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A Smoothed Particle Hydrodynamics Mini-App for Exascale
Aurélien Cavelan, Rubén M. Cabezón, Michal Grabarczyk, Florina M. Ciorba
PASC '20: Proceedings of the Platform for Advanced Scientific Computing Conference, June 2020, Article No.: 11, Pages 1–11
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SPHN – The BioMedIT Network: A Secure IT Platform for Research with Sensitive Human Data
Diana Coman Schmid, Katrin Crameri, Sabine Oesterle, Bernd Rinn, Thierry Sengstag and Heinz Stockinger, on behalf of the BioMedIT network team
Studies in Health Technology and Informatics; Volume 270: Digital Personalized Health and Medicine, 2020,  Pages 1170 - 1174
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Gene regulatory and expression differences between mouse and pig limb buds provide insights into the evolutionary emergence of artiodactyl traits
Virginie Tissières, Florian Geier, Barbara Kessler, Eckhard Wolf, Rolf Zeller, Javier Lopez-Rios
Cell Reports, Volume 31, Issue 1, April 2020, 107490
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Genomic release-recapture experiment in the wild reveals within-generation polygenic selection in stickleback fish
Telma G. Laurentino, Dario Moser, Marius Roesti, Matthias Ammann, Anja Frey, Fabrizia Ronco, Benjamin Kueng & Daniel Berner
Nature Communications volume 11, Article number: 1928 (2020)
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QMEANDisCo—distance constraints applied on model quality estimation
Gabriel Studer, Christine Rempfer, Andrew M Waterhouse, Rafal Gumienny, Juergen Haas, Torsten Schwede
Bioinformatics, Volume 36, Issue 6, 15 March 2020, Pages 1765–1771
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Microbiota-induced tissue signals regulate ILC3-mediated antigen presentation
Frank Michael Lehmann, Nicole von Burg, Robert Ivanek, Claudia Teufel, Edit Horvath, Annick Peter, Gleb Turchinovich, Daniel Staehli, Tobias Eichlisberger, Mercedes Gomez de Agüero, Mairene Coto-Llerena, Michaela Prchal-Murphy, Veronika Sexl, Mohamed Bentires-Alj, Christoph Mueller & Daniela Finke
Nature Communications 11, 1794 (2020)
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A rare codon-based translational program of cell proliferation
Joao C. Guimaraes, Nitish Mittal, Alexandra Gnann, Dominik Jedlinski, Andrea Riba, Katarzyna Buczak, Alexander Schmidt, Mihaela Zavolan
Genome Biol 21, 44 (2020)
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Assessing the impact of aggregating disease stage data in model predictions of human African trypanosomiasis transmission and control activities in Bandundu province (DRC)
María Soledad Castaño, Martial L. Ndeffo-Mbah, Kat S. Rock, Cody Palmer, Edward Knock, Erick Mwamba Miaka, Joseph M. Ndung’u, Steve Torr, Paul Verlé, Simon E. F. Spencer, Alison Galvani, Caitlin Bever, Matt J. Keeling, Nakul Chitnis
PLOS Neglected Tropical Diseases, 2020
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Screening Strategies for a Sustainable Endpoint for Gambiense Sleeping Sickness
M. Soledad Castaño, Maryam Aliee, Erick Mwamba Miaka, Matt J. Keeling, Nakul Chitnis, Kat S. Rock
The Journal of Infectious Diseases, jiz588, 2019
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Spatial Effects of Permethrin-Impregnated Bed Nets on Child Mortality: 26 Years on, a Spatial Reanalysis of a Cluster Randomized Trial
Christopher I. Jarvis, Lea Multerer, Daniel Lewis, Fred Binka, W. John Edmunds, Neal Alexander and Thomas A. Smith
The American Journal of Tropical Medicine and Hygiene, 2019
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P4T-DOTA – a lanthanide chelating tag combining a sterically highly overcrowded backbone with a reductively stable linker
Daniel Joss, Dr. Daniel Häussinger
Chem. Commun., 2019, 55, 10543-10546, DOI: 10.1039/C9CC04676C
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A Sterically Overcrowded, Isopropyl‐Substituted, Lanthanide‐Chelating Tag for Protein Pseudocontact Shift NMR Spectroscopy: Synthesis of its Macrocyclic Scaffold and Benchmarking on Ubiquitin S57 C and hCA II S166 C
Daniel Joss, Maria‐Sophie Bertrams, Dr. Daniel Häussinger
Chem. Eur. J. 2019, 25, 11910–11917, DOI: 10.1002/chem.201901692
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Evidence for carbon clusters present near thermal gate oxides affecting the electronic band structure in SiC-MOSFET
D. Dutta, D. S. De, D. Fan, S. Roy, G. Alfieri, M. Camarda, M. Amsler, J. Lehmann, H. Bartolf, S. Goedecker, T. A. Jung
Appl. Phys. Lett. 115, 101601 (2019) , DOI: 10.1063/1.5112779
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Landscape of ribosome-engaged transcript isoforms reveals extensive neuronal cell class-specific alternative splicing programs.
Elisabetta Furlanis, Lisa Traunmüller, Geoffrey Fucile, Peter Scheiffele.
Nature Neuroscience (2019), DOI: 10.1038/s41593-019-0465-5
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Vision using multiple distinct rod opsins in deep-sea fishes.
Musilova Z, Cortesi F, Matschiner M, Davies WIL, Patel JS, Stieb SM, de Busserolles F, Malmstrom M, Torresen OK, Brown CJ, Mountford JK, Hanel R, Stenkamp DL, Jakobsen KS, Carleton KL, Jentoft S, Marshall J, Salzburger W
Science. 2019 May 10; 364(6440):588-592
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Predicting emotional arousal and emotional memory performance from an identical brain network.
Loos E, Egli T, Coynel D, Fastenrath M, Freytag V, Papassotiropoulos A, de Quervain DJ, Milnik A
Neuroimage. 2019 Apr 1;189:459-467
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Asymmetric distribution of glucose transporter mRNA provides a growth advantage in yeast.
Stahl T, Hümmer S, Ehrenfeuchter N, Mittal N, Fucile G, Spang A
The EMBO Journal (2019) e100373
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Neutrophils escort circulating tumour cells to enable cell cycle progression.
Szczerba BM, Castro-Giner F, Vetter M, Krol I, Gkountela S, Landin J, Scheidmann MC, Donato C, Scherrer R, Singer J, Beisel C, Kurzeder C, Heinzelmann-Schwarz V, Rochlitz C, Weber WP, Beerenwinkel N, Aceto N
Nature. 2019 Feb;566(7745):553-557.
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Operators in quantum machine learning: Response properties in chemical space.
Christensen AS, Faber FA, von Lilienfeld OA
J Chem Phys. 2019 Feb 14;150(6):064105
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Microbiome-based body fluid identification of samples exposed to indoor conditions.
Dobay A, Haas C, Fucile G, Downey N, Morrison HG, Kratzer A, Arora N
Forensic Sci Int Genet. 2019 Feb 11;40:105-113.
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Repeated Evolution Versus Common Ancestry: Sex Chromosome Evolution in the Haplochromine Cichlid Pseudocrenilabrus philander.
Böhne A, Weber AA, Rajkov J, Rechsteiner M, Riss A, Egger B, Salzburger W
Genome Biol Evol. 2019 Feb 1;11(2):439-458.
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Mechanical Stabilization of Helical Chirality in a Macrocyclic Oligothiophene.
Weiland KJ, Brandl T, Atz K, Prescimone A, Häussinger D, Šolomek T, Mayor M
J Am Chem Soc. 2019 Feb 6;141(5):2104-2110.
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sciCORE cluster back online

May 26, 2020

After careful analysis of the Spring 2020 cyber-attack, the main sciCORE cluster has been cleared, updated, and is now back online for production.

We thank you for your understanding and your patience.


sciCORE is supporting SARS-CoV-2 research

February 2020

sciCORE is supporting researchers at the University of Basel, Swiss TPH and University Hospital Basel who are taking part in the global effort to fight the COVID-19 pandemic. We support in particular the research groups of prof. Richard Neher, prof. Melissa Penny, prof. Adrian Egli and prof. Torsten Schwede by providing HPC computing infrastructure necessary for their modelling, simulations and analyses.