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CBBP publications 2020-

2021

Tissue folding at the organ–meristem boundary results in nuclear compression and chromatin compaction
K. Fal, N. Korsbo, J. Alonso-Serra, J. Teles, M. Liu, Y. Refahi, M.E. Chabouté, H. Jönsson and O. Hamant
Proceedings of the National Academy of Sciences of the United States of America. 118, 8, e2017859118.

A quantitative model of cellular decision making in direct neuronal reprogramming.
A. Merlevede, E. Legault, V. Drugge, R.A. Barker, J. Drouin-Ouellet and V. Olariu
Scientific Reports 11, 1514 (2021)
HTML at journal ]

Multi-scale dynamical modeling of T cell development from an early thymic progenitor state to lineage commitment
V. Olariu, M.A. Yui, P. Krupinski, W. Zhou, J. Deichmann, E. Andersson, E.V. Rothenberg and C. Peterson
Cell Reports 34, 108622 (2021)
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2020

When a foreign gene meets its native counterpart: computational biophysics analysis of two PgiC loci in the grass Festuca ovina
Y. Li, S. Mohanty, D. Nilsson, B. Hansson, K. Mao and A. Irbäck
Scientific Reports 10, 18752 (2020)
HTML at journal ]

Predicting and elucidating the etiology of fatty liver disease: A machine learning modeling and validation study in the IMI DIRECT cohorts
N. Atabaki-Pasdar, M. Ohlsson, A. Viñuela, F. Frau, H. Pomares-Millan, M. Haid, A.G. Jones, E.L. Thomas, R.W. Koivula, A. Kurbasic, P.M. Mutie, H. Fitipaldi, J. Fernandez, A.Y. Dawed, G.N. Giordano, I.M. Forgie, T.J. McDonald, F. Rutters, H. Cederberg, E. Chabanova, M. Dale, F. De Masi, C.E. Thomas, K.H. Allin, T.H. Hansen, A. Heggie, M.-G. Hong, P.J.M. Elders, G. Kennedy, T. Kokkola, H. Krogh Pedersen, A. Mahajan, D. McEvoy, F. Pattou, V. Raverdy, R.S. Häussler, S. Sharma, H.S. Thomsen, J. Vangipurapu, H. Vestergaard, L.M. 't Hart, J. Adamski, P.B. Musholt, S. Brage, S. Brunak, E. Dermitzakis, G. Frost, T. Hansen, M. Laakso, O. Pedersen, M. Ridderstråle, H. Ruetten, A.T. Hattersley, M. Walker, J.W.J. Beulens, A. Mari, J.M. Schwenk, R. Gupta, M.I. McCarthy, E.R. Pearson, J.D. Bell, I. Pavo and P.W. Franks
PLoS Medicine 17, e1003149 (2020)
[ HTML at journal ] [ medRxiv ]

It's about time: Analysing simplifying assumptions for modelling multi-step pathways in systems biology
N. Korsbo and H. Jönsson
PLoS Computational Biology 16, e1007982 (2020)
[ HTML at journal ]

Pitfalls of medication adherence approximation through EHR and pharmacy records: Definitions, data and computation
A. Galozy, S. Nowaczyk, A. Sant’Anna, M. Ohlsson and M. Lingman
International Journal of Medical Informatics 136, 104092 (2020)
PDF at journal ]

Modelling protein target-search in human chromosomes
M. Nyberg, T. Ambjörnsson, P. Stenberg and L. Lizana
arXiv preprint arXiv:1909.09478
arXiv ]

Cultivation-free typing of bacteria using optical DNA mapping
V. Müller, M. Nyblom, A. Johnning, M. Wrande, A. Dvirnas, S. KK, C.G. Giske, T. Ambjörnsson, L. Sandegren, E. Kristiansson and F. Westerlund
ACS Infectious Diseases 6, 1076-1084 (2020)
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Perfect edge-transmitting recombination of permutations
A. Merlevede and C. Troein
arxiv.org doi, 2005.01113v1 (submitted)
arXiv ]

A quantitative model of cellular decision making in direct neuronal reprogramming.
A. Merlevede, V. Drugge, R.A. Barker, J. Drouin-Ouellet and V. Olariu
BioRxiv, doi: 10.1101/2020.02.04.933713, Submitted to Scientific Reports
BioRxiv ]

Finite-size scaling analysis of protein droplet formation
D. Nilsson and A. Irbäck
Physical Review E 101, 022413 (2020)
HTML at journal ]

OCTAVVS: A graphical toolbox for high-throughput preprocessing and analysis of vibrational spectroscopy imaging data
C. Troein, S. Siregar, M. Op De Beeck, C. Peterson, A. Tunlid and P. Persson
Methods and Protocols 3, 34 (2020)
Abstract ] [ BioRxiv ]

Regulation of fungal decomposition at single-cell level
M. Op De Beeck, C. Troein, S. Siregar, L. Gentile, G. Abbondanza, C. Peterson, P. Persson and A. Tunlid
The ISME Journal 14 896-905 (2020)
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