Anokian, Ezequiel;Bernett, Judith;Freeman, Adrian;List, Markus;Santamaría, Lucía Prieto;Tanoli, Ziaurrehman;Bonnin, Sarah
Machine Learning and Artificial Intelligence in Drug Repurposing—Challenges and Perspectives
Drug Repurposing
2024
1
1

Maier, Andreas;Hartung, Michael;Abovsky, Mark;Adamowicz, Klaudia;Bader, Gary D;Baier, Sylvie;Blumenthal, David B;Chen, Jing;Elkjaer, Maria L;Garcia-Hernandez, Carlos;Helmy, Mohamed;Hoffmann, Markus;Jurisica, Igor;Kotlyar, Max;Lazareva, Olga;Levi, Hagai;List, Markus;Lobentanzer, Sebastian;Loscalzo, Joseph;Malod-Dognin, Noel;Manz, Quirin;Matschinske, Julian;Mee, Miles;Oubounyt, Mhaned;Pastrello, Chiara;Pico, Alexander R;Pillich, Rudolf T;Poschenrieder, Julian M;Pratt, Dexter;Pržulj, Nataša;Sadegh, Sepideh;Saez-Rodriguez, Julio;Sarkar, Suryadipto;Shaked, Gideon;Shamir, Ron;Trummer, Nico;Turhan, Ugur;Wang, Rui-Sheng;Zolotareva, Olga;Baumbach, Jan
Drugst.One — a plug-and-play solution for online systems medicine and network-based drug repurposing
Nucleic Acids Research
2024

Heppner, Nina;Reitmeier, Sandra;Heddes, Marjolein;Merino, Michael Vig;Schwartz, Leon;Dietrich, Alexander;List, Markus;Gigl, Michael;Meng, Chen;van der Veen, Daan R.;Schirmer, Melanie;Kleigrewe, Karin;Omer, Hélène;Kiessling, Silke;Haller, Dirk
Diurnal rhythmicity of infant fecal microbiota and metabolites: A randomized controlled interventional trial with infant formula
Cell Host & Microbe
2024
32
4
573-587.e5

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

Galindez, Gihanna;List, Markus;Baumbach, Jan;Völker, Uwe;Mäder, Ulrike;Blumenthal, David B;Kacprowski, Tim
Inference of differential gene regulatory networks using boosted differential trees
Bioinformatics Advances
2024

Bernett, Judith;Blumenthal, David B;List, Markus
Cracking the black box of deep sequence-based protein–protein interaction prediction
Briefings in Bioinformatics
2024
25
2

Matchado, Monica Steffi;Rühlemann, Malte;Reitmeier, Sandra;Kacprowski, Tim;Frost, Fabian;Haller, Dirk;Baumbach, Jan;List, Markus
On the limits of 16S rRNA gene-based metagenome prediction and functional profiling
Microbial Genomics
2024
10
2

Hoffmann, Markus;Willruth, Lina-Liv;Dietrich, Alexander;Lee, Hye Kyung;Knabl, Ludwig;Trummer, Nico;Baumbach, Jan;Furth, Priscilla A.;Hennighausen, Lothar;List, Markus
Blood transcriptomics analysis offers insights into variant-specific immune response to SARS-CoV-2
Scientific Reports
2024
14
1

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

Schmidt, Florian;List, Markus;Cukuroglu, Engin;Köhler, Sebastian;Göke, Jonathan;Schulz, Marcel H
An ontology-based method for assessing batch effect adjustment approaches in heterogeneous datasets
Bioinformatics
2018
34
17
i908-i916