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Items: 24

1.

Endless Forms: Within-Host Variation in the Structure of the West Nile Virus RNA Genome during Serial Passage in Bird Hosts.

Scroggs SLP, Grubaugh ND, Sena JA, Sundararajan A, Schilkey FD, Smith DR, Ebel GD, Hanley KA.

mSphere. 2019 Jun 26;4(3). pii: e00291-19. doi: 10.1128/mSphere.00291-19.

2.

Cranberry-derived proanthocyanidins induce a differential transcriptomic response within Candida albicans urinary biofilms.

Sundararajan A, Rane HS, Ramaraj T, Sena J, Howell AB, Bernardo SM, Schilkey FD, Lee SA.

PLoS One. 2018 Aug 8;13(8):e0201969. doi: 10.1371/journal.pone.0201969. eCollection 2018.

3.

Correction: Dengue virus serotype 2 infection alters midgut and carcass gene expression in the Asian tiger mosquito, Aedes albopictus.

Tsujimoto H, Hanley KA, Sundararajan A, Devitt NP, Schilkey FD, Hansen IA.

PLoS One. 2018 Jan 25;13(1):e0192128. doi: 10.1371/journal.pone.0192128. eCollection 2018.

4.

Corrigendum: RNA-Seq Comparison of Larval and Adult Malpighian Tubules of the Yellow Fever Mosquito Aedes aegypti Reveals Life Stage-Specific Changes in Renal Function.

Li Y, Piermarini PM, Esquivel CJ, Price DP, Drumm HE, Schilkey FD, Hansen IA.

Front Physiol. 2017 Nov 7;8:843. doi: 10.3389/fphys.2017.00843. eCollection 2017.

5.

Transcriptomic responses of Biomphalaria pfeifferi to Schistosoma mansoni: Investigation of a neglected African snail that supports more S. mansoni transmission than any other snail species.

Buddenborg SK, Bu L, Zhang SM, Schilkey FD, Mkoji GM, Loker ES.

PLoS Negl Trop Dis. 2017 Oct 18;11(10):e0005984. doi: 10.1371/journal.pntd.0005984. eCollection 2017 Oct.

6.

RNA-Seq Comparison of Larval and Adult Malpighian Tubules of the Yellow Fever Mosquito Aedes aegypti Reveals Life Stage-Specific Changes in Renal Function.

Li Y, Piermarini PM, Esquivel CJ, Price DP, Drumm HE, Schilkey FD, Hansen IA.

Front Physiol. 2017 May 9;8:283. doi: 10.3389/fphys.2017.00283. eCollection 2017. Erratum in: Front Physiol. 2017 Nov 07;8:843.

7.

Zinc-Dependent Transcriptional Regulation in Paracoccus denitrificans.

Neupane DP, Jacquez B, Sundararajan A, Ramaraj T, Schilkey FD, Yukl ET.

Front Microbiol. 2017 Apr 11;8:569. doi: 10.3389/fmicb.2017.00569. eCollection 2017.

8.

Dengue virus serotype 2 infection alters midgut and carcass gene expression in the Asian tiger mosquito, Aedes albopictus.

Tsujimoto H, Hanley KA, Sundararajan A, Devitt NP, Schilkey FD, Hansen IA.

PLoS One. 2017 Feb 2;12(2):e0171345. doi: 10.1371/journal.pone.0171345. eCollection 2017. Erratum in: PLoS One. 2018 Jan 25;13(1):e0192128.

9.

Transcriptomic Changes Associated with Pregnancy in a Marsupial, the Gray Short-Tailed Opossum Monodelphis domestica.

Hansen VL, Schilkey FD, Miller RD.

PLoS One. 2016 Sep 6;11(9):e0161608. doi: 10.1371/journal.pone.0161608. eCollection 2016.

10.

De novo assembly of a tadpole shrimp (Triops newberryi) transcriptome and preliminary differential gene expression analysis.

Horn RL, Ramaraj T, Devitt NP, Schilkey FD, Cowley DE.

Mol Ecol Resour. 2017 Mar;17(2):161-171. doi: 10.1111/1755-0998.12555. Epub 2016 Jul 12.

11.

Complete Genome Sequence of Streptomyces venezuelae ATCC 15439, Producer of the Methymycin/Pikromycin Family of Macrolide Antibiotics, Using PacBio Technology.

He J, Sundararajan A, Devitt NP, Schilkey FD, Ramaraj T, Melançon CE 3rd.

Genome Announc. 2016 May 5;4(3). pii: e00337-16. doi: 10.1128/genomeA.00337-16.

12.

Small mosquitoes, large implications: crowding and starvation affects gene expression and nutrient accumulation in Aedes aegypti.

Price DP, Schilkey FD, Ulanov A, Hansen IA.

Parasit Vectors. 2015 Apr 28;8:252. doi: 10.1186/s13071-015-0863-9.

13.

Comparative genome analysis of non-toxigenic non-O1 versus toxigenic O1 Vibrio cholerae.

Mukherjee M, Kakarla P, Kumar S, Gonzalez E, Floyd JT, Inupakutika M, Devireddy AR, Tirrell SR, Bruns M, He G, Lindquist IE, Sundararajan A, Schilkey FD, Mudge J, Varela MF.

Genom Discov. 2014;2(1):1-15.

14.

Draft Genome Sequences of Vancomycin-Susceptible Staphylococcus aureus Related to Heterogeneous Vancomycin-Intermediate S. aureus.

Ramaraj T, Matyi SA, Sundararajan A, Lindquist IE, Devitt NP, Schilkey FD, Lamichhane-Khadka R, Hoyt PR, Mudge J, Gustafson JE.

Genome Announc. 2014 Oct 9;2(5). pii: e01033-14. doi: 10.1128/genomeA.01033-14.

15.

Draft Genomes of Heterogeneous Vancomycin-Intermediate Staphylococcus aureus Strain MM66 and MM66 Derivatives with Altered Vancomycin Resistance Levels.

Matyi SA, Ramaraj T, Sundararajan A, Lindquist IE, Devitt NP, Schilkey FD, Lamichhane-Khadka R, Hoyt PR, Mudge J, Gustafson JE.

Genome Announc. 2014 Jul 10;2(4). pii: e00688-14. doi: 10.1128/genomeA.00688-14.

16.

Improved Hybrid Genome Assemblies of Two Strains of Bacteroides xylanisolvens, SD_CC_1b and SD_CC_2a, Obtained Using Illumina and 454 Sequencing Technologies.

Ramaraj T, Sundararajan A, Schilkey FD, Delvecchio VG, Donlon M, Ziemer C, Mudge J.

Genome Announc. 2014 Apr 3;2(2). pii: e00237-14. doi: 10.1128/genomeA.00237-14.

17.

Genome Sequence of Non-O1 Vibrio cholerae PS15.

Kumar S, Lindquist IE, Sundararajan A, Rajanna C, Floyd JT, Smith KP, Andersen JL, He G, Ayers RM, Johnson JA, Werdann JJ, Sandoval AA, Mojica NM, Schilkey FD, Mudge J, Varela MF.

Genome Announc. 2013 Jan;1(1). pii: e00227-12. doi: 10.1128/genomeA.00227-12. Epub 2013 Feb 14.

18.

Analysis of the transcriptomes downstream of Eyeless and the Hedgehog, Decapentaplegic and Notch signaling pathways in Drosophila melanogaster.

Nfonsam LE, Cano C, Mudge J, Schilkey FD, Curtiss J.

PLoS One. 2012;7(8):e44583. doi: 10.1371/journal.pone.0044583. Epub 2012 Aug 31.

19.

Genome-wide association genetics of an adaptive trait in lodgepole pine.

Parchman TL, Gompert Z, Mudge J, Schilkey FD, Benkman CW, Buerkle CA.

Mol Ecol. 2012 Jun;21(12):2991-3005. doi: 10.1111/j.1365-294X.2012.05513.x. Epub 2012 Mar 8.

PMID:
22404645
20.

Carrier testing for severe childhood recessive diseases by next-generation sequencing.

Bell CJ, Dinwiddie DL, Miller NA, Hateley SL, Ganusova EE, Mudge J, Langley RJ, Zhang L, Lee CC, Schilkey FD, Sheth V, Woodward JE, Peckham HE, Schroth GP, Kim RW, Kingsmore SF.

Sci Transl Med. 2011 Jan 12;3(65):65ra4. doi: 10.1126/scitranslmed.3001756.

21.

C6/36 Aedes albopictus cells have a dysfunctional antiviral RNA interference response.

Brackney DE, Scott JC, Sagawa F, Woodward JE, Miller NA, Schilkey FD, Mudge J, Wilusz J, Olson KE, Blair CD, Ebel GD.

PLoS Negl Trop Dis. 2010 Oct 26;4(10):e856. doi: 10.1371/journal.pntd.0000856.

22.

Genome, epigenome and RNA sequences of monozygotic twins discordant for multiple sclerosis.

Baranzini SE, Mudge J, van Velkinburgh JC, Khankhanian P, Khrebtukova I, Miller NA, Zhang L, Farmer AD, Bell CJ, Kim RW, May GD, Woodward JE, Caillier SJ, McElroy JP, Gomez R, Pando MJ, Clendenen LE, Ganusova EE, Schilkey FD, Ramaraj T, Khan OA, Huntley JJ, Luo S, Kwok PY, Wu TD, Schroth GP, Oksenberg JR, Hauser SL, Kingsmore SF.

Nature. 2010 Apr 29;464(7293):1351-6. doi: 10.1038/nature08990.

23.

Management of High-Throughput DNA Sequencing Projects: Alpheus.

Miller NA, Kingsmore SF, Farmer A, Langley RJ, Mudge J, Crow JA, Gonzalez AJ, Schilkey FD, Kim RJ, van Velkinburgh J, May GD, Black CF, Myers MK, Utsey JP, Frost NS, Sugarbaker DJ, Bueno R, Gullans SR, Baxter SM, Day SW, Retzel EF.

J Comput Sci Syst Biol. 2008 Dec 26;1:132.

24.

Genomic convergence analysis of schizophrenia: mRNA sequencing reveals altered synaptic vesicular transport in post-mortem cerebellum.

Mudge J, Miller NA, Khrebtukova I, Lindquist IE, May GD, Huntley JJ, Luo S, Zhang L, van Velkinburgh JC, Farmer AD, Lewis S, Beavis WD, Schilkey FD, Virk SM, Black CF, Myers MK, Mader LC, Langley RJ, Utsey JP, Kim RW, Roberts RC, Khalsa SK, Garcia M, Ambriz-Griffith V, Harlan R, Czika W, Martin S, Wolfinger RD, Perrone-Bizzozero NI, Schroth GP, Kingsmore SF.

PLoS One. 2008;3(11):e3625. doi: 10.1371/journal.pone.0003625. Epub 2008 Nov 5.

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