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orfmine_citations.md

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How to cite us and others

If you use only ORFtrack

please cite:

Papadopoulos, C., Chevrollier, N., Lopes, A. Exploring the peptide potential of genomes. Meth. Mol. Biol. (2022).

If you use only ORFfold with HCA, IUPred and Tango

please cite:

Papadopoulos, C., Chevrollier, N., Lopes, A. Exploring the peptide potential of genomes. Meth. Mol. Biol. (2022)

Bitard-Feildel, T. & Callebaut, I. HCAtk and pyHCA: A Toolkit and Python API for the Hydrophobic Cluster Analysis of Protein Sequences. bioRxiv 249995 (2018).

Mészáros, B., Erdős, G. & Dosztányi, Z. IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding. Nucleic acids research 46, W329–W337 (2018).

Linding, R., Schymkowitz, J., Rousseau, F., Diella, F. & Serrano, L. A comparative study of the relationship between protein structure and β-aggregation in globular and intrinsically disordered proteins. Journal of molecular biology 342, 345–353 (2004).

Otherwise, if you use ORFold with a combination of HCA, IUPred and Tango

please cite:

Papadopoulos, C., Chevrollier, N., Lopes, A. Exploring the peptide potential of genomes. Meth. Mol. Biol. (2022)

and the publications corresponding to your calculations:

for HCA, cite: Bitard-Feildel, T. & Callebaut, I. HCAtk and pyHCA: A Toolkit and Python API for the Hydrophobic Cluster Analysis of Protein Sequences. bioRxiv 249995 (2018).

for IUPred, cite: Mészáros, B., Erdős, G. & Dosztányi, Z. IUPred2A: context-dependent prediction of protein disorder as a function of redox state and protein binding. Nucleic acids research 46, W329–W337 (2018).

for Tango, cite: Linding, R., Schymkowitz, J., Rousseau, F., Diella, F. & Serrano, L. A comparative study of the relationship between protein structure and β-aggregation in globular and intrinsically disordered proteins. Journal of molecular biology 342, 345–353 (2004).

If you use ORFribo or ORFdate

please cite:

Papadopoulos, C., Arbes, H., Chevrollier, N., Blanchet, S., Cornu, D., Roginski, P., Rabier, C., Atia, S., Lespinet, O., Namy, O., Lopes, A. (submitted).