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Items: 49

1.

Equine arteritis virus long-term persistence is orchestrated by CD8+ T lymphocyte transcription factors, inhibitory receptors, and the CXCL16/CXCR6 axis.

Carossino M, Dini P, Kalbfleisch TS, Loynachan AT, Canisso IF, Cook RF, Timoney PJ, Balasuriya UBR.

PLoS Pathog. 2019 Jul 29;15(7):e1007950. doi: 10.1371/journal.ppat.1007950. eCollection 2019 Jul.

2.

Landscape of Overlapping Gene Expression in the Equine Placenta.

Dini P, Norris J, Ali HE, Loux SC, Carossino M, Esteller-Vico A, Bailey E, Kalbfleisch T, Daels P, Ball BA.

Genes (Basel). 2019 Jul 2;10(7). pii: E503. doi: 10.3390/genes10070503.

3.

A bovine CD18 signal peptide variant with increased binding activity to Mannheimia hemolytica leukotoxin.

Workman AM, Chitko-McKown CG, Smith TPL, Bennett GL, Kalbfleisch TS, Basnayake V, Heaton MP.

F1000Res. 2018 Dec 28;7:1985. doi: 10.12688/f1000research.17187.1. eCollection 2018.

4.

Improved reference genome for the domestic horse increases assembly contiguity and composition.

Kalbfleisch TS, Rice ES, DePriest MS Jr, Walenz BP, Hestand MS, Vermeesch JR, O Connell BL, Fiddes IT, Vershinina AO, Saremi NF, Petersen JL, Finno CJ, Bellone RR, McCue ME, Brooks SA, Bailey E, Orlando L, Green RE, Miller DC, Antczak DF, MacLeod JN.

Commun Biol. 2018 Nov 16;1:197. doi: 10.1038/s42003-018-0199-z. eCollection 2018.

5.

Generation of an equine biobank to be used for Functional Annotation of Animal Genomes project.

Burns EN, Bordbari MH, Mienaltowski MJ, Affolter VK, Barro MV, Gianino F, Gianino G, Giulotto E, Kalbfleisch TS, Katzman SA, Lassaline M, Leeb T, Mack M, Müller EJ, MacLeod JN, Ming-Whitfield B, Alanis CR, Raudsepp T, Scott E, Vig S, Zhou H, Petersen JL, Bellone RR, Finno CJ.

Anim Genet. 2018 Dec;49(6):564-570. doi: 10.1111/age.12717. Epub 2018 Oct 11.

PMID:
30311254
6.

Ruling out BGN variants as simple X-linked causative mutations for bilateral corneal stromal loss in Friesian horses.

Alberi C, Hisey E, Lassaline M, Atilano A, Kalbfleisch T, Stoppini R, Hermans H, Back W, Mienaltowski MJ, Bellone RR.

Anim Genet. 2018 Dec;49(6):656-657. doi: 10.1111/age.12726. Epub 2018 Sep 23. No abstract available.

PMID:
30246344
7.

Corrigendum to "Molecular cloning and functional expression of the K+ channel KV7.1 and the regulatory subunit KCNE1 from equine myocardium" [Res. Vet. Sci. 113 (2017) 79-86].

Pedersen PJ, Thomsen KB, Flak JB, Tejada MA, Hauser F, Trachsel D, Buhl R, Kalbfleisch T, DePriest MS, MacLeod JN, Calloe K, Klaerke DA.

Res Vet Sci. 2018 Jun;118:304. doi: 10.1016/j.rvsc.2017.12.014. Epub 2018 Mar 21. No abstract available.

PMID:
29554586
8.

A SNP resource for studying North American moose.

Kalbfleisch TS, Murdoch BM, Smith TPL, Murdoch JD, Heaton MP, McKay SD.

F1000Res. 2018 Jan 10;7:40. doi: 10.12688/f1000research.13501.1. eCollection 2018.

9.

Downregulation of MicroRNA eca-mir-128 in Seminal Exosomes and Enhanced Expression of CXCL16 in the Stallion Reproductive Tract Are Associated with Long-Term Persistence of Equine Arteritis Virus.

Carossino M, Dini P, Kalbfleisch TS, Loynachan AT, Canisso IF, Shuck KM, Timoney PJ, Cook RF, Balasuriya UBR.

J Virol. 2018 Apr 13;92(9). pii: e00015-18. doi: 10.1128/JVI.00015-18. Print 2018 May 1.

10.

Exclusion of adrenoceptor alpha 2 variants in a horse insensitive to medetomidine.

Schmutz I, Jagannathan V, Diez Bernal S, Lanz S, Kalbfleisch T, Leeb T, Spadavecchia C.

Anim Genet. 2018 Apr;49(2):141. doi: 10.1111/age.12636. Epub 2018 Jan 23. No abstract available.

PMID:
29359424
11.

Using sheep genomes from diverse U.S. breeds to identify missense variants in genes affecting fecundity.

Heaton MP, Smith TPL, Freking BA, Workman AM, Bennett GL, Carnahan JK, Kalbfleisch TS.

F1000Res. 2017 Aug 2;6:1303. doi: 10.12688/f1000research.12216.1. eCollection 2017.

12.

Molecular cloning and functional expression of the K+ channel KV7.1 and the regulatory subunit KCNE1 from equine myocardium.

Pedersen PJ, Thomsen KB, Flak JB, Tejada MA, Hauser F, Trachsel D, Buhl R, Kalbfleisch T, DePriest MS, MacLeod JN, Calloe K, Klaerke DA.

Res Vet Sci. 2017 Aug;113:79-86. doi: 10.1016/j.rvsc.2017.09.010. Epub 2017 Sep 11. Erratum in: Res Vet Sci. 2018 Mar 16;118:304.

PMID:
28917093
13.

Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds.

Schaefer RJ, Schubert M, Bailey E, Bannasch DL, Barrey E, Bar-Gal GK, Brem G, Brooks SA, Distl O, Fries R, Finno CJ, Gerber V, Haase B, Jagannathan V, Kalbfleisch T, Leeb T, Lindgren G, Lopes MS, Mach N, da Câmara Machado A, MacLeod JN, McCoy A, Metzger J, Penedo C, Polani S, Rieder S, Tammen I, Tetens J, Thaller G, Verini-Supplizi A, Wade CM, Wallner B, Orlando L, Mickelson JR, McCue ME.

BMC Genomics. 2017 Jul 27;18(1):565. doi: 10.1186/s12864-017-3943-8.

14.

The miR-29 transcriptome in endocrine-sensitive and resistant breast cancer cells.

Muluhngwi P, Alizadeh-Rad N, Vittitow SL, Kalbfleisch TS, Klinge CM.

Sci Rep. 2017 Jul 12;7(1):5205. doi: 10.1038/s41598-017-05727-w.

15.

Next generation sequencing analysis of soy glyceollins and 17-β estradiol: Effects on transcript abundance in the female mouse brain.

Bamji SF, Rouchka E, Zhang Y, Li X, Kalbfleisch T, Corbitt C.

Mol Cell Endocrinol. 2018 Aug 15;471:15-21. doi: 10.1016/j.mce.2017.05.007. Epub 2017 May 5. Review.

PMID:
28483703
16.

Comparison of the diagnostic performance of bacterial culture of nasopharyngeal swab and bronchoalveolar lavage fluid samples obtained from calves with bovine respiratory disease.

Capik SF, White BJ, Lubbers BV, Apley MD, DeDonder KD, Larson RL, Harhay GP, Chitko-McKown CG, Harhay DM, Kalbfleisch TS, Schuller G, Clawson ML.

Am J Vet Res. 2017 Mar;78(3):350-358. doi: 10.2460/ajvr.78.3.350.

PMID:
28240958
17.

Allelic Variation in CXCL16 Determines CD3+ T Lymphocyte Susceptibility to Equine Arteritis Virus Infection and Establishment of Long-Term Carrier State in the Stallion.

Sarkar S, Bailey E, Go YY, Cook RF, Kalbfleisch T, Eberth J, Chelvarajan RL, Shuck KM, Artiushin S, Timoney PJ, Balasuriya UB.

PLoS Genet. 2016 Dec 8;12(12):e1006467. doi: 10.1371/journal.pgen.1006467. eCollection 2016 Dec.

18.

Genomic signatures of Mannheimia haemolytica that associate with the lungs of cattle with respiratory disease, an integrative conjugative element, and antibiotic resistance genes.

Clawson ML, Murray RW, Sweeney MT, Apley MD, DeDonder KD, Capik SF, Larson RL, Lubbers BV, White BJ, Kalbfleisch TS, Schuller G, Dickey AM, Harhay GP, Heaton MP, Chitko-McKown CG, Brichta-Harhay DM, Bono JL, Smith TP.

BMC Genomics. 2016 Nov 29;17(1):982.

19.

Using diverse U.S. beef cattle genomes to identify missense mutations in EPAS1, a gene associated with pulmonary hypertension.

Heaton MP, Smith TP, Carnahan JK, Basnayake V, Qiu J, Simpson B, Kalbfleisch TS.

Version 2. F1000Res. 2016 Aug 16 [revised 2016 Jan 1];5:2003. eCollection 2016.

20.

Observations on macrolide resistance and susceptibility testing performance in field isolates collected from clinical bovine respiratory disease cases.

DeDonder KD, Harhay DM, Apley MD, Lubbers BV, Clawson ML, Schuller G, Harhay GP, White BJ, Larson RL, Capik SF, Riviere JE, Kalbfleisch T, Tessman RK.

Vet Microbiol. 2016 Aug 30;192:186-193. doi: 10.1016/j.vetmic.2016.07.021. Epub 2016 Jul 26.

PMID:
27527782
21.

Nuclear respiratory factor-1 and bioenergetics in tamoxifen-resistant breast cancer cells.

Radde BN, Ivanova MM, Mai HX, Alizadeh-Rad N, Piell K, Van Hoose P, Cole MP, Muluhngwi P, Kalbfleisch TS, Rouchka EC, Hill BG, Klinge CM.

Exp Cell Res. 2016 Sep 10;347(1):222-31. doi: 10.1016/j.yexcr.2016.08.006. Epub 2016 Aug 8.

22.

Equine Arteritis Virus Uses Equine CXCL16 as an Entry Receptor.

Sarkar S, Chelvarajan L, Go YY, Cook F, Artiushin S, Mondal S, Anderson K, Eberth J, Timoney PJ, Kalbfleisch TS, Bailey E, Balasuriya UB.

J Virol. 2016 Jan 13;90(7):3366-84. doi: 10.1128/JVI.02455-15.

23.

A survey of polymorphisms detected from sequences of popular beef breeds.

Snelling WM, Bennett GL, Keele JW, Kuehn LA, McDaneld TG, Smith TP, Thallman RM, Kalbfleisch TS, Pollak EJ.

J Anim Sci. 2015 Nov;93(11):5128-43. doi: 10.2527/jas.2015-9356.

PMID:
26641033
24.

Characterization of an APC Promoter 1B deletion in a Patient Diagnosed with Familial Adenomatous Polyposis via Whole Genome Shotgun Sequencing.

Kalbfleisch T, Brock P, Snow A, Neklason D, Gowans G, Klein J.

F1000Res. 2015 Jun 26;4:170. doi: 10.12688/f1000research.6636.1. eCollection 2015.

25.

Interaction between smoking history and gene expression levels impacts survival of breast cancer patients.

Andres SA, Bickett KE, Alatoum MA, Kalbfleisch TS, Brock GN, Wittliff JL.

Breast Cancer Res Treat. 2015 Aug;152(3):545-56. doi: 10.1007/s10549-015-3507-z. Epub 2015 Jul 23.

PMID:
26202054
26.

Comparison of the Equine Reference Sequence with Its Sanger Source Data and New Illumina Reads.

Rebolledo-Mendez J, Hestand MS, Coleman SJ, Zeng Z, Orlando L, MacLeod JN, Kalbfleisch T.

PLoS One. 2015 Jun 24;10(6):e0126852. doi: 10.1371/journal.pone.0126852. eCollection 2015.

27.

Annotation of the Protein Coding Regions of the Equine Genome.

Hestand MS, Kalbfleisch TS, Coleman SJ, Zeng Z, Liu J, Orlando L, MacLeod JN.

PLoS One. 2015 Jun 24;10(6):e0124375. doi: 10.1371/journal.pone.0124375. eCollection 2015.

28.

Prehistoric genomes reveal the genetic foundation and cost of horse domestication.

Schubert M, Jónsson H, Chang D, Der Sarkissian C, Ermini L, Ginolhac A, Albrechtsen A, Dupanloup I, Foucal A, Petersen B, Fumagalli M, Raghavan M, Seguin-Orlando A, Korneliussen TS, Velazquez AM, Stenderup J, Hoover CA, Rubin CJ, Alfarhan AH, Alquraishi SA, Al-Rasheid KA, MacHugh DE, Kalbfleisch T, MacLeod JN, Rubin EM, Sicheritz-Ponten T, Andersson L, Hofreiter M, Marques-Bonet T, Gilbert MT, Nielsen R, Excoffier L, Willerslev E, Shapiro B, Orlando L.

Proc Natl Acad Sci U S A. 2014 Dec 30;111(52):E5661-9. doi: 10.1073/pnas.1416991111. Epub 2014 Dec 15.

29.

SNPs for parentage testing and traceability in globally diverse breeds of sheep.

Heaton MP, Leymaster KA, Kalbfleisch TS, Kijas JW, Clarke SM, McEwan J, Maddox JF, Basnayake V, Petrik DT, Simpson B, Smith TP, Chitko-McKown CG; International Sheep Genomics Consortium.

PLoS One. 2014 Apr 16;9(4):e94851. doi: 10.1371/journal.pone.0094851. eCollection 2014.

30.

Health status, perceptions and needs of Hispanics in rural Shelbyville, Kentucky.

Ramos IN, Appana SN, Brock G, Kalbfleisch T, He Q, Ramos KS.

J Immigr Minor Health. 2015 Feb;17(1):148-55. doi: 10.1007/s10903-013-9907-4.

PMID:
24014190
31.

Genetic testing for TMEM154 mutations associated with lentivirus susceptibility in sheep.

Heaton MP, Kalbfleisch TS, Petrik DT, Simpson B, Kijas JW, Clawson ML, Chitko-McKown CG, Harhay GP, Leymaster KA; International Sheep Genomics Consortium.

PLoS One. 2013;8(2):e55490. doi: 10.1371/journal.pone.0055490. Epub 2013 Feb 11.

32.

Characterization of ovine Nectin-4, a novel peste des petits ruminants virus receptor.

Birch J, Juleff N, Heaton MP, Kalbfleisch T, Kijas J, Bailey D.

J Virol. 2013 Apr;87(8):4756-61. doi: 10.1128/JVI.02792-12. Epub 2013 Feb 6.

33.

Mapping whole genome shotgun sequence and variant calling in mammalian species without their reference genomes.

Kalbfleisch T, Heaton MP.

Version 2. F1000Res. 2013 Nov 14 [revised 2014 Jan 1];2:244. doi: 10.12688/f1000research.2-244.v2. eCollection 2013.

34.

Reduced lentivirus susceptibility in sheep with TMEM154 mutations.

Heaton MP, Clawson ML, Chitko-Mckown CG, Leymaster KA, Smith TP, Harhay GP, White SN, Herrmann-Hoesing LM, Mousel MR, Lewis GS, Kalbfleisch TS, Keen JE, Laegreid WW.

PLoS Genet. 2012 Jan;8(1):e1002467. doi: 10.1371/journal.pgen.1002467. Epub 2012 Jan 26.

35.

Differential expression of microRNA expression in tamoxifen-sensitive MCF-7 versus tamoxifen-resistant LY2 human breast cancer cells.

Manavalan TT, Teng Y, Appana SN, Datta S, Kalbfleisch TS, Li Y, Klinge CM.

Cancer Lett. 2011 Dec 26;313(1):26-43. doi: 10.1016/j.canlet.2011.08.018. Epub 2011 Sep 10.

36.

Genome assembly has a major impact on gene content: a comparison of annotation in two Bos taurus assemblies.

Florea L, Souvorov A, Kalbfleisch TS, Salzberg SL.

PLoS One. 2011;6(6):e21400. doi: 10.1371/journal.pone.0021400. Epub 2011 Jun 22.

37.

Assessment of genetic variation for the LINE-1 retrotransposon from next generation sequence data.

Rouchka E, Montoya-Durango DE, Stribinskis V, Ramos K, Kalbfleisch T.

BMC Bioinformatics. 2010 Oct 28;11 Suppl 9:S12. doi: 10.1186/1471-2105-11-S9-S12.

38.

Ovine reference materials and assays for prion genetic testing.

Heaton MP, Leymaster KA, Kalbfleisch TS, Freking BA, Smith TP, Clawson ML, Laegreid WW.

BMC Vet Res. 2010 Apr 30;6:23. doi: 10.1186/1746-6148-6-23.

39.

Interaction among variant vascular endothelial growth factor (VEGF) and its receptor in relation to prostate cancer risk.

VanCleave TT, Moore JH, Benford ML, Brock GN, Kalbfleisch T, Baumgartner RN, Lillard JW Jr, Kittles RA, Kidd LC.

Prostate. 2010 Mar 1;70(4):341-52. doi: 10.1002/pros.21067.

40.

Epigenetic control of mammalian LINE-1 retrotransposon by retinoblastoma proteins.

Montoya-Durango DE, Liu Y, Teneng I, Kalbfleisch T, Lacy ME, Steffen MC, Ramos KS.

Mutat Res. 2009 Jun 1;665(1-2):20-8. doi: 10.1016/j.mrfmmm.2009.02.011. Epub 2009 Mar 9.

41.

A MicroRNA gene is hosted in an intron of a schizophrenia-susceptibility gene.

Zhu Y, Kalbfleisch T, Brennan MD, Li Y.

Schizophr Res. 2009 Apr;109(1-3):86-9. doi: 10.1016/j.schres.2009.01.022. Epub 2009 Mar 4.

42.

Prevalence of the prion protein gene E211K variant in U.S. cattle.

Heaton MP, Keele JW, Harhay GP, Richt JA, Koohmaraie M, Wheeler TL, Shackelford SD, Casas E, King DA, Sonstegard TS, Van Tassell CP, Neibergs HL, Chase CC Jr, Kalbfleisch TS, Smith TP, Clawson ML, Laegreid WW.

BMC Vet Res. 2008 Jul 14;4:25. doi: 10.1186/1746-6148-4-25.

43.

A bioinformatics approach to identifying tail-anchored proteins in the human genome.

Kalbfleisch T, Cambon A, Wattenberg BW.

Traffic. 2007 Dec;8(12):1687-94. Epub 2007 Oct 17.

44.

Validation of a mathematical model of gene transcription in aggregated cellular systems: application to l1 retrotransposition.

Rempala GA, Ramos KS, Kalbfleisch T, Teneng I.

J Comput Biol. 2007 Apr;14(3):339-49.

PMID:
17563315
45.

Computational and biological inference of gene regulatory networks of the LINE-1 retrotransposon.

Ramos KS, He Q, Kalbfleisch T, Montoya-Durango DE, Teneng I, Stribinskis V, Brun M.

Genomics. 2007 Aug;90(2):176-85. Epub 2007 May 22.

46.

A stochastic model of gene transcription: an application to L1 retrotransposition events.

Rempala GA, Ramos KS, Kalbfleisch T.

J Theor Biol. 2006 Sep 7;242(1):101-16. Epub 2006 Apr 19.

PMID:
16624324
47.

The pattern of polymorphism in Arabidopsis thaliana.

Nordborg M, Hu TT, Ishino Y, Jhaveri J, Toomajian C, Zheng H, Bakker E, Calabrese P, Gladstone J, Goyal R, Jakobsson M, Kim S, Morozov Y, Padhukasahasram B, Plagnol V, Rosenberg NA, Shah C, Wall JD, Wang J, Zhao K, Kalbfleisch T, Schulz V, Kreitman M, Bergelson J.

PLoS Biol. 2005 Jul;3(7):e196. Epub 2005 May 24.

48.

Haplotype variation and linkage disequilibrium in 313 human genes.

Stephens JC, Schneider JA, Tanguay DA, Choi J, Acharya T, Stanley SE, Jiang R, Messer CJ, Chew A, Han JH, Duan J, Carr JL, Lee MS, Koshy B, Kumar AM, Zhang G, Newell WR, Windemuth A, Xu C, Kalbfleisch TS, Shaner SL, Arnold K, Schulz V, Drysdale CM, Nandabalan K, Judson RS, Ruano G, Vovis GF.

Science. 2001 Jul 20;293(5529):489-93. Epub 2001 Jul 12. Erratum in: Science 2001 Aug 10;293(5532):1048.

49.

A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae.

Uetz P, Giot L, Cagney G, Mansfield TA, Judson RS, Knight JR, Lockshon D, Narayan V, Srinivasan M, Pochart P, Qureshi-Emili A, Li Y, Godwin B, Conover D, Kalbfleisch T, Vijayadamodar G, Yang M, Johnston M, Fields S, Rothberg JM.

Nature. 2000 Feb 10;403(6770):623-7.

PMID:
10688190

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