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Items: 26

1.

Strains used in whole organism Plasmodium falciparum vaccine trials differ in genome structure, sequence, and immunogenic potential.

Moser KA, Drábek EF, Dwivedi A, Stucke EM, Crabtree J, Dara A, Shah Z, Adams M, Li T, Rodrigues PT, Koren S, Phillippy AM, Munro JB, Ouattara A, Sparklin BC, Dunning Hotopp JC, Lyke KE, Sadzewicz L, Tallon LJ, Spring MD, Jongsakul K, Lon C, Saunders DL, Ferreira MU, Nyunt MM, Laufer MK, Travassos MA, Sauerwein RW, Takala-Harrison S, Fraser CM, Sim BKL, Hoffman SL, Plowe CV, Silva JC.

Genome Med. 2020 Jan 8;12(1):6. doi: 10.1186/s13073-019-0708-9.

2.

Drug Repurposing of Bromodomain Inhibitors as Potential Novel Therapeutic Leads for Lymphatic Filariasis Guided by Multispecies Transcriptomics.

Chung M, Teigen LE, Libro S, Bromley RE, Olley D, Kumar N, Sadzewicz L, Tallon LJ, Mahurkar A, Foster JM, Michalski ML, Dunning Hotopp JC.

mSystems. 2019 Dec 3;4(6). pii: e00596-19. doi: 10.1128/mSystems.00596-19.

3.

FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science.

Sichtig H, Minogue T, Yan Y, Stefan C, Hall A, Tallon L, Sadzewicz L, Nadendla S, Klimke W, Hatcher E, Shumway M, Aldea DL, Allen J, Koehler J, Slezak T, Lovell S, Schoepp R, Scherf U.

Nat Commun. 2019 Jul 25;10(1):3313. doi: 10.1038/s41467-019-11306-6.

4.

Intratumor genetic heterogeneity in squamous cell carcinoma of the oral cavity.

Zandberg DP, Tallon LJ, Nagaraj S, Sadzewicz LK, Zhang Y, Strome MB, Zhao XE, Vavikolanu K, Zhang X, Papadimitriou JC, Hubbard FA, Bentzen SM, Strome SE, Fraser CM.

Head Neck. 2019 Aug;41(8):2514-2524. doi: 10.1002/hed.25719. Epub 2019 Mar 14.

PMID:
30869813
5.

Multispecies Transcriptomics Data Set of Brugia malayi, Its Wolbachia Endosymbiont wBm, and Aedes aegypti across the B. malayi Life Cycle.

Chung M, Teigen L, Libro S, Bromley RE, Kumar N, Sadzewicz L, Tallon LJ, Foster JM, Michalski ML, Dunning Hotopp JC.

Microbiol Resour Announc. 2018 Nov 8;7(18). pii: e01306-18. doi: 10.1128/MRA.01306-18. eCollection 2018 Nov.

6.

A comparative analysis of library prep approaches for sequencing low input translatome samples.

Song Y, Milon B, Ott S, Zhao X, Sadzewicz L, Shetty A, Boger ET, Tallon LJ, Morell RJ, Mahurkar A, Hertzano R.

BMC Genomics. 2018 Sep 21;19(1):696. doi: 10.1186/s12864-018-5066-2.

7.

Targeted enrichment outperforms other enrichment techniques and enables more multi-species RNA-Seq analyses.

Chung M, Teigen L, Liu H, Libro S, Shetty A, Kumar N, Zhao X, Bromley RE, Tallon LJ, Sadzewicz L, Fraser CM, Rasko DA, Filler SG, Foster JM, Michalski ML, Bruno VM, Dunning Hotopp JC.

Sci Rep. 2018 Sep 6;8(1):13377. doi: 10.1038/s41598-018-31420-7.

8.

Aligner optimization increases accuracy and decreases compute times in multi-species sequence data.

Robinson KM, Hawkins AS, Santana-Cruz I, Adkins RS, Shetty AC, Nagaraj S, Sadzewicz L, Tallon LJ, Rasko DA, Fraser CM, Mahurkar A, Silva JC, Dunning Hotopp JC.

Microb Genom. 2017 Jul 8;3(9):e000122. doi: 10.1099/mgen.0.000122. eCollection 2017 Sep.

9.

Whole-Genome Sequences of Bacteremia Isolates of Bordetella holmesii.

Tettelin H, Hooven TA, Zhao X, Su Q, Sadzewicz L, Tallon LJ, Fraser CM, Ratner AJ.

Genome Announc. 2017 Sep 28;5(39). pii: e01023-17. doi: 10.1128/genomeA.01023-17.

10.

Analysis of complete genome sequence and major surface antigens of Neorickettsia helminthoeca, causative agent of salmon poisoning disease.

Lin M, Bachman K, Cheng Z, Daugherty SC, Nagaraj S, Sengamalay N, Ott S, Godinez A, Tallon LJ, Sadzewicz L, Fraser C, Dunning Hotopp JC, Rikihisa Y.

Microb Biotechnol. 2017 Jul;10(4):933-957. doi: 10.1111/1751-7915.12731. Epub 2017 Jun 6.

11.

Whole-Genome Sequences of Burkholderia pseudomallei Isolates Exhibiting Decreased Meropenem Susceptibility.

Price EP, Smith ML, Paxinos EE, Tallon LJ, Sadzewicz L, Sengamalay N, Baird RW, Currie BJ, Sarovich DS.

Genome Announc. 2017 Apr 6;5(14). pii: e00053-17. doi: 10.1128/genomeA.00053-17.

12.

Genome-wide diversity and gene expression profiling of Babesia microti isolates identify polymorphic genes that mediate host-pathogen interactions.

Silva JC, Cornillot E, McCracken C, Usmani-Brown S, Dwivedi A, Ifeonu OO, Crabtree J, Gotia HT, Virji AZ, Reynes C, Colinge J, Kumar V, Lawres L, Pazzi JE, Pablo JV, Hung C, Brancato J, Kumari P, Orvis J, Tretina K, Chibucos M, Ott S, Sadzewicz L, Sengamalay N, Shetty AC, Su Q, Tallon L, Fraser CM, Frutos R, Molina DM, Krause PJ, Ben Mamoun C.

Sci Rep. 2016 Oct 18;6:35284. doi: 10.1038/srep35284.

13.

Efficient Enrichment of Bacterial mRNA from Host-Bacteria Total RNA Samples.

Kumar N, Lin M, Zhao X, Ott S, Santana-Cruz I, Daugherty S, Rikihisa Y, Sadzewicz L, Tallon LJ, Fraser CM, Dunning Hotopp JC.

Sci Rep. 2016 Oct 7;6:34850. doi: 10.1038/srep34850.

14.

Concurrent Mutations in ATM and Genes Associated with Common γ Chain Signaling in Peripheral T Cell Lymphoma.

Simpson HM, Khan RZ, Song C, Sharma D, Sadashivaiah K, Furusawa A, Liu X, Nagaraj S, Sengamalay N, Sadzewicz L, Tallon LJ, Chen QC, Livak F, Rapoport AP, Kimball A, Banerjee A.

PLoS One. 2015 Nov 4;10(11):e0141906. doi: 10.1371/journal.pone.0141906. eCollection 2015.

15.

Transcriptional attenuation controls macrolide inducible efflux and resistance in Streptococcus pneumoniae and in other Gram-positive bacteria containing mef/mel(msr(D)) elements.

Chancey ST, Bai X, Kumar N, Drabek EF, Daugherty SC, Colon T, Ott S, Sengamalay N, Sadzewicz L, Tallon LJ, Fraser CM, Tettelin H, Stephens DS.

PLoS One. 2015 Feb 19;10(2):e0116254. doi: 10.1371/journal.pone.0116254. eCollection 2015.

16.

Single molecule sequencing and genome assembly of a clinical specimen of Loa loa, the causative agent of loiasis.

Tallon LJ, Liu X, Bennuru S, Chibucos MC, Godinez A, Ott S, Zhao X, Sadzewicz L, Fraser CM, Nutman TB, Dunning Hotopp JC.

BMC Genomics. 2014 Sep 12;15:788. doi: 10.1186/1471-2164-15-788.

17.

Standardized metadata for human pathogen/vector genomic sequences.

Dugan VG, Emrich SJ, Giraldo-Calderón GI, Harb OS, Newman RM, Pickett BE, Schriml LM, Stockwell TB, Stoeckert CJ Jr, Sullivan DE, Singh I, Ward DV, Yao A, Zheng J, Barrett T, Birren B, Brinkac L, Bruno VM, Caler E, Chapman S, Collins FH, Cuomo CA, Di Francesco V, Durkin S, Eppinger M, Feldgarden M, Fraser C, Fricke WF, Giovanni M, Henn MR, Hine E, Hotopp JD, Karsch-Mizrachi I, Kissinger JC, Lee EM, Mathur P, Mongodin EF, Murphy CI, Myers G, Neafsey DE, Nelson KE, Nierman WC, Puzak J, Rasko D, Roos DS, Sadzewicz L, Silva JC, Sobral B, Squires RB, Stevens RL, Tallon L, Tettelin H, Wentworth D, White O, Will R, Wortman J, Zhang Y, Scheuermann RH.

PLoS One. 2014 Jun 17;9(6):e99979. doi: 10.1371/journal.pone.0099979. eCollection 2014.

18.

Genome Sequence of Escherichia coli O157:H7 Strain 2886-75, Associated with the First Reported Case of Human Infection in the United States.

Sanjar F, Hazen TH, Shah SM, Koenig SS, Agrawal S, Daugherty S, Sadzewicz L, Tallon LJ, Mammel MK, Feng P, Soderlund R, Tarr PI, Debroy C, Dudley EG, Cebula TA, Ravel J, Fraser CM, Rasko DA, Eppinger M.

Genome Announc. 2014 Jan 9;2(1). pii: e01120-13. doi: 10.1128/genomeA.01120-13.

19.

Genetic variation in vitro and in vivo of an attenuated Lassa vaccine candidate.

Zapata JC, Goicochea M, Nadai Y, Eyzaguirre LM, Carr JK, Tallon LJ, Sadzewicz L, Myers G, Fraser CM, Su Q, Djavani M, Lukashevich IS, Salvato MS.

J Virol. 2014 Mar;88(6):3058-66. doi: 10.1128/JVI.03035-13. Epub 2013 Dec 11.

20.

Genome sequencing and comparative genomics of honey bee microsporidia, Nosema apis reveal novel insights into host-parasite interactions.

Chen Yp, Pettis JS, Zhao Y, Liu X, Tallon LJ, Sadzewicz LD, Li R, Zheng H, Huang S, Zhang X, Hamilton MC, Pernal SF, Melathopoulos AP, Yan X, Evans JD.

BMC Genomics. 2013 Jul 5;14:451. doi: 10.1186/1471-2164-14-451.

21.

Serum Antibody Repertoire Profiling Using In Silico Antigen Screen.

Liu X, Hu Q, Liu S, Tallo LJ, Sadzewicz L, Schettine CA, Nikiforov M, Klyushnenkova EN, Ionov Y.

PLoS One. 2013 Jun 27;8(6):e67181. doi: 10.1371/journal.pone.0067181. Print 2013.

22.

Whole-Genome Draft Sequences of 26 Enterohemorrhagic Escherichia coli O157:H7 Strains.

Eppinger M, Daugherty S, Agrawal S, Galens K, Sengamalay N, Sadzewicz L, Tallon L, Cebula TA, Mammel MK, Feng P, Soderlund R, Tarr PI, Debroy C, Dudley EG, Fraser CM, Ravel J.

Genome Announc. 2013 Feb 28;1(2):e0013412. doi: 10.1128/genomeA.00134-12.

23.

Genomic insights into the emerging human pathogen Mycobacterium massiliense.

Tettelin H, Sampaio EP, Daugherty SC, Hine E, Riley DR, Sadzewicz L, Sengamalay N, Shefchek K, Su Q, Tallon LJ, Conville P, Olivier KN, Holland SM, Fraser CM, Zelazny AM.

J Bacteriol. 2012 Oct;194(19):5450. doi: 10.1128/JB.01200-12.

24.

Rare variants in ischemic stroke: an exome pilot study.

Cole JW, Stine OC, Liu X, Pratap A, Cheng Y, Tallon LJ, Sadzewicz LK, Dueker N, Wozniak MA, Stern BJ, Meschia JF, Mitchell BD, Kittner SJ, O'Connell JR.

PLoS One. 2012;7(4):e35591. doi: 10.1371/journal.pone.0035591. Epub 2012 Apr 20.

25.

Genetic deletion of trkB.T1 increases neuromuscular function.

Dorsey SG, Lovering RM, Renn CL, Leitch CC, Liu X, Tallon LJ, Sadzewicz LD, Pratap A, Ott S, Sengamalay N, Jones KM, Barrick C, Fulgenzi G, Becker J, Voelker K, Talmadge R, Harvey BK, Wyatt RM, Vernon-Pitts E, Zhang C, Shokat K, Fraser-Liggett C, Balice-Gordon RJ, Tessarollo L, Ward CW.

Am J Physiol Cell Physiol. 2012 Jan 1;302(1):C141-53. doi: 10.1152/ajpcell.00469.2010. Epub 2011 Oct 5.

26.

Drug-resistant breast cancer cells frequently retain expression of a functional wild-type p53 protein.

Gudas JM, Nguyen H, Li T, Sadzewicz L, Robey R, Wosikowski K, Cowan KH.

Carcinogenesis. 1996 Jul;17(7):1417-27.

PMID:
8706243

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