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Transcriptome sequencing in an ecologically important tree species: assembly, annotation, and marker discovery.
BMC Genomics. 2010 Mar 16;11:180. doi: 10.1186/1471-2164-11-180.
BMC Genomics. 2010.
PMID: 20233449
Free PMC article.
Biophysical and structural considerations for protein sequence evolution.
Grahnen JA, Nandakumar P, Kubelka J, Liberles DA.
Grahnen JA, et al.
BMC Evol Biol. 2011 Dec 16;11:361. doi: 10.1186/1471-2148-11-361.
BMC Evol Biol. 2011.
PMID: 22171550
Free PMC article.
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Toward a general model for the evolutionary dynamics of gene duplicates.
Konrad A, Teufel AI, Grahnen JA, Liberles DA.
Konrad A, et al. Among authors: grahnen ja.
Genome Biol Evol. 2011;3:1197-209. doi: 10.1093/gbe/evr093. Epub 2011 Sep 13.
Genome Biol Evol. 2011.
PMID: 21920903
Free PMC article.
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The interface of protein structure, protein biophysics, and molecular evolution.
Liberles DA, Teichmann SA, Bahar I, Bastolla U, Bloom J, Bornberg-Bauer E, Colwell LJ, de Koning AP, Dokholyan NV, Echave J, Elofsson A, Gerloff DL, Goldstein RA, Grahnen JA, Holder MT, Lakner C, Lartillot N, Lovell SC, Naylor G, Perica T, Pollock DD, Pupko T, Regan L, Roger A, Rubinstein N, Shakhnovich E, Sjölander K, Sunyaev S, Teufel AI, Thorne JL, Thornton JW, Weinreich DM, Whelan S.
Liberles DA, et al. Among authors: grahnen ja.
Protein Sci. 2012 Jun;21(6):769-85. doi: 10.1002/pro.2071. Epub 2012 Apr 23.
Protein Sci. 2012.
PMID: 22528593
Free PMC article.
Review.
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Binding constraints on the evolution of enzymes and signalling proteins: the important role of negative pleiotropy.
Liberles DA, Tisdell MD, Grahnen JA.
Liberles DA, et al. Among authors: grahnen ja.
Proc Biol Sci. 2011 Jul 7;278(1714):1930-5. doi: 10.1098/rspb.2010.2637. Epub 2011 Apr 13.
Proc Biol Sci. 2011.
PMID: 21490020
Free PMC article.
Review.
Item in Clipboard
Fast side chain replacement in proteins using a coarse-grained approach for evaluating the effects of mutation during evolution.
Grahnen JA, Kubelka J, Liberles DA.
Grahnen JA, et al.
J Mol Evol. 2011 Aug;73(1-2):23-33. doi: 10.1007/s00239-011-9454-3. Epub 2011 Jul 29.
J Mol Evol. 2011.
PMID: 21800121
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DFT-based simulations of IR amide I' spectra for a small protein in solution. Comparison of explicit and empirical solvent models.
Grahnen JA, Amunson KE, Kubelka J.
Grahnen JA, et al.
J Phys Chem B. 2010 Oct 14;114(40):13011-20. doi: 10.1021/jp106639s.
J Phys Chem B. 2010.
PMID: 20857992
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The evolution of protein structures and structural ensembles under functional constraint.
Siltberg-Liberles J, Grahnen JA, Liberles DA.
Siltberg-Liberles J, et al. Among authors: grahnen ja.
Genes (Basel). 2011 Oct 28;2(4):748-62. doi: 10.3390/genes2040748.
Genes (Basel). 2011.
PMID: 24710290
Free PMC article.
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