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Prof. Dr. Olga Kalinina

Über

Olga Kalinina erhielt ihren Master of Science Abschluss mit Auszeichnung in Mathematik von der Moskauer Staatsuniversität im Jahr 2003 und ihre Promotion 2007 vom Engelhardt-Institut für Molekularbiologie der Russischen Akademie der Wissenschaften. Sie forschte als Postdoktorandin am European Laboratory for Molecular Biology weiter und erhielt dafür ein EMBO Long Term Fellowship der European Molecular Biology Organization und später an der Universität Heidelberg in Zusammenarbeit mit Prof. Dr. Robert B. Russell (2007-2011). 2012 gründete sie ihre eigenständige Nachwuchsgruppe am Max-Planck-Institut für Informatik in der Abteilung für Computational Biology und Applied Algorithmics unter der Leitung von Prof. Dr. Dr. Thomas Lengauer, wo sie bis 2018. 


2024

Elucidation of unusual biosynthesis and DnaN-targeting mode of action of potent anti-tuberculosis antibiotics Mycoplanecins

Fu C, Liu Y, Walt C, Rasheed S, Bader C, Lukat P, Neuber M, Haeckl F, Blankenfeldt W, Kalinina O, Müller R (2024)

Nat Commun 15 (1)DOI: 10.1038/s41467-024-44953-5

2023

Artificial intelligence for natural product drug discovery

Mullowney M, Duncan K, Elsayed S, Garg N, van der Hooft J, Martin N, Meijer D, Terlouw B, Biermann F, Blin K, …, Robinson S, Medema M (2023)

Nat Rev Drug DiscovDOI: 10.1038/s41573-023-00774-7

Unusual peptide-binding proteins guide pyrroloindoline alkaloid formation in crocagin biosynthesis

Adam S, Zheng D, Klein A, Volz C, Mullen W, Shirran S, Smith B, Kalinina O, Müller R, Koehnke J (2023)

Nature chemistry 15 (4): 560-568DOI: 10.1038/s41557-023-01153-w

Insights into the biosynthesis of icumazole, unveiling a distinctive family of crotonyl-CoA carboxylase/reductase

Xie F, Kiefer A, Hirsch A, Kalinina O, Fu C, Müller R (2023)

Cell Reports Physical Science 4 (5)DOI: 10.1016/j.xcrp.2023.101394

2020

A hydrogel-based in vitro assay for the fast prediction of antibiotic accumulation in Gram-negative bacteria

Richter R, Kamal M, García-Rivera M, Kaspar J, Junk M, Elgaher W, Srikakulam S, Gress A, Beckmann A, Grißmer A, …, Schneider-Daum N, Lehr C (2020)

Materials today. Bio 8DOI: 10.1016/j.mtbio.2020.100084

An extended catalogue of tandem alternative splice sites in human tissue transcriptomes

Mironov A, Denisov S, Gress A, Kalinina O, Pervouchine D (2020)

BookDOI: 10.1101/2020.09.11.292722

The bottromycin epimerase BotH defines a group of atypical α/β-hydrolase-fold enzymes

Sikandar A, Franz L, Adam S, Santos-Aberturas J, Horbal L, Luzhetskyy A, Truman A, Kalinina O, Koehnke J (2020)

Nat Chem Biol 16 (9): 1013-1018DOI: 10.1038/s41589-020-0569-y

DIGGER: exploring the functional role of alternative splicing in protein interactions

Louadi Z, Yuan K, Gress A, Tsoy O, Kalinina O, Baumbach J, Kacprowski T, List M (2020)

Nucleic Acids ResDOI: 10.1093/nar/gkaa768

Frequent subgraph mining for biologically meaningful structural motifs

Keller S, Miettinen P, Kalinina O (2020)

BookDOI: 10.1101/2020.05.14.095695

SphereCon-a method for precise estimation of residue relative solvent accessible area from limited structural information

Gress A, Kalinina O (2020)

Bioinformatics (Oxford, England) 36 (11): 3372-3378DOI: 10.1093/bioinformatics/btaa159

Resistance-associated substitutions in patients with chronic hepatitis C virus genotype 4 infection

Dietz J, Kalinina O, Vermehren J, Peiffer K, Matschenz K, Buggisch P, Niederau C, Schattenberg J, Müllhaupt B, Yerly S, …, Welsch C, Sarrazin C (2020)

J. Viral Hepat.DOI: 10.1111/jvh.13322.

Non-active site mutants of HIV-1 protease influence resistance and sensitisation towards protease inhibitors

Bastys T, Gapsys V, Walter H, Heger E, Doncheva N, Kaiser R, Groot B, Kalinina O (2020)

Retrovirology 17 (1)DOI: 10.1186/s12977-020-00520-6

A shift of dynamic equilibrium between the KIT active and inactive states causes drug resistance

Srikakulam S, Bastys T, Kalinina O (2020)

ProteinsDOI: 10.1002/prot.25963

2019

Relative Principal Components Analysis: Application to Analyzing Biomolecular Conformational Changes

Ahmad M, Helms V, Kalinina O, Lengauer T (2019)

Journal of chemical theory and computation 15 (4): 2166-2178DOI: 10.1021/acs.jctc.8b01074

Adenosine-to-Inosine RNA Editing in Mouse and Human Brain Proteomes

Levitsky L, Kliuchnikova A, Kuznetsova K, Karpov D, Ivanov M, Pyatnitskiy M, Kalinina O, Gorshkov M, Moshkovskii S (2019)

Proteomics 19 (23)DOI: 10.1002/pmic.201900195.

Targeting actin inhibits repair of doxorubicin-induced DNA damage: a novel therapeutic approach for combination therapy

Pfitzer L, Moser C, Gegenfurtner F, Arner A, Foerster F, Atzberger C, Zisis T, Kubisch-Dohmen R, Busse J, Smith R, …, Vollmar A, Zahler S (2019)

Cell Death Dis. 10 (4)DOI: 10.1038/s41419-019-1546-9

2018

Epistatic Interactions in NS5A of Hepatitis C Virus Suggest Drug Resistance Mechanisms

Knops E, Sierra S, Kalaghatgi P, Heger E, Kaiser R, Kalinina O (2018)

Genes 9 (7)DOI: 10.3390/genes9070343

Consistent Prediction of Mutation Effect on Drug Binding in HIV-1 Protease Using Alchemical Calculations

Bastys T, Gapsys V, Doncheva N, Kaiser R, Groot B, Kalinina O (2018)

Journal of chemical theory and computation 14 (7): 3397-3408DOI: 10.1021/acs.jctc.7b01109

Adaptation of a Bacterial Multidrug Resistance System Revealed by the Structure and Function of AlbA

Sikandar A, Cirnski K, Testolin G, Volz C, Brönstrup M, Kalinina O, Müller R, Koehnke J (2018)

J. Am. Chem. Soc. 140 (48): 16641-16649DOI: 10.1021/jacs.8b08895

2017

Spatial distribution of disease-associated variants in three-dimensional structures of protein complexes

Gress A, Ramensky V, Kalinina O (2017)

Oncogenesis 6 (9)DOI: 10.1038/oncsis.2017.79.

2016

Patterns of amino acid conservation in human and animal immunodeficiency viruses

Voitenko O, Dhroso A, Feldmann A, Korkin D, Kalinina O (2016)

Bioinformatics (Oxford, England) 32 (17): 685-DOI: 10.1093/bioinformatics/btw441

StructMAn: annotation of single-nucleotide polymorphisms in the structural context

Gress A, Ramensky V, Büch J, Keller A, Kalinina O (2016)

Nucleic Acids Res 44 (W1): 463-8DOI: 10.1093/nar/gkw364

BALL-SNPgp-from genetic variants toward computational diagnostics

Mueller S, Backes C, Gress A, Baumgarten N, Kalinina O, Moll A, Kohlbacher O, Meese E, Keller A (2016)

Bioinformatics (Oxford, England) 32 (12): 1888-90DOI: 10.1093/bioinformatics/btw084