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Items: 1 to 20 of 37

1.

mBLAST: Keeping up with the sequencing explosion for (meta)genome analysis.

Davis C, Kota K, Baldhandapani V, Gong W, Abubucker S, Becker E, Martin J, Wylie KM, Khetani R, Hudson ME, Weinstock GM, Mitreva M.

J Data Mining Genomics Proteomics. 2015 Aug;4(3). pii: 135.

2.

Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment.

Nobel YR, Cox LM, Kirigin FF, Bokulich NA, Yamanishi S, Teitler I, Chung J, Sohn J, Barber CM, Goldfarb DS, Raju K, Abubucker S, Zhou Y, Ruiz VE, Li H, Mitreva M, Alekseyenko AV, Weinstock GM, Sodergren E, Blaser MJ.

Nat Commun. 2015 Jun 30;6:7486. doi: 10.1038/ncomms8486.

3.

Mining novel effector proteins from the esophageal gland cells of Meloidogyne incognita.

Rutter WB, Hewezi T, Abubucker S, Maier TR, Huang G, Mitreva M, Hussey RS, Baum TJ.

Mol Plant Microbe Interact. 2014 Sep;27(9):965-74. doi: 10.1094/MPMI-03-14-0076-R.

4.

The prevalence of species and strains in the human microbiome: a resource for experimental efforts.

Kraal L, Abubucker S, Kota K, Fischbach MA, Mitreva M.

PLoS One. 2014 May 14;9(5):e97279. doi: 10.1371/journal.pone.0097279.

5.

Identification and characterization of alternative splicing in parasitic nematode transcriptomes.

Abubucker S, McNulty SN, Rosa BA, Mitreva M.

Parasit Vectors. 2014 Apr 1;7:151. doi: 10.1186/1756-3305-7-151.

6.

Sepsis from the gut: the enteric habitat of bacteria that cause late-onset neonatal bloodstream infections.

Carl MA, Ndao IM, Springman AC, Manning SD, Johnson JR, Johnston BD, Burnham CA, Weinstock ES, Weinstock GM, Wylie TN, Mitreva M, Abubucker S, Zhou Y, Stevens HJ, Hall-Moore C, Julian S, Shaikh N, Warner BB, Tarr PI.

Clin Infect Dis. 2014 May;58(9):1211-8. doi: 10.1093/cid/ciu084.

7.

Genome of the human hookworm Necator americanus.

Tang YT, Gao X, Rosa BA, Abubucker S, Hallsworth-Pepin K, Martin J, Tyagi R, Heizer E, Zhang X, Bhonagiri-Palsikar V, Minx P, Warren WC, Wang Q, Zhan B, Hotez PJ, Sternberg PW, Dougall A, Gaze ST, Mulvenna J, Sotillo J, Ranganathan S, Rabelo EM, Wilson RK, Felgner PL, Bethony J, Hawdon JM, Gasser RB, Loukas A, Mitreva M.

Nat Genet. 2014 Mar;46(3):261-9. doi: 10.1038/ng.2875.

8.

Precise dissection of an Escherichia coli O157:H7 outbreak by single nucleotide polymorphism analysis.

Turabelidze G, Lawrence SJ, Gao H, Sodergren E, Weinstock GM, Abubucker S, Wylie T, Mitreva M, Shaikh N, Gautom R, Tarr PI.

J Clin Microbiol. 2013 Dec;51(12):3950-4. doi: 10.1128/JCM.01930-13.

9.

Discovery of anthelmintic drug targets and drugs using chokepoints in nematode metabolic pathways.

Taylor CM, Wang Q, Rosa BA, Huang SC, Powell K, Schedl T, Pearce EJ, Abubucker S, Mitreva M.

PLoS Pathog. 2013;9(8):e1003505. doi: 10.1371/journal.ppat.1003505.

10.

Gene expression analysis distinguishes tissue-specific and gender-related functions among adult Ascaris suum tissues.

Wang Z, Gao X, Martin J, Yin Y, Abubucker S, Rash AC, Li BW, Nash B, Hallsworth-Pepin K, Jasmer DP, Mitreva M.

Mol Genet Genomics. 2013 Jun;288(5-6):243-60. doi: 10.1007/s00438-013-0743-y.

11.

Using existing drugs as leads for broad spectrum anthelmintics targeting protein kinases.

Taylor CM, Martin J, Rao RU, Powell K, Abubucker S, Mitreva M.

PLoS Pathog. 2013 Feb;9(2):e1003149. doi: 10.1371/journal.ppat.1003149.

12.

Widespread colonization of the lung by Tropheryma whipplei in HIV infection.

Lozupone C, Cota-Gomez A, Palmer BE, Linderman DJ, Charlson ES, Sodergren E, Mitreva M, Abubucker S, Martin J, Yao G, Campbell TB, Flores SC, Ackerman G, Stombaugh J, Ursell L, Beck JM, Curtis JL, Young VB, Lynch SV, Huang L, Weinstock GM, Knox KS, Twigg H, Morris A, Ghedin E, Bushman FD, Collman RG, Knight R, Fontenot AP; Lung HIV Microbiome Project..

Am J Respir Crit Care Med. 2013 May 15;187(10):1110-7. doi: 10.1164/rccm.201211-2145OC.

13.

A nuclear single-nucleotide polymorphism (SNP) potentially useful for the separation of Rhodnius prolixus from members of the Rhodnius robustus cryptic species complex (Hemiptera: Reduviidae).

Pavan MG, Mesquita RD, Lawrence GG, Lazoski C, Dotson EM, Abubucker S, Mitreva M, Randall-Maher J, Monteiro FA.

Infect Genet Evol. 2013 Mar;14:426-33. doi: 10.1016/j.meegid.2012.10.018.

14.

Transcriptomic and proteomic analyses of a Wolbachia-free filarial parasite provide evidence of trans-kingdom horizontal gene transfer.

McNulty SN, Abubucker S, Simon GM, Mitreva M, McNulty NP, Fischer K, Curtis KC, Brattig NW, Weil GJ, Fischer PU.

PLoS One. 2012;7(9):e45777. doi: 10.1371/journal.pone.0045777.

15.

Exploring metazoan evolution through dynamic and holistic changes in protein families and domains.

Wang Z, Zarlenga D, Martin J, Abubucker S, Mitreva M.

BMC Evol Biol. 2012 Aug 3;12:138. doi: 10.1186/1471-2148-12-138.

16.

A case study for large-scale human microbiome analysis using JCVI's metagenomics reports (METAREP).

Goll J, Thiagarajan M, Abubucker S, Huttenhower C, Yooseph S, Methé BA.

PLoS One. 2012;7(6):e29044. doi: 10.1371/journal.pone.0029044.

17.

Metabolic reconstruction for metagenomic data and its application to the human microbiome.

Abubucker S, Segata N, Goll J, Schubert AM, Izard J, Cantarel BL, Rodriguez-Mueller B, Zucker J, Thiagarajan M, Henrissat B, White O, Kelley ST, Methé B, Schloss PD, Gevers D, Mitreva M, Huttenhower C.

PLoS Comput Biol. 2012;8(6):e1002358. doi: 10.1371/journal.pcbi.1002358.

18.

A framework for human microbiome research.

Human Microbiome Project Consortium..

Nature. 2012 Jun 13;486(7402):215-21. doi: 10.1038/nature11209.

19.

Structure, function and diversity of the healthy human microbiome.

Human Microbiome Project Consortium..

Nature. 2012 Jun 13;486(7402):207-14. doi: 10.1038/nature11234.

20.

Effects of doxycycline on gene expression in Wolbachia and Brugia malayi adult female worms in vivo.

Rao RU, Huang Y, Abubucker S, Heinz M, Crosby SD, Mitreva M, Weil GJ.

J Biomed Sci. 2012 Feb 9;19:21. doi: 10.1186/1423-0127-19-21.

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