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Proteinortho: detection of (co-)orthologs in large-scale analysis

BMC bioinformatics, 2011-04, Vol.12 (1), p.124-124, Article 124

2011

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The primary transcriptome of the major human pathogen Helicobacter pylori

Nature (London), 2010-03, Vol.464 (7286), p.250-255

2010

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Applicability of a computational design approach for synthetic riboswitches

Nucleic acids research, 2017-04, Vol.45 (7), p.4108

2017

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Design of Artificial Riboswitches as Biosensors

Sensors (Basel, Switzerland), 2017-08, Vol.17 (9), p.1990

2017

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RNAblueprint: flexible multiple target nucleic acid sequence design

Bioinformatics (Oxford, England), 2017-09, Vol.33 (18), p.2850-2858

2017

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Ligand-dependent tRNA processing by a rationally designed RNase P riboswitch

Nucleic acids research, 2021-02, Vol.49 (3), p.1784-1800

2021

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De novo design of a synthetic riboswitch that regulates transcription termination

Nucleic acids research, 2013-02, Vol.41 (4), p.2541-2551

2013

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Synthetic riboswitches for the analysis of tRNA processing by eukaryotic RNase P enzymes

RNA (Cambridge), 2022-04, Vol.28 (4), p.551-567

2022

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Evolving methods for rational de novo design of functional RNA molecules

Methods (San Diego, Calif.), 2019-05, Vol.161, p.54-63

2019

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Common Features in lncRNA Annotation and Classification: A Survey

Non-coding RNA, 2021-12, Vol.7 (4), p.77

2021

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Genome-wide transcriptome analysis of the plant pathogen Xanthomonas identifies sRNAs with putative virulence functions

Nucleic acids research, 2012-03, Vol.40 (5), p.2020-2031

2012

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In silico design of ligand triggered RNA switches

Methods (San Diego, Calif.), 2018-07, Vol.143, p.90-101

2018

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Traces of post-transcriptional RNA modifications in deep sequencing data

Biological chemistry, 2011-04, Vol.392 (4), p.305-313

2011

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TSSAR: TSS annotation regime for dRNA-seq data

BMC bioinformatics, 2014-03, Vol.15 (1), p.89-89, Article 89

2014

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Beyond Plug and Pray: Context Sensitivity and in silico Design of Artificial Neomycin Riboswitches

RNA biology, 2021-04, Vol.18 (4), p.457-467

2021

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Design of Transcription Regulating Riboswitches

Methods in enzymology, 2015-01, Vol.550, p.1-22

2015

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Design criteria for synthetic riboswitches acting on transcription

RNA biology, 2015-01, Vol.12 (2), p.221-231

2015

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Tailored machine learning models for functional RNA detection in genome-wide screens

NAR genomics and bioinformatics, 2023-09, Vol.5 (3)

2023

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Optimization of parameters for coverage of low molecular weight proteins

Analytical & bioanalytical chemistry (Print), 2010-12, Vol.398 (7-8), p.2867-2881

2010

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Identification of new protein coding sequences and signal peptidase cleavage sites of Helicobacter pylori strain 26695 by proteogenomics

Journal of proteomics, 2013-06, Vol.86, p.27-42

2013

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Quantitative Characterization of Translational Riboregulators Using an in Vitro Transcription–Translation System

ACS synthetic biology, 2018-05, Vol.7 (5), p.1269-1278

2018

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Bioinformatics of prokaryotic RNAs

RNA biology, 2014-05, Vol.11 (5), p.470-483

2014

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Computational RNomics of drosophilids

BMC genomics, 2007-11, Vol.8 (1), p.406-406, Article 406

2007

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Mapping the RNA-Seq trash bin: Unusual transcripts in prokaryotic transcriptome sequencing data

RNA biology, 2013-07, Vol.10 (7), p.1204-1210

2013

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Assessing the Quality of Cotranscriptional Folding Simulations

Methods in molecular biology (Clifton, N.J.), 2024, Vol.2726, p.347

2024

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Proteinortho: detection of (co-)orthologs in large-scale analysis

The primary transcriptome of the major human pathogen Helicobacter pylori

Applicability of a computational design approach for synthetic riboswitches

Design of Artificial Riboswitches as Biosensors

RNAblueprint: flexible multiple target nucleic acid sequence design

Ligand-dependent tRNA processing by a rationally designed RNase P riboswitch

De novo design of a synthetic riboswitch that regulates transcription termination

Synthetic riboswitches for the analysis of tRNA processing by eukaryotic RNase P enzymes

Evolving methods for rational de novo design of functional RNA molecules

Common Features in lncRNA Annotation and Classification: A Survey

Genome-wide transcriptome analysis of the plant pathogen Xanthomonas identifies sRNAs with putative virulence functions

In silico design of ligand triggered RNA switches

Traces of post-transcriptional RNA modifications in deep sequencing data

TSSAR: TSS annotation regime for dRNA-seq data

Beyond Plug and Pray: Context Sensitivity and in silico Design of Artificial Neomycin Riboswitches

Design of Transcription Regulating Riboswitches

Design criteria for synthetic riboswitches acting on transcription

Tailored machine learning models for functional RNA detection in genome-wide screens

Optimization of parameters for coverage of low molecular weight proteins

Identification of new protein coding sequences and signal peptidase cleavage sites of Helicobacter pylori strain 26695 by proteogenomics

Quantitative Characterization of Translational Riboregulators Using an in Vitro Transcription–Translation System

Bioinformatics of prokaryotic RNAs

Computational RNomics of drosophilids

Mapping the RNA-Seq trash bin: Unusual transcripts in prokaryotic transcriptome sequencing data

Assessing the Quality of Cotranscriptional Folding Simulations

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