit;Louadi, Zakaria;Baumbach, Jan;Kacprowski, Tim;List, Markus;Tsoy, Olga
Alternative splicing impacts microRNA regulation within coding regions
NAR Genomics and Bioinformatics
2023
5
3

Matschinske, Julian;Späth, Julian;Bakhtiari, Mohammad;Probul, Niklas;Kazemi Majdabadi, Mohammad Mahdi;Nasirigerdeh, Reza;Torkzadehmahani, Reihaneh;Hartebrodt, Anne;Orban, Balazs-Attila;Fejér, Sándor-József;Zolotareva, Olga;Das, Supratim;Baumbach, Linda;Pauling, Josch K;Tomašević, Olivera;Bihari, Béla;Bloice, Marcus;Donner, Nina C;Fdhila, Walid;Frisch, Tobias;Hauschild, Anne-Christin;Heider, Dominik;Holzinger, Andreas;Hötzendorfer, Walter;Hospes, Jan;Kacprowski, Tim;Kastelitz, Markus;List, Markus;Mayer, Rudolf;Moga, Mónika;Müller, Heimo;Pustozerova, Anastasia;Röttger, Richard;Saak, Christina C;Saranti, Anna;Schmidt, Harald H H W;Tschohl, Christof;Wenke, Nina K;Baumbach, Jan
The FeatureCloud Platform for Federated Learning in Biomedicine: Unified Approach
Journal of Medical Internet Research
2023
25
e42621

Galindez, Gihanna;Sadegh, Sepideh;Baumbach, Jan;Kacprowski, Tim;List, Markus
Network-based approaches for modeling disease regulation and progression
Computational and Structural Biotechnology Journal
2023
21
780-795

Boniolo, Fabio;Hoffmann, Markus;Roggendorf, Norman;Tercan, Bahar;Baumbach, Jan;Castro, Mauro A A;Robertson, A Gordon;Saur, Dieter;List, Markus
spongEffects: ceRNA modules offer patient-specific insights into the miRNA regulatory landscape
Bioinformatics
2023
39
5

Lio, Chit Tong;Grabert, Gordon;Louadi, Zakaria;Fenn, Amit;Baumbach, Jan;Kacprowski, Tim;List, Markus;Tsoy, Olga
Systematic analysis of alternative splicing in time course data using Spycone
Bioinformatics
2023
39
1

Hoffmann, Markus;Trummer, Nico;Schwartz, Leon;Jankowski, Jakub;Lee, Hye Kyung;Willruth, Lina-Liv;Lazareva, Olga;Yuan, Kevin;Baumgarten, Nina;Schmidt, Florian;Baumbach, Jan;Schulz, Marcel H;Blumenthal, David B;Hennighausen, Lothar;List, Markus
TF-Prioritizer: a Java pipeline to prioritize condition-specific transcription factors
GigaScience
2023
12

Hoffmann, Markus;Schwartz, Leon;Ciora, Octavia-Andreea;Trummer, Nico;Willruth, Lina-Liv;Jankowski, Jakub;Lee, Hye Kyung;Baumbach, Jan;Furth, Priscilla A;Hennighausen, Lothar;List, Markus
circRNA-sponging: a pipeline for extensive analysis of circRNA expression and their role in miRNA sponging
Bioinformatics Advances
2023
3
1

Sarkar, Suryadipto;Lucchetta, Marta;Maier, Andreas;Abdrabbou, Mohamed M;Baumbach, Jan;List, Markus;Schaefer, Martin H;Blumenthal, David B
Online bias-aware disease module mining with ROBUST-Web
Bioinformatics
2023
39
6

Henao, Juan D;Lauber, Michael;Azevedo, Manuel;Grekova, Anastasiia;Theis, Fabian;List, Markus;Ogris, Christoph;Schubert, Benjamin
Multi-omics regulatory network inference in the presence of missing data
Briefings in Bioinformatics
2023
24
5

Hecker, Dennis;Lauber, Michael;Behjati Ardakani, Fatemeh;Ashrafiyan, Shamim;Manz, Quirin;Kersting, Johannes;Hoffmann, Markus;Schulz, Marcel H.;List, Markus
Computational tools for inferring transcription factor activity
PROTEOMICS
2023