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Items: 50

1.

A missense variant in FTCD affects arsenic metabolism and toxicity phenotypes in Bangladesh.

Pierce BL, Tong L, Dean S, Argos M, Jasmine F, Rakibuz-Zaman M, Sarwar G, Islam MT, Shahriar H, Islam T, Rahman M, Yunus M, Lynch VJ, Oglesbee D, Graziano JH, Kibriya MG, Gamble MV, Ahsan H.

PLoS Genet. 2019 Mar 20;15(3):e1007984. doi: 10.1371/journal.pgen.1007984. [Epub ahead of print]

2.

An Ancient Fecundability-Associated Polymorphism Creates a GATA2 Binding Site in a Distal Enhancer of HLA-F.

Mika KM, Li X, DeMayo FJ, Lynch VJ.

Am J Hum Genet. 2018 Oct 4;103(4):509-521. doi: 10.1016/j.ajhg.2018.08.009. Epub 2018 Sep 20.

PMID:
30245028
3.

A Zombie LIF Gene in Elephants Is Upregulated by TP53 to Induce Apoptosis in Response to DNA Damage.

Vazquez JM, Sulak M, Chigurupati S, Lynch VJ.

Cell Rep. 2018 Aug 14;24(7):1765-1776. doi: 10.1016/j.celrep.2018.07.042.

4.

Insights on cancer resistance in vertebrates: reptiles as a parallel system to mammals.

Chiari Y, Glaberman S, Lynch VJ.

Nat Rev Cancer. 2018 Aug;18(8):525. doi: 10.1038/s41568-018-0033-4. No abstract available.

PMID:
29891962
5.

Transposable elements are the primary source of novelty in primate gene regulation.

Trizzino M, Park Y, Holsbach-Beltrame M, Aracena K, Mika K, Caliskan M, Perry GH, Lynch VJ, Brown CD.

Genome Res. 2017 Oct;27(10):1623-1633. doi: 10.1101/gr.218149.116. Epub 2017 Aug 30.

6.

Human Leukocyte Antigen F Presents Peptides and Regulates Immunity through Interactions with NK Cell Receptors.

Dulberger CL, McMurtrey CP, Hölzemer A, Neu KE, Liu V, Steinbach AM, Garcia-Beltran WF, Sulak M, Jabri B, Lynch VJ, Altfeld M, Hildebrand WH, Adams EJ.

Immunity. 2017 Jun 20;46(6):1018-1029.e7. doi: 10.1016/j.immuni.2017.06.002.

7.

Correction: TP53 copy number expansion is associated with the evolution of increased body size and an enhanced DNA damage response in elephants.

Sulak M, Fong L, Mika K, Chigurupati S, Yon L, Mongan NP, Emes RD, Lynch VJ.

Elife. 2016 Dec 20;5. pii: e24307. doi: 10.7554/eLife.24307. No abstract available.

8.

An Ancient Fecundability-Associated Polymorphism Switches a Repressor into an Enhancer of Endometrial TAP2 Expression.

Mika KM, Lynch VJ.

Am J Hum Genet. 2016 Nov 3;99(5):1059-1071. doi: 10.1016/j.ajhg.2016.09.002. Epub 2016 Oct 13.

9.

TP53 copy number expansion is associated with the evolution of increased body size and an enhanced DNA damage response in elephants.

Sulak M, Fong L, Mika K, Chigurupati S, Yon L, Mongan NP, Emes RD, Lynch VJ.

Elife. 2016 Sep 19;5. pii: e11994. doi: 10.7554/eLife.11994. Erratum in: Elife. 2016 Dec 20;5:.

10.

Expression Quantitative Trait Locus Mapping Studies in Mid-secretory Phase Endometrial Cells Identifies HLA-F and TAP2 as Fecundability-Associated Genes.

Burrows CK, Kosova G, Herman C, Patterson K, Hartmann KE, Velez Edwards DR, Stephenson MD, Lynch VJ, Ober C.

PLoS Genet. 2016 Jul 22;12(7):e1005858. doi: 10.1371/journal.pgen.1005858. eCollection 2016 Jul.

11.

The Transcriptomic Evolution of Mammalian Pregnancy: Gene Expression Innovations in Endometrial Stromal Fibroblasts.

Kin K, Maziarz J, Chavan AR, Kamat M, Vasudevan S, Birt A, Emera D, Lynch VJ, Ott TL, Pavlicev M, Wagner GP.

Genome Biol Evol. 2016 Aug 25;8(8):2459-73. doi: 10.1093/gbe/evw168.

12.

A Derived Allosteric Switch Underlies the Evolution of Conditional Cooperativity between HOXA11 and FOXO1.

Nnamani MC, Ganguly S, Erkenbrack EM, Lynch VJ, Mizoue LS, Tong Y, Darling HL, Fuxreiter M, Meiler J, Wagner GP.

Cell Rep. 2016 Jun 7;15(10):2097-2108. doi: 10.1016/j.celrep.2016.04.088. Epub 2016 May 26.

13.

GENETICS. A copy-and-paste gene regulatory network.

Lynch VJ.

Science. 2016 Mar 4;351(6277):1029-30. doi: 10.1126/science.aaf2977. No abstract available.

PMID:
26941305
14.

Elephantid Genomes Reveal the Molecular Bases of Woolly Mammoth Adaptations to the Arctic.

Lynch VJ, Bedoya-Reina OC, Ratan A, Sulak M, Drautz-Moses DI, Perry GH, Miller W, Schuster SC.

Cell Rep. 2015 Jul 14;12(2):217-28. doi: 10.1016/j.celrep.2015.06.027. Epub 2015 Jul 2.

15.

Cell-type phylogenetics and the origin of endometrial stromal cells.

Kin K, Nnamani MC, Lynch VJ, Michaelides E, Wagner GP.

Cell Rep. 2015 Mar 3;10(8):1398-409. doi: 10.1016/j.celrep.2015.01.062. Epub 2015 Feb 26.

16.

Ancient transposable elements transformed the uterine regulatory landscape and transcriptome during the evolution of mammalian pregnancy.

Lynch VJ, Nnamani MC, Kapusta A, Brayer K, Plaza SL, Mazur EC, Emera D, Sheikh SZ, Grützner F, Bauersachs S, Graf A, Young SL, Lieb JD, DeMayo FJ, Feschotte C, Wagner GP.

Cell Rep. 2015 Feb 3;10(4):551-61. doi: 10.1016/j.celrep.2014.12.052. Epub 2015 Jan 29.

17.

Evolutionary forward genomics reveals novel insights into the genes and pathways dysregulated in recurrent early pregnancy loss.

Kosova G, Stephenson MD, Lynch VJ, Ober C.

Hum Reprod. 2015 Mar;30(3):519-29. doi: 10.1093/humrep/deu355. Epub 2015 Jan 12.

18.

Transposable elements are major contributors to the origin, diversification, and regulation of vertebrate long noncoding RNAs.

Kapusta A, Kronenberg Z, Lynch VJ, Zhuo X, Ramsay L, Bourque G, Yandell M, Feschotte C.

PLoS Genet. 2013 Apr;9(4):e1003470. doi: 10.1371/journal.pgen.1003470. Epub 2013 Apr 25.

19.

A model based criterion for gene expression calls using RNA-seq data.

Wagner GP, Kin K, Lynch VJ.

Theory Biosci. 2013 Sep;132(3):159-64. doi: 10.1007/s12064-013-0178-3. Epub 2013 Apr 25.

PMID:
23615947
20.

Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples.

Wagner GP, Kin K, Lynch VJ.

Theory Biosci. 2012 Dec;131(4):281-5. doi: 10.1007/s12064-012-0162-3. Epub 2012 Aug 8.

PMID:
22872506
21.

ACP5 (Uteroferrin): phylogeny of an ancient and conserved gene expressed in the endometrium of mammals.

Padua MB, Lynch VJ, Alvarez NV, Garthwaite MA, Golos TG, Bazer FW, Kalkunte S, Sharma S, Wagner GP, Hansen PJ.

Biol Reprod. 2012 Apr 27;86(4):123. doi: 10.1095/biolreprod.111.097964. Print 2012 Apr.

22.

Regulatory evolution through divergence of a phosphoswitch in the transcription factor CEBPB.

Lynch VJ, May G, Wagner GP.

Nature. 2011 Nov 13;480(7377):383-6. doi: 10.1038/nature10595.

PMID:
22080951
23.

Transposon-mediated rewiring of gene regulatory networks contributed to the evolution of pregnancy in mammals.

Lynch VJ, Leclerc RD, May G, Wagner GP.

Nat Genet. 2011 Sep 25;43(11):1154-9. doi: 10.1038/ng.917.

PMID:
21946353
24.

Convergent evolution of endometrial prolactin expression in primates, mice, and elephants through the independent recruitment of transposable elements.

Emera D, Casola C, Lynch VJ, Wildman DE, Agnew D, Wagner GP.

Mol Biol Evol. 2012 Jan;29(1):239-47. doi: 10.1093/molbev/msr189. Epub 2011 Aug 2.

PMID:
21813467
25.

Evolution of a derived protein-protein interaction between HoxA11 and Foxo1a in mammals caused by changes in intramolecular regulation.

Brayer KJ, Lynch VJ, Wagner GP.

Proc Natl Acad Sci U S A. 2011 Aug 9;108(32):E414-20. doi: 10.1073/pnas.1100990108. Epub 2011 Jul 25.

26.

Revisiting a classic example of transcription factor functional equivalence: are Eyeless and Pax6 functionally equivalent or divergent?

Lynch VJ, Wagner GP.

J Exp Zool B Mol Dev Evol. 2011 Mar 15;316B(2):93-8. doi: 10.1002/jez.b.21373. Epub 2010 Sep 17.

PMID:
20853421
27.

Evolutionary novelties.

Wagner GP, Lynch VJ.

Curr Biol. 2010 Jan 26;20(2):R48-52. doi: 10.1016/j.cub.2009.11.010.

28.

HoxA-11 and FOXO1A cooperate to regulate decidual prolactin expression: towards inferring the core transcriptional regulators of decidual genes.

Lynch VJ, Brayer K, Gellersen B, Wagner GP.

PLoS One. 2009 Sep 3;4(9):e6845. doi: 10.1371/journal.pone.0006845.

29.

Did egg-laying boas break Dollo's law? Phylogenetic evidence for reversal to oviparity in sand boas (Eryx: Boidae).

Lynch VJ, Wagner GP.

Evolution. 2010 Jan;64(1):207-16. doi: 10.1111/j.1558-5646.2009.00790.x. Epub 2009 Jul 30.

PMID:
19659599
30.

Live-birth in vipers (Viperidae) is a key innovation and adaptation to global cooling during the Cenozoic.

Lynch VJ.

Evolution. 2009 Sep;63(9):2457-65. doi: 10.1111/j.1558-5646.2009.00733.x. Epub 2009 Jun 26.

PMID:
19563326
31.
32.

Multiple chromosomal rearrangements structured the ancestral vertebrate Hox-bearing protochromosomes.

Lynch VJ, Wagner GP.

PLoS Genet. 2009 Jan;5(1):e1000349. doi: 10.1371/journal.pgen.1000349. Epub 2009 Jan 23.

33.

Measuring transcription factor-binding site turnover: a maximum likelihood approach using phylogenies.

Otto W, Stadler PF, López-Giraldéz F, Townsend JP, Lynch VJ, Wagner GP.

Genome Biol Evol. 2009 May 25;1:85-98. doi: 10.1093/gbe/evp010.

34.

A molecular footprint of limb loss: sequence variation of the autopodial identity gene Hoxa-13.

Kohlsdorf T, Cummings MP, Lynch VJ, Stopper GF, Takahashi K, Wagner GP.

J Mol Evol. 2008 Dec;67(6):581-93. doi: 10.1007/s00239-008-9156-7.

PMID:
18855040
35.

Adaptive changes in the transcription factor HoxA-11 are essential for the evolution of pregnancy in mammals.

Lynch VJ, Tanzer A, Wang Y, Leung FC, Gellersen B, Emera D, Wagner GP.

Proc Natl Acad Sci U S A. 2008 Sep 30;105(39):14928-33. doi: 10.1073/pnas.0802355105. Epub 2008 Sep 22.

36.

Clitoral and penile size variability are not significantly different: lack of evidence for the byproduct theory of the female orgasm.

Lynch VJ.

Evol Dev. 2008 Jul-Aug;10(4):396-7. doi: 10.1111/j.1525-142X.2008.00248.x. No abstract available.

PMID:
18638314
37.

Resurrecting the role of transcription factor change in developmental evolution.

Lynch VJ, Wagner GP.

Evolution. 2008 Sep;62(9):2131-54. doi: 10.1111/j.1558-5646.2008.00440.x. Epub 2008 Jun 28. Review.

PMID:
18564379
38.

The gene regulatory logic of transcription factor evolution.

Wagner GP, Lynch VJ.

Trends Ecol Evol. 2008 Jul;23(7):377-85. doi: 10.1016/j.tree.2008.03.006. Epub 2008 May 22. Review.

PMID:
18501470
40.

Adaptive evolution of Hox-gene homeodomains after cluster duplications.

Lynch VJ, Roth JJ, Wagner GP.

BMC Evol Biol. 2006 Nov 1;6:86.

41.

Molecular evolution of evolutionary novelties: the vagina and uterus of therian mammals.

Wagner GP, Lynch VJ.

J Exp Zool B Mol Dev Evol. 2005 Nov 15;304(6):580-92.

PMID:
16252266
42.

The "fish-specific" Hox cluster duplication is coincident with the origin of teleosts.

Crow KD, Stadler PF, Lynch VJ, Amemiya C, Wagner GP.

Mol Biol Evol. 2006 Jan;23(1):121-36. Epub 2005 Sep 14.

PMID:
16162861
43.

Adaptive evolution of HoxA-11 and HoxA-13 at the origin of the uterus in mammals.

Lynch VJ, Roth JJ, Takahashi K, Dunn CW, Nonaka DF, Stopper GF, Wagner GP.

Proc Biol Sci. 2004 Nov 7;271(1554):2201-7.

44.

Early discontinuance of borderline patients from psychotherapy.

Gunderson JG, Frank AF, Ronningstam EF, Wachter S, Lynch VJ, Wolf PJ.

J Nerv Ment Dis. 1989 Jan;177(1):38-42.

PMID:
2909661
45.

Working with dreams: a collaboration between therapist and patient.

Lynch VJ.

Perspect Psychiatr Care. 1983 Jan-Mar;21(1):21-5. No abstract available.

PMID:
6553221
46.

The role of a halfway house in social work education.

Budson RD, Lynch VJ.

Hosp Community Psychiatry. 1978 Sep;29(9):565,569. No abstract available.

PMID:
669604
47.

Meeting the needs of former residents of a halfway house.

Lynch VJ, Budson RD, Jolley RE.

Hosp Community Psychiatry. 1977 Aug;28(8):585. No abstract available.

PMID:
195890
48.

Borderline personality.

Lynch VJ, Lynch MT.

Perspect Psychiatr Care. 1977 Apr-Jun;15(2):72-5, 87. No abstract available.

PMID:
587283
49.

Narcissistic loss and depression in late adolescence.

Lynch VJ.

Perspect Psychiatr Care. 1976 Jul-Sep;14(3):133-5. No abstract available.

PMID:
1049043
50.

Staff member termination in the milieu setting.

Lynch VJ.

J Natl Assoc Priv Psychiatr Hosp. 1975 Winter;7(2):24-9. No abstract available.

PMID:
10238019

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