Article

Cell type atlas and lineage tree of a whole complex animal by single-cell transcriptomics.
Plass, M. ORCID: https://orcid.org/0000-0002-9891-2723, Solana, J. ORCID: https://orcid.org/0000-0002-6770-3929, Wolf, F.A., Ayoub, S. ORCID: https://orcid.org/0000-0001-5043-8922, Misios, A., Glažar, P. ORCID: https://orcid.org/0000-0003-0842-0088, Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Theis, F.J., Kocks, C. ORCID: https://orcid.org/0000-0003-1749-3334 and Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332
Science 360 (6391): eaaq1723. 25 May 2018

Viral infection identifies micropeptides differentially regulated in smORF-containing lncRNAs.
Razooky, B.S. ORCID: https://orcid.org/0000-0002-5263-1512, Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, O'May, J.B. and Tarakhovsky, A.
Genes 8 (8): 206. 21 August 2017

Detecting actively translated open reading frames in ribosome profiling data.
Calviello, L. ORCID: https://orcid.org/0000-0002-5600-0988, Mukherjee, N. ORCID: https://orcid.org/0000-0003-0017-1400, Wyler, E. ORCID: https://orcid.org/0000-0002-9884-1806, Zauber, H. ORCID: https://orcid.org/0000-0003-2595-1147, Hirsekorn, A., Selbach, M. ORCID: https://orcid.org/0000-0003-2454-8751, Landthaler, M. ORCID: https://orcid.org/0000-0002-1075-8734, Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Ohler, U. ORCID: https://orcid.org/0000-0002-0881-3116
Nature Methods 13 (2): 165-170. February 2016

Extensive identification and analysis of conserved small ORFs in animals.
Mackowiak, S.D. ORCID: https://orcid.org/0000-0003-1673-5389, Zauber, H. ORCID: https://orcid.org/0000-0003-2595-1147, Bielow, C. ORCID: https://orcid.org/0000-0001-5756-3988, Thiel, D. ORCID: https://orcid.org/0000-0001-8677-2420, Kutz, K., Calviello, L. ORCID: https://orcid.org/0000-0002-5600-0988, Mastrobuoni, G. ORCID: https://orcid.org/0000-0003-4509-1295, Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332, Kempa, S. ORCID: https://orcid.org/0000-0002-0696-9299, Selbach, M. ORCID: https://orcid.org/0000-0003-2454-8751 and Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X
Genome Biology 16 : 179. 14 September 2015

Inverse Ising inference with correlated samples.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Levine, E.
New Journal of Physics 16 : 123017. 8 December 2014

Exploring the miRNA regulatory network using evolutionary correlations.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Levine, E.
PLoS Computational Biology 10 (10): e1003860. 9 October 2014

Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation.
Bazzini, A.A., Johnstone, T.G., Christiano, R., Mackowiak, S.D. ORCID: https://orcid.org/0000-0003-1673-5389, Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Fleming, E.S., Vejnar, C.E., Lee, M.T., Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332, Walther, T.C. and Giraldez, A.J.
EMBO Journal 33 (9): 981-993. 2 May 2014

Dynamics of a semiflexible polymer or polymer ring in shear flow.
Lang, P.S., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Frey, E.
Physical Review E 89 (2): 022606. 27 February 2014

Cascade of reduced speed and accuracy after errors in enzyme-free copying of nucleic acid sequences.
Leu, K., Kervio, E., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Turk-MacLeod, R.M., Yuan, C., Luevano, J.M., Chen, E., Gerland, U., Richert, C. and Chen, I.A.
Journal of the American Chemical Society 135 (1): 354-366. 9 January 2013

The prebiotic evolutionary advantage of transferring genetic information from RNA to DNA.
Leu, K., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Rajamani, S., Gerland, U. and Chen, I.A.
Nucleic Acids Research 39 (18): 8135-8147. October 2011

Emergence of information transmission in a prebiotic RNA reactor.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Krammer, H., Braun, D. and Gerland, U.
Physical Review Letters 107 (1): 018101. 1 July 2011

Longitudinal response of confined semiflexible polymers.
Thueroff, F., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Frey, E.
Physical Review E 83 (2 Pt 1): 021802. February 2011

Error thresholds for self- and cross-specific enzymatic replication.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Frey, E.
Journal of Theoretical Biology 267 (4): 653-662. 21 December 2010

Escalation of error catastrophe for enzymatic self-replicators.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Frey, E.
Europhysics Letters 88 (4): 48006. November 2009

Tension dynamics and viscoelasticity of extensible wormlike chains.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Frey, E.
Physical Review E 80 (4 Pt 1): 040801. October 2009

Freely relaxing polymers remember how they were straightened.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Moebius, W., Hallatschek, O., Frey, E. and Kroy, K.
Physical Review E 79 (2 Pt 1): 021804. February 2009

Coupling of transverse and longitudinal response in stiff polymers.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Hallatschek, O.
Physical Review Letters 99 (9): 098302. 31 August 2007

Stretching dynamics of semiflexible polymers.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Hallatschek, O., Frey, E. and Kroy, K.
European Physical Journal E 23 (4): 375-388. August 2007

The shape of barchan dunes.
Kroy, K., Fischer, S. and Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X
Journal Of Physics: Condensed Matter 17 (14): S1229-S1235. 13 April 2005

Stress-energy tensor for a massless spin 1/2 field in static black hole spacetimes.
Carlson, E.D., Hirsch, W.H., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Anderson, P.R. and Groves, P.B.
Physical Review Letters 91 (5): 051301. 1 August 2003

Book Section

Toward living nanomachines.
Mast, C., Möller, F., Kreysing, M., Schink, S., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Gerland, U. and Braun, D.
In: Living machines: a handbook of research in biomimetics and biohybrid systems. Oxford University Press, Oxford, 380-389. ISBN 9780199674923 2018

Letter

The paradox of dual roles in the RNA world: resolving the conflict between stable folding and templating ability.
Ivica, N.A., Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X, Campbell, G.W., Rajamani, S., Gerland, U. and Chen, I.A.
Journal of Molecular Evolution 77 (3): 55-63. September 2013

Editorial

Mixed messages: re-initiation factors regulate translation of animal mRNAs.
Obermayer, B. ORCID: https://orcid.org/0000-0002-9116-630X and Rajewsky, N. ORCID: https://orcid.org/0000-0002-4785-4332
Cell Research 24 (12): 1383-1384. December 2014