Free Energy Cost of Stretching mRNA Hairpin Loops Inhibits Small RNA Binding von Meng, Yuzhong, Aalberts, Daniel P.

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Codon influence on protein expression in E. coli correlates with mRNA levels von Boël, Grégory, Letso, Reka, Neely, Helen, Price, W. Nicholson, Wong, Kam-Ho, Su, Min, Luff, Jon D., Valecha, Mayank, Everett, John K., Acton, Thomas B., Xiao, Rong, Montelione, Gaetano T., Aalberts, Daniel P., Hunt, John F.

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The Four mRNA Bases Have Quite Different (Un)folding Free Energies, Applications to RNA Splicing and Translation Initiation with BindOligoNet von Hess, Julian M., Jannen, William K., Aalberts, Daniel P.

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Loop Entropy Assists Tertiary Order: Loopy Stabilization of Stacking Motifs von Aalberts, Daniel P

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A two-length-scale polymer theory for RNA loop free energies and helix stacking von Aalberts, Daniel P, Nandagopal, Nagarajan

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The new strategies to overcome challenges in protein production in bacteria von Lipońska, Anna, Ousalem, Farès, Aalberts, Daniel P., Hunt, John F., Boël, Grégory

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The absence of the queuosine tRNA modification leads to pleiotropic phenotypes revealing perturbations of metal and oxidative stress homeostasis in Escherichia coli K12 von Pollo-Oliveira, Leticia, Davis, Nick K, Hossain, Intekhab, Ho, Peiying, Yuan, Yifeng, Salguero García, Pedro, Pereira, Cécile, Byrne, Shane R, Leng, Jiapeng, Sze, Melody, Blaby-Haas, Crysten E, Sekowska, Agnieszka, Montoya, Alvaro, Begley, Thomas, Danchin, Antoine, Aalberts, Daniel P, Angerhofer, Alexander, Hunt, John, Conesa, Ana, Dedon, Peter C, de Crécy-Lagard, Valérie

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Visualizing RNA base-pairing probabilities with RNAbow diagrams von Aalberts, Daniel P, Jannen, William K

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Codon Clarity or Conundrum? von Aalberts, Daniel P., Boël, Gregory, Hunt, John F.

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Asymmetry in RNA pseudoknots: observation and theory von Aalberts, Daniel P., Hodas, Nathan O.

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A vision for ultrafast photoisomerization von Aalberts, Daniel P., Stabenau, Hans F.

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Single-Strand Stacking Free Energy from DNA Beacon Kinetics von Aalberts, Daniel P., Parman, John M., Goddard, Noel L.

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Optimizing Recombinant Protein Expression with Synonymous Codons von Wong, Daniel, Wong, Kam-Ho, Boël, Gregory, Hunt, John F., Aalberts, Daniel P.

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Efficient computation of optimal oligo–RNA binding von Hodas, Nathan O., Aalberts, Daniel P.

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Quantifying optimal accuracy of local primary sequence bioinformatics methods von Aalberts, Daniel P., Daub, Eric G., Dill, Jesse W.

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Modeling Unpairing Costs for Fast Computation of the Net Binding Free Energy of an Oligo to an mRNA Target von Hess, Julian M., Jannen, William K., Aalberts, Daniel P.

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Simple method for calculating the speed of sound in tight-binding models: Application to the Su-Schrieffer-Heeger model von Vos, FL, Aalberts, DP, van Saarloos W

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Thermodynamic modeling of donor splice site recognition in pre-mRNA von Garland, Jeffrey A, Aalberts, Daniel P

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Electrophoretic mobility of asymmetric reptating polymers von Aalberts, DP

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Microscopic simulation of phase transition in interacting ionic gels von Aalberts, Daniel P.

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