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Items: 38

1.

Correction to: NSAID use and somatic exomic mutations in Barrett's esophagus.

Galipeau PC, Oman KM, Paulson TG, Sanchez CA, Zhang Q, Marty JA, Delrow JJ, Kuhner MK, Vaughan TL, Reid BJ, Li X.

Genome Med. 2019 Mar 12;11(1):14. doi: 10.1186/s13073-019-0625-y.

2.

CNValidator: validating somatic copy-number inference.

Smith LP, Yamato JA, Kuhner MK.

Bioinformatics. 2019 Aug 1;35(15):2660-2662. doi: 10.1093/bioinformatics/bty1022.

3.

NSAID use and somatic exomic mutations in Barrett's esophagus.

Galipeau PC, Oman KM, Paulson TG, Sanchez CA, Zhang Q, Marty JA, Delrow JJ, Kuhner MK, Vaughan TL, Reid BJ, Li X.

Genome Med. 2018 Feb 27;10(1):17. doi: 10.1186/s13073-018-0520-y. Erratum in: Genome Med. 2019 Mar 12;11(1):14.

4.

Evolution of Barrett's esophagus through space and time at single-crypt and whole-biopsy levels.

Martinez P, Mallo D, Paulson TG, Li X, Sanchez CA, Reid BJ, Graham TA, Kuhner MK, Maley CC.

Nat Commun. 2018 Feb 23;9(1):794. doi: 10.1038/s41467-017-02621-x.

5.

A Consensus Method for Ancestral Recombination Graphs.

Kuhner MK, Yamato J.

J Mol Evol. 2017 Mar;84(2-3):129-138. doi: 10.1007/s00239-017-9786-8. Epub 2017 Mar 11.

PMID:
28285392
6.

Bulk Genotyping of Biopsies Can Create Spurious Evidence for Hetereogeneity in Mutation Content.

Kostadinov R, Maley CC, Kuhner MK.

PLoS Comput Biol. 2016 Apr 22;12(4):e1004413. doi: 10.1371/journal.pcbi.1004413. eCollection 2016 Apr.

7.

Limitations of the Driver/Passenger Model in Cancer Prevention.

Kuhner MK, Kostadinov R, Reid BJ.

Cancer Prev Res (Phila). 2016 May;9(5):335-8. doi: 10.1158/1940-6207.CAPR-15-0343. Epub 2016 Mar 1.

8.

Assessment of Esophageal Adenocarcinoma Risk Using Somatic Chromosome Alterations in Longitudinal Samples in Barrett's Esophagus.

Li X, Paulson TG, Galipeau PC, Sanchez CA, Liu K, Kuhner MK, Maley CC, Self SG, Vaughan TL, Reid BJ, Blount PL.

Cancer Prev Res (Phila). 2015 Sep;8(9):845-56. doi: 10.1158/1940-6207.CAPR-15-0130. Epub 2015 Jun 30.

9.

Assessing Differences Between Ancestral Recombination Graphs.

Kuhner MK, Yamato J.

J Mol Evol. 2015 Jun;80(5-6):258-64. doi: 10.1007/s00239-015-9676-x. Epub 2015 Apr 5.

PMID:
25841763
10.

Correcting for sequencing error in maximum likelihood phylogeny inference.

Kuhner MK, McGill J.

G3 (Bethesda). 2014 Nov 4;4(12):2545-52. doi: 10.1534/g3.114.014365.

11.

Practical performance of tree comparison metrics.

Kuhner MK, Yamato J.

Syst Biol. 2015 Mar;64(2):205-14. doi: 10.1093/sysbio/syu085. Epub 2014 Nov 4.

PMID:
25378436
12.

Bayesian inference of local trees along chromosomes by the sequential Markov coalescent.

Zheng C, Kuhner MK, Thompson EA.

J Mol Evol. 2014 May;78(5):279-92. doi: 10.1007/s00239-014-9620-5. Epub 2014 May 11.

13.

Joint inference of identity by descent along multiple chromosomes from population samples.

Zheng C, Kuhner MK, Thompson EA.

J Comput Biol. 2014 Mar;21(3):185-200. doi: 10.1089/cmb.2013.0140.

14.

Temporal and spatial evolution of somatic chromosomal alterations: a case-cohort study of Barrett's esophagus.

Li X, Galipeau PC, Paulson TG, Sanchez CA, Arnaudo J, Liu K, Sather CL, Kostadinov RL, Odze RD, Kuhner MK, Maley CC, Self SG, Vaughan TL, Blount PL, Reid BJ.

Cancer Prev Res (Phila). 2014 Jan;7(1):114-27. doi: 10.1158/1940-6207.CAPR-13-0289. Epub 2013 Nov 19.

15.

GraphML specializations to codify ancestral recombinant graphs.

McGill JR, Walkup EA, Kuhner MK.

Front Genet. 2013 Aug 7;4:146. doi: 10.3389/fgene.2013.00146. eCollection 2013.

16.

NSAIDs modulate clonal evolution in Barrett's esophagus.

Kostadinov RL, Kuhner MK, Li X, Sanchez CA, Galipeau PC, Paulson TG, Sather CL, Srivastava A, Odze RD, Blount PL, Vaughan TL, Reid BJ, Maley CC.

PLoS Genet. 2013 Jun;9(6):e1003553. doi: 10.1371/journal.pgen.1003553. Epub 2013 Jun 13.

17.

Correcting coalescent analyses for panel-based SNP ascertainment.

McGill JR, Walkup EA, Kuhner MK.

Genetics. 2013 Apr;193(4):1185-96. doi: 10.1534/genetics.112.146738. Epub 2013 Jan 18.

18.

Signatures of high-altitude adaptation in the major hemoglobin of five species of andean dabbling ducks.

McCracken KG, Barger CP, Bulgarella M, Johnson KP, Kuhner MK, Moore AV, Peters JL, Trucco J, Valqui TH, Winker K, Wilson RE.

Am Nat. 2009 Nov;174(5):631-50. doi: 10.1086/606020.

PMID:
19788356
19.

Gene flow in the face of countervailing selection: adaptation to high-altitude hypoxia in the betaA hemoglobin subunit of yellow-billed pintails in the Andes.

McCracken KG, Bulgarella M, Johnson KP, Kuhner MK, Trucco J, Valqui TH, Wilson RE, Peters JL.

Mol Biol Evol. 2009 Apr;26(4):815-27. doi: 10.1093/molbev/msp007. Epub 2009 Jan 16.

PMID:
19151158
20.

Coalescent genealogy samplers: windows into population history.

Kuhner MK.

Trends Ecol Evol. 2009 Feb;24(2):86-93. doi: 10.1016/j.tree.2008.09.007. Epub 2008 Dec 26. Review.

21.

The limits of fine-scale mapping.

Smith LP, Kuhner MK.

Genet Epidemiol. 2009 May;33(4):344-56. doi: 10.1002/gepi.20387.

22.

Robustness of coalescent estimators to between-lineage mutation rate variation.

Kuhner MK.

Mol Biol Evol. 2006 Dec;23(12):2355-60. Epub 2006 Sep 6.

PMID:
16956973
23.

Comparing likelihood and Bayesian coalescent estimation of population parameters.

Kuhner MK, Smith LP.

Genetics. 2007 Jan;175(1):155-65. Epub 2006 Mar 1.

24.

LAMARC 2.0: maximum likelihood and Bayesian estimation of population parameters.

Kuhner MK.

Bioinformatics. 2006 Mar 15;22(6):768-70. Epub 2006 Jan 12.

PMID:
16410317
25.

Maximum likelihood estimation of recombination rates from population data.

Kuhner MK, Yamato J, Felsenstein J.

Genetics. 2000 Nov;156(3):1393-401.

26.

Sampling among haplotype resolutions in a coalescent-based genealogy sampler.

Kuhner MK, Felsenstein J.

Genet Epidemiol. 2000;19 Suppl 1:S15-21.

PMID:
11055365
27.

Usefulness of single nucleotide polymorphism data for estimating population parameters.

Kuhner MK, Beerli P, Yamato J, Felsenstein J.

Genetics. 2000 Sep;156(1):439-47.

28.

Maximum likelihood estimation of population growth rates based on the coalescent.

Kuhner MK, Yamato J, Felsenstein J.

Genetics. 1998 May;149(1):429-34.

29.
30.

A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates.

Kuhner MK, Felsenstein J.

Mol Biol Evol. 1994 May;11(3):459-68. Erratum in: Mol Biol Evol 1995 May;12(3):525.

PMID:
8015439
31.

Genetic exchange in the evolution of the human MHC class II loci.

Kuhner MK, Peterson MJ.

Tissue Antigens. 1992 Apr;39(4):209-15.

PMID:
1529428
32.

Gene conversion in the evolution of the human and chimpanzee MHC class I loci.

Kuhner MK, Lawlor DA, Ennis PD, Parham P.

Tissue Antigens. 1991 Oct;38(4):152-64.

PMID:
1801305
33.
34.

Affected sib pair IBS methods: detection of linkage and genetic models.

Motro U, Thomson G, Kuhner MK, Robinson WP.

Prog Clin Biol Res. 1989;329:105-10. No abstract available.

PMID:
2622936
35.

DNA sequences of mouse H-2 and Qa genes.

Kuhner MK, Goodenow RS.

Immunogenetics. 1989;30(6):458-64. No abstract available.

PMID:
2592022
36.

HLA and insulin gene associations with IDDM.

Thomson G, Robinson WP, Kuhner MK, Joe S, Klitz W.

Genet Epidemiol. 1989;6(1):155-60.

PMID:
2567257
37.

Clues to IDDM pathogenesis from genetic and serological traits in multiply affected families.

Klitz W, Kuhner MK, Robinson W, Esposito M, Thomson G.

Genet Epidemiol. 1989;6(1):117-22.

PMID:
2567254
38.

Genetic heterogeneity, modes of inheritance, and risk estimates for a joint study of Caucasians with insulin-dependent diabetes mellitus.

Thomson G, Robinson WP, Kuhner MK, Joe S, MacDonald MJ, Gottschall JL, Barbosa J, Rich SS, Bertrams J, Baur MP, et al.

Am J Hum Genet. 1988 Dec;43(6):799-816. Review.

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