Publications
You will able to find the following here:
- Acknowledgement information for all publications, talk and poster can be found on the FAQs Tab, Grants section.
- Publications, please see a recent selection of publications in which the HTSF has assisted investigators with their work.
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Building a Quality Management System in a Core Facility: A Genomics Core Case Study.
Gregory, Christopher W. Journal of Biomolecular Techniques, 2020 Jul 20; 31 (2): 57-65 -
Unlocking the transcriptomic potential of formalin-fixed paraffin embedded clinical tissues: comparison of gene expression profiling approaches.
Turnbull AK, Selli C, Martinez-Perez C, Fernando A, Renshaw L, Keys J, Figueroa JD, He X, Tanioka M, Munro AF, Murphy L, Fawkes A, Clark R, Coutts A, Perou CM, Carey LA, Dixon JM, Sims AH.
BMC Bioinformatics. 2020 Jan 28;21(1):30. doi: 10.1186/s12859-020-3365-5.
PMID: 31992186 [PubMed – indexed for MEDLINE] Free PMC Article -
Use of high throughput amplicon sequencing and ethidium monoazide dye to track microbiota changes in an equol-producing menopausal woman receiving a long-term isoflavones treatment.
Guadamuro L, Azcárate-Peril MA, Tojo R, Mayo B, Delgado S.
AIMS Microbiol. 2019 Mar 22;5(1):102-116. doi: 10.3934/microbiol.2019.1.102. eCollection 2019.
PMID: 31384706 [PubMed] Free PMC Article -
Hindgut microbiota in laboratory-reared and wild Triatoma infestans.
Waltmann A, Willcox AC, Balasubramanian S, Borrini Mayori K, Mendoza Guerrero S, Salazar Sanchez RS, Roach J, Condori Pino C, Gilman RH, Bern C, Juliano JJ, Levy MZ, Meshnick SR, Bowman NM.
PLoS Negl Trop Dis. 2019 May 6;13(5):e0007383. doi: 10.1371/journal.pntd.0007383. eCollection 2019 May.
PMID: 31059501 [PubMed – indexed for MEDLINE] Free PMC Article -
Dengue type 1 viruses circulating in humans are highly infectious and poorly neutralized by human antibodies.
Raut R, Corbett KS, Tennekoon RN, Premawansa S, Wijewickrama A, Premawansa G, Mieczkowski P, Rückert C, Ebel GD, De Silva AD, de Silva AM.
Proc Natl Acad Sci U S A. 2019 Jan 2;116(1):227-232. doi: 10.1073/pnas.1812055115. Epub 2018 Dec 5.
PMID: 30518559 [PubMed – indexed for MEDLINE] Free PMC Article -
Comparative evaluation of a new magnetic bead-based DNA extraction method from fecal samples for downstream next-generation 16S rRNA gene sequencing.
McGaughey KD, Yilmaz-Swenson T, Elsayed NM, Cruz DA, Rodriguez RR, Kritzer MD, Peterchev AV, Gray M, Lewis SR, Roach J, Wetsel WC, Williamson DE.
PLoS One. 2018 Aug 23;13(8):e0202858. doi: 10.1371/journal.pone.0202858. eCollection 2018. Erratum in: PLoS One. 2019 Feb 19;14(2):e0212712.
PMID: 30138447 [PubMed – indexed for MEDLINE] Free PMC Article -
A Mutation in the Borcs7 Subunit of the Lysosome Regulatory BORC Complex Results in Motor Deficits and Dystrophic Axonopathy in Mice.
Snouwaert JN, Church RJ, Jania L, Nguyen M, Wheeler ML, Saintsing A, Mieczkowski P, Manuel de Villena FP, Armao D, Moy SS, Lorenzo DN, Koller BH.
Cell Rep. 2018 Jul 31;24(5):1254-1265. doi: 10.1016/j.celrep.2018.06.118.
PMID: 30067980 [PubMed – indexed for MEDLINE] Free Article -
Reuse of malaria rapid diagnostic tests for amplicon deep sequencing to estimate Plasmodium falciparum transmission intensity in western Uganda.
Boyce RM, Hathaway N, Fulton T, Reyes R, Matte M, Ntaro M, Mulogo E, Waltmann A, Bailey JA, Siedner MJ, Juliano JJ.
Sci Rep. 2018 Jul 5;8(1):10159. doi: 10.1038/s41598-018-28534-3.
PMID: 29977002 [PubMed – indexed for MEDLINE] Free PMC Article -
RIG-I Detects Kaposi’s Sarcoma-Associated Herpesvirus Transcripts in a RNA Polymerase III-Independent Manner.
Zhang Y, Dittmer DP, Mieczkowski PA, Host KM, Fusco WG, Duncan JA, Damania B.
mBio. 2018 Jul 3;9(4). pii: e00823-18. doi: 10.1128/mBio.00823-18.
PMID: 29970461 [PubMed – indexed for MEDLINE] Free PMC Article -
Ceratocystis cacaofunesta genome analysis reveals a large expansion of extracellular phosphatidylinositol-specific phospholipase-C genes (PI-PLC).
Molano EPL, Cabrera OG, Jose J, do Nascimento LC, Carazzolle MF, Teixeira PJPL, Alvarez JC, Tiburcio RA, Tokimatu Filho PM, de Lima GMA, Guido RVC, Corrêa TLR, Leme AFP, Mieczkowski P, Pereira GAG.
BMC Genomics. 2018 Jan 17;19(1):58. doi: 10.1186/s12864-018-4440-4.
PMID: 29343217 [PubMed – indexed for MEDLINE] Free PMC Article -
Formation of a TBX20-CASZ1 protein complex is protective against dilated cardiomyopathy and critical for cardiac homeostasis.
Kennedy L, Kaltenbrun E, Greco TM, Temple B, Herring LE, Cristea IM, Conlon FL.
PLoS Genet. 2017 Sep 25;13(9):e1007011. doi: 10.1371/journal.pgen.1007011. eCollection 2017 Sep.
PMID: 28945738 [PubMed – indexed for MEDLINE] Free PMC Article -
A comparison of sequencing platforms and bioinformatics pipelines for compositional analysis of the gut microbiome.
Allali I, Arnold JW, Roach J, Cadenas MB, Butz N, Hassan HM, Koci M, Ballou A, Mendoza M, Ali R, Azcarate-Peril MA.
BMC Microbiol. 2017 Sep 13;17(1):194. doi: 10.1186/s12866-017-1101-8.
PMID: 28903732 [PubMed – indexed for MEDLINE] Free PMC Article -
Elucidation of the calcineurin-Crz1 stress response transcriptional network in the human fungal pathogen Cryptococcus neoformans.
Chow EW, Clancey SA, Billmyre RB, Averette AF, Granek JA, Mieczkowski P, Cardenas ME, Heitman J.
PLoS Genet. 2017 Apr 4;13(4):e1006667. doi: 10.1371/journal.pgen.1006667. eCollection 2017 Apr.
PMID: 28376087 [PubMed – indexed for MEDLINE] Free PMC Article -
Emerging Technologies for Gut Microbiome Research.
Arnold JW, Roach J, Azcarate-Peril MA.
Trends Microbiol. 2016 Nov;24(11):887-901. doi: 10.1016/j.tim.2016.06.008. Epub 2016 Jul 15. Review.
PMID: 27426971 [PubMed – indexed for MEDLINE] Free PMC Article -
Cavitation Enhancing Nanodroplets Mediate Efficient DNA Fragmentation in a Bench Top Ultrasonic Water Bath.
Kasoji SK, Pattenden SG, Malc EP, Jayakody CN, Tsuruta JK, Mieczkowski PA, Janzen WP, Dayton PA.
PLoS One. 2015 Jul 17;10(7):e0133014. doi: 10.1371/journal.pone.0133014. eCollection 2015.
PMID: 26186461 [PubMed – indexed for MEDLINE] Free PMC Article -
Comparison of Bacterial Community Composition of Primary and Persistent Endodontic Infections Using Pyrosequencing.
Tzanetakis GN, Azcarate-Peril MA, Zachaki S, Panopoulos P, Kontakiotis EG, Madianos PN, Divaris K.
J Endod. 2015 Aug;41(8):1226-33. doi: 10.1016/j.joen.2015.03.010. Epub 2015 Apr 21.
PMID: 25906920 [PubMed – indexed for MEDLINE] Free PMC Article -
Tracking replication enzymology in vivo by genome-wide mapping of ribonucleotide incorporation.
Clausen AR, Lujan SA, Burkholder AB, Orebaugh CD, Williams JS, Clausen MF, Malc EP, Mieczkowski PA, Fargo DC, Smith DJ, Kunkel TA.
Nat Struct Mol Biol. 2015 Mar;22(3):185-91. doi: 10.1038/nsmb.2957. Epub 2015 Jan 26.
PMID: 25622295 [PubMed – indexed for MEDLINE] Free PMC Article -
Unisexual reproduction drives meiotic recombination and phenotypic and karyotypic plasticity in Cryptococcus neoformans.
Sun S, Billmyre RB, Mieczkowski PA, Heitman J.
PLoS Genet. 2014 Dec 11;10(12):e1004849. doi: 10.1371/journal.pgen.1004849. eCollection 2014 Dec.
PMID: 25503976 [PubMed – indexed for MEDLINE] Free PMC Article -
MT-Toolbox: improved amplicon sequencing using molecule tags.
Yourstone SM, Lundberg DS, Dangl JL, Jones CD.
BMC Bioinformatics. 2014 Aug 22;15:284. doi: 10.1186/1471-2105-15-284.
PMID: 25149069 [PubMed – indexed for MEDLINE] Free PMC Article -
Antifungal drug resistance evoked via RNAi-dependent epimutations.
Calo S, Shertz-Wall C, Lee SC, Bastidas RJ, Nicolás FE, Granek JA, Mieczkowski P, Torres-Martínez S, Ruiz-Vázquez RM, Cardenas ME, Heitman J.
Nature. 2014 Sep 25;513(7519):555-8. doi: 10.1038/nature13575. Epub 2014 Jul 27.
PMID: 25079329 [PubMed – indexed for MEDLINE] Free PMC Article
Ngondi JM, Ishengoma DS, Doctor SM, Thwai KL, Keeler C, Mkude S, Munishi OM, Willilo RA, Lalji S, Kaspar N, Kitojo C, Paxton LA, Hathaway NJ, Bailey JA, Juliano JJ, Meshnick SR, Gutman J.
Malar J. 2017 Jun 5;16(1):236. doi: 10.1186/s12936-017-1886-9.
PMID: 28583119 [PubMed – indexed for MEDLINE] Free PMC Article