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Items: 27

1.

Methylation-Induced Hypermutation in Natural Populations of Bacteria.

Cherry JL.

J Bacteriol. 2018 Nov 26;200(24). pii: e00371-18. doi: 10.1128/JB.00371-18. Print 2018 Dec 15.

2.

A practical exact maximum compatibility algorithm for reconstruction of recent evolutionary history.

Cherry JL.

BMC Bioinformatics. 2017 Feb 23;18(1):127. doi: 10.1186/s12859-017-1520-4.

3.

Inbreeding and asexuality: a response to Szulkin et al.

Cherry JL.

Trends Ecol Evol. 2013 Dec;28(12):683. doi: 10.1016/j.tree.2013.08.001. Epub 2013 Nov 2. No abstract available.

PMID:
24189156
4.

Why does a protein's evolutionary rate vary over time?

Du X, Lipman DJ, Cherry JL.

Genome Biol Evol. 2013;5(3):494-503. doi: 10.1093/gbe/evt024.

5.

Sequential seasonal H1N1 influenza virus infections protect ferrets against novel 2009 H1N1 influenza virus.

Carter DM, Bloom CE, Nascimento EJ, Marques ET, Craigo JK, Cherry JL, Lipman DJ, Ross TM.

J Virol. 2013 Feb;87(3):1400-10. doi: 10.1128/JVI.02257-12. Epub 2012 Oct 31.

6.

Complex patterns of human antisera reactivity to novel 2009 H1N1 and historical H1N1 influenza strains.

Carter DM, Lu HR, Bloom CE, Crevar CJ, Cherry JL, Lipman DJ, Ross TM.

PLoS One. 2012;7(7):e39435. doi: 10.1371/journal.pone.0039435. Epub 2012 Jul 17.

7.

Projection of seasonal influenza severity from sequence and serological data.

Wolf YI, Nikolskaya A, Cherry JL, Viboud C, Koonin E, Lipman DJ.

PLoS Curr. 2010 Dec 3;2:RRN1200. doi: 10.1371/currents.RRN1200.

8.

Expression level, evolutionary rate, and the cost of expression.

Cherry JL.

Genome Biol Evol. 2010;2:757-69. doi: 10.1093/gbe/evq059. Epub 2010 Sep 30.

9.

Evolutionary dynamics of N-glycosylation sites of influenza virus hemagglutinin.

Cherry JL, Lipman DJ, Nikolskaya A, Wolf YI.

PLoS Curr. 2009 Aug 18;1:RRN1001.

10.

Highly expressed and slowly evolving proteins share compositional properties with thermophilic proteins.

Cherry JL.

Mol Biol Evol. 2010 Mar;27(3):735-41. doi: 10.1093/molbev/msp270. Epub 2009 Nov 12.

11.

The consensus coding sequence (CCDS) project: Identifying a common protein-coding gene set for the human and mouse genomes.

Pruitt KD, Harrow J, Harte RA, Wallin C, Diekhans M, Maglott DR, Searle S, Farrell CM, Loveland JE, Ruef BJ, Hart E, Suner MM, Landrum MJ, Aken B, Ayling S, Baertsch R, Fernandez-Banet J, Cherry JL, Curwen V, Dicuccio M, Kellis M, Lee J, Lin MF, Schuster M, Shkeda A, Amid C, Brown G, Dukhanina O, Frankish A, Hart J, Maidak BL, Mudge J, Murphy MR, Murphy T, Rajan J, Rajput B, Riddick LD, Snow C, Steward C, Webb D, Weber JA, Wilming L, Wu W, Birney E, Haussler D, Hubbard T, Ostell J, Durbin R, Lipman D.

Genome Res. 2009 Jul;19(7):1316-23. doi: 10.1101/gr.080531.108. Epub 2009 Jun 4. Erratum in: Genome Res. 2009 Aug;19(8):1506.

12.

Lineage-specific biology revealed by a finished genome assembly of the mouse.

Church DM, Goodstadt L, Hillier LW, Zody MC, Goldstein S, She X, Bult CJ, Agarwala R, Cherry JL, DiCuccio M, Hlavina W, Kapustin Y, Meric P, Maglott D, Birtle Z, Marques AC, Graves T, Zhou S, Teague B, Potamousis K, Churas C, Place M, Herschleb J, Runnheim R, Forrest D, Amos-Landgraf J, Schwartz DC, Cheng Z, Lindblad-Toh K, Eichler EE, Ponting CP; Mouse Genome Sequencing Consortium.

PLoS Biol. 2009 May 5;7(5):e1000112. doi: 10.1371/journal.pbio.1000112. Epub 2009 May 26.

13.

Selection, subdivision and extinction and recolonization.

Cherry JL.

Genetics. 2004 Feb;166(2):1105-14.

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16.

Genome size and operon content.

Cherry JL.

J Theor Biol. 2003 Apr 7;221(3):401-10.

PMID:
12642115
17.
18.

Deleterious mutation and the evolution of eusociality.

Cherry JL.

Evolution. 2002 Dec;56(12):2359-67.

PMID:
12583576
19.

Islands, equilibria, and speciation.

Cherry JL, Adler FR, Johnson KP.

Science. 2002 May 10;296(5570):975. No abstract available.

20.

Genetic and phylogenetic consequences of island biogeography.

Johnson KP, Adler FR, Cherry JL.

Evolution. 2000 Apr;54(2):387-96.

PMID:
10937215
21.

How to make a biological switch.

Cherry JL, Adler FR.

J Theor Biol. 2000 Mar 21;203(2):117-33.

PMID:
10704297
22.

The use of modified primers to eliminate cycle sequencing artifacts.

Stump MD, Cherry JL, Weiss RB.

Nucleic Acids Res. 1999 Dec 1;27(23):4642-8.

23.

Divergence of the hyperthermophilic archaea Pyrococcus furiosus and P. horikoshii inferred from complete genomic sequences.

Maeder DL, Weiss RB, Dunn DM, Cherry JL, González JM, DiRuggiero J, Robb FT.

Genetics. 1999 Aug;152(4):1299-305.

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Enzyme-linked fluorescent detection for automated multiplex DNA sequencing.

Cherry JL, Young H, Di Sera LJ, Ferguson FM, Kimball AW, Dunn DM, Gesteland RF, Weiss RB.

Genomics. 1994 Mar 1;20(1):68-74.

PMID:
8020958
27.

Rapid cycle allele-specific amplification: studies with the cystic fibrosis delta F508 locus.

Wittwer CT, Marshall BC, Reed GH, Cherry JL.

Clin Chem. 1993 May;39(5):804-9.

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