R. Lorenz

发表

Predicting RNA secondary structures from sequence and probing data.

Michael T. Wolfinger, Andrea Tanzer, I. Hofacker, 2016, Methods.

CUDA RNAfold

W. Langdon, R. Lorenz, 2018, bioRxiv.

RNA Secondary Structures with Limited Base Pair Span: Exact Backtracking and an Application

P. Stadler, R. Lorenz, 2020, Genes.

Nematode sbRNAs: Homologs of Vertebrate Y RNAs

Andrea Tanzer, P. Stadler, I. Hofacker, 2010, Journal of Molecular Evolution.

Animal snoRNAs and scaRNAs with exceptional structures

Andrea Tanzer, P. Stadler, I. Hofacker, 2011, RNA biology.

Efficient Computation of Base-pairing Probabilities in Multi-strand RNA Folding

Peter F. Stadler, Ronny Lorenz, Christoph Flamm, 2020, BIOINFORMATICS.

RNA Folding Algorithms with G-Quadruplexes

Peter F. Stadler, Ronny Lorenz, Stephan H. Bernhart, 2012, BSB.

Model-Free RNA Sequence and Structure Alignment Informed by SHAPE Probing Reveals a Conserved Alternate Secondary Structure for 16S rRNA

Ge Zhang, Ronny Lorenz, Ivo L. Hofacker, 2015, PLoS Comput. Biol..

ViennaRNA Package 2.0

Peter F. Stadler, Ronny Lorenz, Stephan H. Bernhart, 2011, Algorithms for Molecular Biology.

The Vienna RNA Websuite

Ronny Lorenz, Stephan H. Bernhart, Ivo L. Hofacker, 2008, Nucleic Acids Res..

The ViennaRNA web services.

Ronny Lorenz, Andreas R Gruber, Stephan H Bernhart, 2015, Methods in molecular biology.

RNAxplorer: harnessing the power of guiding potentials to sample RNA landscapes

Ronny Lorenz, Ivo L. Hofacker, Andrea Tanzer, 2021, Bioinform..

RNAxplorer: Harnessing the Power of Guiding Potentials for Sampling of RNA Landscapes

Andrea Tanzer, I. Hofacker, Y. Ponty, 2020, bioRxiv.

Asymmetry of stem cell fate and the potential impact of the niche

Ingo Roeder, Ronny Lorenz, R. Lorenz, 2006, Stem Cell Reviews.

RNA folding with hard and soft constraints

P. Stadler, I. Hofacker, R. Lorenz, 2016, Algorithms for Molecular Biology.

2D Projections of RNA Folding Landscapes

Ronny Lorenz, Christoph Flamm, Ivo L. Hofacker, 2009, GCB.

DrTransformer: heuristic cotranscriptional RNA folding using the nearest neighbor energy model

I. Hofacker, R. Lorenz, Stefan Badelt, 2022, bioRxiv.

Design criteria for synthetic riboswitches acting on transcription

Ronny Lorenz, Sven Findeiß, Peter F Stadler, 2015, RNA biology.

Folding RNA/DNA hybrid duplexes

Ronny Lorenz, Stephan H. Bernhart, Ivo L. Hofacker, 2012, Bioinform..

TSSAR: TSS annotation regime for dRNA-seq data

Peter F. Stadler, Ronny Lorenz, Ivo L. Hofacker, 2014, BMC Bioinformatics.

2D Meets 4G: G-Quadruplexes in RNA Secondary Structure Prediction

Peter F. Stadler, Ronny Lorenz, Stephan H. Bernhart, 2013, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

SHAPE directed RNA folding

Peter F. Stadler, Ronny Lorenz, Ivo L. Hofacker, 2015, bioRxiv.

RNA modifications in structure prediction - Status quo and future challenges.

Ronny Lorenz, Ivo L Hofacker, Andrea Tanzer, 2019, Methods.

TSSAR: TSS annotation regime for dRNA-seq

Peter F. Stadler, Ronny Lorenz, Ivo L. Hofacker, 2014 .

Predicting RNA structure: advances and limitations.

Ronny Lorenz, Ivo L Hofacker, I. Hofacker, 2014, Methods in molecular biology.

Non-Redundant Sampling and Statistical Estimators for RNA Structural Properties at the Thermodynamic Equilibrium

Yann Ponty, Christelle Rovetta, Ronny Lorenz, 2019 .

Evolving AVX512 Parallel C Code Using GP

William B. Langdon, Ronny Lorenz, W. Langdon, 2019, EuroGP.

Improving SSE parallel code with grow and graft genetic programming

William B. Langdon, Ronny Lorenz, W. Langdon, 2017, GECCO.

Caveats to Deep Learning Approaches to RNA Secondary Structure Prediction

Michael T. Wolfinger, I. Hofacker, C. Flamm, 2021, bioRxiv.

Stem Cell Fate Analysis Revisited: Interpretation of Individual Clone Dynamics in the Light of a New Paradigm of Stem Cell Organization

M. Loeffler, R. Lorenz, I. Roeder, 2007, Journal of biomedicine & biotechnology.

Evolving Better RNAfold Structure Prediction

William B. Langdon, Justyna Petke, Ronny Lorenz, 2018, EuroGP.

ViennaRNA Package 2.0

P. Stadler, I. Hofacker, C. Flamm, 2011, Algorithms for Molecular Biology : AMB.

A novel view on stem cell development: analysing the shape of cellular genealogies

D Hasenclever, D. Hasenclever, I. Glauche, 2009, Cell proliferation.

ViennaRNA Package 2.0

P. Stadler, I. Hofacker, C. Flamm, 2011, Algorithms for Molecular Biology : AMB.

Mono-valent salt corrections for RNA secondary structures in the ViennaRNA package

P. Stadler, I. Hofacker, R. Lorenz, 2023, Algorithms for Molecular Biology.

A guide to computational cotranscriptional folding featuring the SRP RNA

R. Lorenz, Stefan Badelt, Ronny Lorenz, 2023, bioRxiv.