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Kontakt

Position
Leitung Arbeitsgruppe
Room
4024
Phone
+49 30 84185-432
Email

Projects

Projects as Head

Pareto-ML-Optimization-Cycle

AA1-19 Drug Candidates as Pareto Optima in Chemical Space

The search for novel drug candidates that, at the same time, act with high efficacy, comply with defined chemical properties, and also show low off-target effects can be...

AA1-19 Drug Candidates as Pareto Optima in Chemical Space
MATH+ AA1-20

Geometric Learning for Single-Cell RNA Velocity Modeling

Recent advances in Single-Cell RNA sequencing allow to infer both the gene expression of a cell and the so-called "velocity vector" initializing the changes in that... Geometric Learning for Single-Cell RNA Velocity Modeling
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Math-Powered Drug Design

This project aims at the creation of a MATH+ success story around the mathematics of drug design. It proposes a new drug design strategy for G-protein coupled receptors...

Math-Powered Drug Design

Publications

2024
An interpretable data-driven prediction model to anticipate scoliosis in spinal muscular atrophy in the era of (gene-) therapies Scientific Reports, 14(11838), 2024 Tu-Lan Vu-Han, Rodrigo Bermudez Schettino, Claudia Weiß, Carsten Perka, Tobias Winkler, Vikram Sunkara, Matthias Pumberger BibTeX
DOI
Sunkara, Vikram, Dr.
Multi-Input data ASsembly for joint Analysis (MIASA): A framework for the joint analysis of disjoint sets of variables PLOS ONE, 19(5), 2024 Nomenjanahary Alexia Raharinirina, Vikram Sunkara, Max von Kleist, Konstantin Fackeldey, Marcus Weber BibTeX
DOI
Sunkara, Vikram, Dr.
2023
Modelling altered signalling of G-protein coupled receptors in inflamed environment to advance drug design Scientific Reports, 13(607), 2023 Arne Thies, Vikram Sunkara, Sourav Ray, Hanna Wulkow, M. Özgür Celik, Fatih Yergöz, Christof Schütte, Christoph Stein, Marcus Weber, Stefanie Winkelmann BibTeX
DOI
Sunkara, Vikram, Dr.
On the Activation Space of ReLU Equipped Deep Neural Networks Procedia Computer Science, pp. 624-635, Vol.222, 2023 Mustafa Chaukair, Christof Schütte, Vikram Sunkara BibTeX
DOI
Sunkara, Vikram, Dr.
2022
A discontinuous Galerkin method for approximating the stationary distribution of stochastic fluid-fluid processes Methodology and Computing in Applied Probability, 2022 Vikram Sunkara, Angus Lewis, Giang T. Nguyen, Malgorzata M. O'Reilly, Nigel Bean BibTeX
DOI
Sunkara, Vikram, Dr.
Chimeric U-Net–Modifying the standard U-Net towards Explainability bioRxiv, 2022 (under review) Kenrick Schulze, Felix Peppert, Christof Schütte, Vikram Sunkara BibTeX
DOI
Sunkara, Vikram, Dr.
On the Sufficient Condition for Solving the Gap-Filling Problem Using Deep Convolutional Neural Networks IEEE Transactions on Neural Networks and Learning Systems, 33(11), pp. 6194-6205, 2022 Felix Peppert, Max von Kleist, Christof Schütte, Vikram Sunkara BibTeX
DOI
Sunkara, Vikram, Dr.
PIPELINE FOR SINGLE CELL SEQUENCING OF HUMAN CHONDROCYTE PELLET CULTURES TO DELINEATE IL-1β MODULATED CHANGES IN CELL HETEROGENEITY Osteoarthritis and Cartilage, 30(Supplement 1), p. S90, 2022 Annemarie Lang, Antja Vester, M. Ferreira-Gomes, G.M. Guerra, Fredrich R. Heinrich, C.C. Götzke, Sebastian Kurmies, Vikram Sunkara, Pawel Durek, Joel D. Boerckel, Mir-Farzin Mashreghi BibTeX
DOI
Sunkara, Vikram, Dr.
Understanding the Romanization Spreading on Historical Interregional Networks in Northern Tunisia Applied Network Science, Vol.7, 2022 (preprint available as ZIB-Report 22-10) Margarita Kostré, Vikram Sunkara, Christof Schütte, Natasa Djurdjevac Conrad PDF (ZIB-Report)
BibTeX
DOI
Sunkara, Vikram, Dr.
Volumetric macromolecule identification in cryo-electron tomograms using capsule networks BMC Bioinformatics, 23(360), 2022 Noushin Hajarolasvadi, Vikram Sunkara, Sagar Khavnekar, Florian Beck, Robert Brandt, Daniel Baum BibTeX
DOI
Sunkara, Vikram, Dr.
2021
Combining segmental bulk- and single-cell RNA-sequencing to define the chondrocyte gene expression signature in the murine knee joint Osteoarthritis and Cartilage, 29(6), pp. 905-914, 2021 Vikram Sunkara, Gitta A. Heinz, Frederik F. Heinrich, Pawel Durek, Ali Mobasheri, Mir-Farzin Mashreghi, Annemarie Lang BibTeX
DOI
Sunkara, Vikram, Dr.
Data-driven modelling of nonlinear dynamics by barycentric coordinates and memory J. Stat. Phys., 2021 (under review) Niklas Wulkow, Péter Koltai, Vikram Sunkara, Christof Schütte BibTeX
arXiv
Sunkara, Vikram, Dr.
Inference of historical influence networks International Conference on Complex Networks & Their Applications Proceedings, pp. 110-113, 2021 Margarita Kostre, Vikram Sunkara, Natasa Djurdjevac Conrad BibTeX
DOI
Sunkara, Vikram, Dr.
Inferring cultural and social processes based on patterns of statistical relationships between Synodal texts 2021 (in progress) Ralph Birk, N. Alexia Raharinirina, Konstantin Fackeldey, Tonio Sebastian Richter, Marcus Weber BibTeX
Sunkara, Vikram, Dr.
Inferring gene regulatory networks from single-cell RNA-seq temporal snapshot data requires higher-order moments Patterns, 2(9), 2021 (preprint available as ZIB-Report 20-25) Alexia N. Raharinirina, Felix Peppert, Max von Kleist, Christof Schütte, Vikram Sunkara PDF (ZIB-Report)
BibTeX
DOI
Sunkara, Vikram, Dr.
Modelling altered signalling of G-protein coupled receptors in inflamed environment to advance drug design ZIB-Report 21-19 Sourav Ray, Arne Thies, Vikram Sunkara, Hanna Wulkow, Özgür Celik, Fatih Yergöz, Christof Schütte, Christoph Stein, Marcus Weber, Stefanie Winkelmann PDF
BibTeX
URN
Sunkara, Vikram, Dr.
2020
Combining segmental bulk- and single-cell RNA-sequencing to define the chondrocyte gene expression signature in the murine knee joint bioarxiv (Accepted in Osteoarthr. Cartil.), 2020 Vikram Sunkara, Gitta A. Heinz, Frederik F. Heinrich, Pawel Durek, Ali Mobasheri, Mir-Farzin Mashreghi, Annemarie Lang BibTeX
DOI
Sunkara, Vikram, Dr.
HIF-stabilization prevents delayed fracture healing bioarxiv, 2020 (under review) Annemarie Lang, Sarah Helfmeier, Jonathan Stefanowski, Aditi Kuppe, Vikram Sunkara, Moritz Pfeiffenberger, Angelique Wolter, Alexandra Damerau, Shabnam Hemmati-Sadeghi, Jochen Ringe, Rainer Haag, Anja E. Hauser, Max Löhning, Carsten Perka, Georg Duda, Paula Hoff, Katharina Schmidt-Bleek, Timo Gaber, Frank Buttgereit BibTeX
DOI
Sunkara, Vikram, Dr.
How to calculate pH-dependent binding rates for receptor-ligand systems based on thermodynamic simulations with different binding motifs Molecular Simulation, 46(18), pp. 1443-1452, 2020 (preprint available as ZIB-Report 20-18) Sourav Ray, Vikram Sunkara, Christof Schütte, Marcus Weber PDF (ZIB-Report)
BibTeX
DOI
Sunkara, Vikram, Dr.
Single molecule mu-opioid receptor membrane-dynamics reveal agonist-specific dimer formation with super-resolved precision Nature Chemical Biology, Vol.16, pp. 946-954, 2020 Jan Möller, Ali Isbilir, Titiwat Sungkaworn, Brenda Osberg, Christos Karathanasis, Vikram Sunkara, Eugene O Grushevsky, Andreas Bock, Paolo Annibale, Mike Heilemann, Christof Schütte, Martin J. Lohse BibTeX
DOI
Sunkara, Vikram, Dr.
The relative contributions of infectious and mitotic spread to HTLV-1 persistence PLOS Computational Biology, 2020 Daniel J. Laydon, Vikram Sunkara, Lies Boelen, Charles R. M. Bangham, Becca Asquith BibTeX
DOI
Sunkara, Vikram, Dr.
2019
Algebraic Expressions of Conditional Expectations in Gene Regulatory Networks Journal of Mathematical Biology, pp. 1779-1829, 2019 Vikram Sunkara PDF
BibTeX
URN
DOI
Sunkara, Vikram, Dr.
Discerning the spatio-temporal disease patterns of surgically induced OA mouse models PLOS One, 14(4), 2019 Tobias Haase, Vikram Sunkara, Benjamin Kohl, Carola Meier, Patricia Bußmann, Jessica Becker, Michal Jagielski, Max von Kleist, Wolfgang Ertel BibTeX
DOI
Sunkara, Vikram, Dr.
On the Properties of the Reaction Counts Chemical Master Equation Entropy, 21(6), p. 607, 2019 Vikram Sunkara BibTeX
DOI
Sunkara, Vikram, Dr.
Pain and knee damage in male and female mice in the medial meniscal transection-induced osteoarthritis Osteoarthritis and Cartilage, 2019 Julia Temp, Dominika Labuz, Roger Negrete, Vikram Sunkara, Halina Machelska BibTeX
DOI
Sunkara, Vikram, Dr.
SLCV – A Supervised Learning - Computer Vision combined strategy for automated muscle fibre detection in cross sectional images PeerJ, 2019 Anika Rettig, Tobias Haase, Alexandr Pletnyov, Benjamin Kohl, Wolfgang Ertel, Max von Kleist, Vikram Sunkara PDF
BibTeX
URN
DOI
Sunkara, Vikram, Dr.