Pfold: RNA secondary structure prediction using stochastic context-free grammars

Bjarne Knudsen, Jotun Hein

Nucleic Acids Research

Structural BioinformaticsGeneticsMolecular BiologyGenomicsSequence Alignment +15

Next-Generation Sequencing of RNA and DNA Isolated from Paired Fresh-Frozen and Formalin-Fixed Paraffin-Embedded Samples of Human Cancer and Normal Tissue

Jakob Hedegaard, Kasper Thorsen, Mette K. Lund, +13

PLoS ONE

PathologyTranscriptomics TechnologyHigh Throughput SequencingNucleic Acid BiomarkersOncology +17

Neuronal Transcriptome of Aplysia: Neuronal Compartments and Circuitry

Leonid L. Moroz, John R. Edwards, Sathyanarayanan V. Puthanveettil, +20

Cell

Neuronal TranscriptomeMolecular NeuroscienceNeuroanatomyNeuroscienceNeurotransmission +5

Draft genome sequence of the rubber tree Hevea brasiliensis

Ahmad Yamin Abdul Rahman, Abhilash O Usharraj, Biswapriya B. Misra, +26

BMC Genomics

A likelihood ratio test for evolutionary rate shifts and functional divergence among proteins

Bjarne Knudsen, Michael M. Miyamoto

Proceedings of the National Academy of Sciences

Functional DivergenceGeneticsMyc ProteinsPhylogeneticsMolecular Ecology +18

Assembly and structural analysis of a covalently closed nano-scale DNA cage

Félicie F. Andersen, Bjarne Knudsen, Cristiano L. P. Oliveira, +15

Nucleic Acids Research

Statistical alignment: computational properties, homology testing and goodness-of-fit 1 1Edited by J. Karn

Jotun Hein, Carsten Wiuf, Bjarne Knudsen, +2

Journal of Molecular Biology

Functional GenomicsEngineeringGene RecognitionGeneticsJ. Karn +11

RNA Interactions in the 5′ Region of the HIV-1 Genome

Christian Kroun Damgaard, Ebbe Sloth Andersen, Bjarne Knudsen, +2

Journal of Molecular Biology

Viral ReplicationNatural SciencesGeneticsViral Polymerase MechanismHuman Retrovirus +8

First draft genome sequence of the Japanese eel, Anguilla japonica

Christiaan V. Henkel, Ron P. Dirks, Daniëlle L. de Wijze, +14

Gene

Asian AquacultureComparative GenomicsGeneticsGenomicsJapanese Eel +15

Role of the Trans-activation Response Element in Dimerization of HIV-1 RNA

Ebbe Sloth Andersen, Sonia Contera, Bjarne Knudsen, +3

Journal of Biological Chemistry

Trans-activation Response ElementViral ReplicationMolecular BiologyHiv-1 GenomeVirus Structure +16