Sunkara, Dr. Vikram

Position:

Head of Research Group

Room:

4024

Division:

Mathematics of Complex Systems

Department:

Visual and Data-centric Computing

Research group:

Explainable AI for Biology

Mail:

sunkara

zib.de

Phone:

+49 30 841 85 - 432

Fax:

+49 30 841 85 - 107

Publications

2021 2020 2019

2021
Vikram Sunkara, Gitta A. Heinz, Frederik F. Heinrich, Pawel Durek, Ali Mobasheri, Mir-Farzin Mashreghi, Annemarie Lang	Combining segmental bulk- and single-cell RNA-sequencing to define the chondrocyte gene expression signature in the murine knee joint	Osteoarthritis and Cartilage, 2021	BibTeX DOI
Alexia N. Raharinirina, Felix Peppert, Max von Kleist, Christof Schütte, Vikram Sunkara	Inferring gene regulatory networks from single-cell RNA-seq temporal snapshot data requires higher-order moments	Patterns, 2(9), 2021	BibTeX DOI
Sourav Ray, Arne Thies, Vikram Sunkara, M. Özgür Celik, Fatih Yergöz, Christof Schütte, Christoph Stein, Marcus Weber, Stefanie Winkelmann	Modelling altered signalling of G-protein coupled receptors in inflamed environment to advance drug design	eLife, 2021 (under review, preprint available as ZIB-Report 21-19)	PDF (ZIB-Report) BibTeX
Felix Peppert, Max von Kleist, Christof Schütte, Vikram Sunkara	On the Sufficient Condition for Solving the Gap-Filling Problem Using Deep Convolutional Neural Networks	IEEE Transactions on Neural Networks and Learning Systems, 2021 (in press)	BibTeX DOI
2020
Vikram Sunkara, Gitta A. Heinz, Frederik F. Heinrich, Pawel Durek, Ali Mobasheri, Mir-Farzin Mashreghi, Annemarie Lang	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	BibTeX DOI
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 N. Duda, Paula Hoff, Katharina Schmidt-Bleek, Timo Gaber, Frank Buttgereit	HIF-stabilization prevents delayed fracture healing	bioarxiv, 2020 (under review)	BibTeX DOI
Sourav Ray, Vikram Sunkara, Christof Schütte, Marcus Weber	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	BibTeX DOI URN
Sourav Ray, Vikram Sunkara, Christof Schütte, Marcus Weber	How to calculate pH-dependent binding rates for receptor-ligand systems based on thermodynamic simulations with different binding motifs	ZIB-Report 20-18 (Molecular Simulation, 46:18, 1443-1452)	PDF BibTeX DOI URN
Vikram Sunkara, N. Alexia Raharinirina, Felix Peppert, Max von Kleist, Christof Schütte	Inferring Gene Regulatory Networks from Single Cell RNA-seq Temporal Snapshot Data Requires Higher Order Moments	ZIB-Report 20-25	PDF BibTeX URN
Felix Peppert, Max von Kleist, Christof Schütte, Vikram Sunkara	On the sufficient condition for solving the gap-filling problem using deep convolutional neural networks	IEEE Transactions on Neural Networks and Learning Systems, 2020 (accepted for publication on 2021-03-30)	BibTeX
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	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	BibTeX DOI
Daniel J. Laydon, Vikram Sunkara, Lies Boelen, Charles R. M. Bangham, Becca Asquith	The relative contributions of infectious and mitotic spread to HTLV-1 persistence	PLOS Computational Biology, 2020	BibTeX DOI
2019
Vikram Sunkara	Algebraic Expressions of Conditional Expectations in Gene Regulatory Networks	Journal of Mathematical Biology, pp. 1779-1829, 2019	PDF BibTeX URN DOI
Tobias Haase, Vikram Sunkara, Benjamin Kohl, Carola Meier, Patricia Bußmann, Jessica Becker, Michal Jagielski, Max von Kleist, Wolfgang Ertel	Discerning the spatio-temporal disease patterns of surgically induced OA mouse models	PLOS One, 14(4), 2019	BibTeX DOI
Vikram Sunkara	On the Properties of the Reaction Counts Chemical Master Equation	Entropy, 21(6), p. 607, 2019	BibTeX DOI
Julia Temp, Dominika Labuz, Roger Negrete, Vikram Sunkara, Halina Machelska	Pain and knee damage in male and female mice in the medial meniscal transection-induced osteoarthritis	Osteoarthritis and Cartilage, 2019	BibTeX DOI
Anika Rettig, Tobias Haase, Alexandr Pletnyov, Benjamin Kohl, Wolfgang Ertel, Max von Kleist, Vikram Sunkara	SLCV – A Supervised Learning - Computer Vision combined strategy for automated muscle fibre detection in cross sectional images	PeerJ, 2019	PDF BibTeX URN DOI