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Items: 33

1.

Genetically diverse uropathogenic Escherichia coli adopt a common transcriptional program in patients with UTIs.

Sintsova A, Frick-Cheng AE, Smith S, Pirani A, Subashchandrabose S, Snitkin ES, Mobley H.

Elife. 2019 Oct 21;8. pii: e49748. doi: 10.7554/eLife.49748.

2.

Whole-Genome Sequencing To Identify Drivers of Carbapenem-Resistant Klebsiella pneumoniae Transmission within and between Regional Long-Term Acute-Care Hospitals.

Han JH, Lapp Z, Bushman F, Lautenbach E, Goldstein EJC, Mattei L, Hofstaedter CE, Kim D, Nachamkin I, Garrigan C, Jain T, Bilker W, Wolford HM, Slayton RB, Wise J, Tolomeo P, Snitkin ES.

Antimicrob Agents Chemother. 2019 Oct 22;63(11). pii: e01622-19. doi: 10.1128/AAC.01622-19. Print 2019 Nov.

PMID:
31451495
3.

Frequent MRSA Introductions into an Inner-City Jail: Indications of Community Transmission Networks.

Popovich KJ, Snitkin ES, Zawitz C, Aroutcheva A, Payne D, Thiede SN, Schoeny M, Green SJ, Hayden MK, Hota B, Weinstein RA.

Clin Infect Dis. 2019 Aug 20. pii: ciz818. doi: 10.1093/cid/ciz818. [Epub ahead of print]

PMID:
31425575
4.

Outbreak of Murine Infection with Clostridium difficile Associated with the Administration of a Pre- and Perinatal Methyl Donor Diet.

Mau T, Eckley SS, Bergin IL, Saund K, Villano JS, Vendrov KC, Snitkin ES, Young VB, Yung R.

mSphere. 2019 Mar 20;4(2). pii: e00138-19. doi: 10.1128/mSphereDirect.00138-19.

5.

Contamination of Hospital Plumbing: A Source or a Sink for Antibiotic-Resistant Organisms?

Snitkin ES.

JAMA Netw Open. 2019 Feb 1;2(2):e187660. doi: 10.1001/jamanetworkopen.2018.7660. No abstract available.

PMID:
30768186
6.

A retrospective cohort study of antibiotic exposure and vancomycin-resistant Enterococcus recolonization.

Hughes HY, Odom RT, Michelin AV, Snitkin ES, Sinaii N, Milstone AM, Henderson DK, Palmore TN.

Infect Control Hosp Epidemiol. 2019 Apr;40(4):414-419. doi: 10.1017/ice.2019.15. Epub 2019 Feb 7.

PMID:
30729903
7.

Replication Study: Intestinal inflammation targets cancer-inducing activity of the microbiota.

Eaton K, Pirani A, Snitkin ES; Reproducibility Project: Cancer Biology, Iorns E, Tsui R, Denis A, Perfito N, Errington TM, Iorns E, Tsui R, Denis A, Perfito N, Errington TM.

Elife. 2018 Oct 8;7. pii: e34364. doi: 10.7554/eLife.34364.

8.

Identification of Pathogenicity-Associated Loci in Klebsiella pneumoniae from Hospitalized Patients.

Martin RM, Cao J, Wu W, Zhao L, Manthei DM, Pirani A, Snitkin E, Malani PN, Rao K, Bachman MA.

mSystems. 2018 Jun 26;3(3). pii: e00015-18. doi: 10.1128/mSystems.00015-18. eCollection 2018 May-Jun.

9.

Genomic epidemiology of multidrug-resistant Gram-negative organisms.

Hawken SE, Snitkin ES.

Ann N Y Acad Sci. 2019 Jan;1435(1):39-56. doi: 10.1111/nyas.13672. Epub 2018 Mar 31. Review.

PMID:
29604079
10.

Rapid Growth of Uropathogenic Escherichia coli during Human Urinary Tract Infection.

Forsyth VS, Armbruster CE, Smith SN, Pirani A, Springman AC, Walters MS, Nielubowicz GR, Himpsl SD, Snitkin ES, Mobley HLT.

MBio. 2018 Mar 6;9(2). pii: e00186-18. doi: 10.1128/mBio.00186-18.

11.
12.

Integrated genomic and interfacility patient-transfer data reveal the transmission pathways of multidrug-resistant Klebsiella pneumoniae in a regional outbreak.

Snitkin ES, Won S, Pirani A, Lapp Z, Weinstein RA, Lolans K, Hayden MK.

Sci Transl Med. 2017 Nov 22;9(417). pii: eaan0093. doi: 10.1126/scitranslmed.aan0093.

PMID:
29167391
13.

Network of microbial and antibiotic interactions drive colonization and infection with multidrug-resistant organisms.

Wang J, Foxman B, Mody L, Snitkin ES.

Proc Natl Acad Sci U S A. 2017 Sep 26;114(39):10467-10472. doi: 10.1073/pnas.1710235114. Epub 2017 Sep 12.

14.

Genomic and Epidemiological Evidence for Community Origins of Hospital-Onset Methicillin-Resistant Staphylococcus aureus Bloodstream Infections.

Popovich KJ, Snitkin ES, Hota B, Green SJ, Pirani A, Aroutcheva A, Weinstein RA.

J Infect Dis. 2017 Jun 1;215(11):1640-1647. doi: 10.1093/infdis/jiw647.

15.

Whole Genome Sequencing-Implications for Infection Prevention and Outbreak Investigations.

Popovich KJ, Snitkin ES.

Curr Infect Dis Rep. 2017 Apr;19(4):15. doi: 10.1007/s11908-017-0570-0. Review.

PMID:
28281083
16.

Genomic Epidemiology of USA300 Methicillin-Resistant Staphylococcus aureus in an Urban Community.

Popovich KJ, Snitkin E, Green SJ, Aroutcheva A, Hayden MK, Hota B, Weinstein RA.

Clin Infect Dis. 2016 Jan 1;62(1):37-44. doi: 10.1093/cid/civ794. Epub 2015 Sep 7.

17.

Pseudomonas aeruginosa adaptation to human hosts.

Snitkin ES, Segre JA.

Nat Genet. 2015 Jan;47(1):2-3. doi: 10.1038/ng.3172.

PMID:
25547595
18.

Single-molecule sequencing to track plasmid diversity of hospital-associated carbapenemase-producing Enterobacteriaceae.

Conlan S, Thomas PJ, Deming C, Park M, Lau AF, Dekker JP, Snitkin ES, Clark TA, Luong K, Song Y, Tsai YC, Boitano M, Dayal J, Brooks SY, Schmidt B, Young AC, Thomas JW, Bouffard GG, Blakesley RW; NISC Comparative Sequencing Program, Mullikin JC, Korlach J, Henderson DK, Frank KM, Palmore TN, Segre JA.

Sci Transl Med. 2014 Sep 17;6(254):254ra126. doi: 10.1126/scitranslmed.3009845.

19.

Genomic insights into the fate of colistin resistance and Acinetobacter baumannii during patient treatment.

Snitkin ES, Zelazny AM, Gupta J; NISC Comparative Sequencing Program, Palmore TN, Murray PR, Segre JA.

Genome Res. 2013 Jul;23(7):1155-62. doi: 10.1101/gr.154328.112. Epub 2013 Apr 5.

20.

Pan-PCR, a computational method for designing bacterium-typing assays based on whole-genome sequence data.

Yang JY, Brooks S, Meyer JA, Blakesley RR, Zelazny AM, Segre JA, Snitkin ES.

J Clin Microbiol. 2013 Mar;51(3):752-8. doi: 10.1128/JCM.02671-12. Epub 2012 Dec 19.

21.

Tracking a hospital outbreak of carbapenem-resistant Klebsiella pneumoniae with whole-genome sequencing.

Snitkin ES, Zelazny AM, Thomas PJ, Stock F; NISC Comparative Sequencing Program Group, Henderson DK, Palmore TN, Segre JA.

Sci Transl Med. 2012 Aug 22;4(148):148ra116. doi: 10.1126/scitranslmed.3004129.

22.

Genome-wide recombination drives diversification of epidemic strains of Acinetobacter baumannii.

Snitkin ES, Zelazny AM, Montero CI, Stock F, Mijares L; NISC Comparative Sequence Program, Murray PR, Segre JA.

Proc Natl Acad Sci U S A. 2011 Aug 16;108(33):13758-63. doi: 10.1073/pnas.1104404108. Epub 2011 Aug 8.

23.

Epistatic interaction maps relative to multiple metabolic phenotypes.

Snitkin ES, Segrè D.

PLoS Genet. 2011 Feb 10;7(2):e1001294. doi: 10.1371/journal.pgen.1001294.

24.

Longitudinal shift in diabetic wound microbiota correlates with prolonged skin defense response.

Grice EA, Snitkin ES, Yockey LJ, Bermudez DM; NISC Comparative Sequencing Program, Liechty KW, Segre JA.

Proc Natl Acad Sci U S A. 2010 Aug 17;107(33):14799-804. doi: 10.1073/pnas.1004204107. Epub 2010 Jul 28. Erratum in: Proc Natl Acad Sci U S A. 2010 Oct 12;107(41):17851.

25.

Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network.

Linghu B, Snitkin ES, Hu Z, Xia Y, Delisi C.

Genome Biol. 2009;10(9):R91. doi: 10.1186/gb-2009-10-9-r91. Epub 2009 Sep 3.

26.

Metabolic network model of a human oral pathogen.

Mazumdar V, Snitkin ES, Amar S, Segrè D.

J Bacteriol. 2009 Jan;191(1):74-90. doi: 10.1128/JB.01123-08. Epub 2008 Oct 17.

27.

Model-driven analysis of experimentally determined growth phenotypes for 465 yeast gene deletion mutants under 16 different conditions.

Snitkin ES, Dudley AM, Janse DM, Wong K, Church GM, Segrè D.

Genome Biol. 2008;9(9):R140. doi: 10.1186/gb-2008-9-9-r140. Epub 2008 Sep 22.

28.

VisANT: an integrative framework for networks in systems biology.

Hu Z, Snitkin ES, DeLisi C.

Brief Bioinform. 2008 Jul;9(4):317-25. doi: 10.1093/bib/bbn020. Epub 2008 May 7.

29.

High-precision high-coverage functional inference from integrated data sources.

Linghu B, Snitkin ES, Holloway DT, Gustafson AM, Xia Y, DeLisi C.

BMC Bioinformatics. 2008 Feb 25;9:119. doi: 10.1186/1471-2105-9-119.

30.

Optimality criteria for the prediction of metabolic fluxes in yeast mutants.

Snitkin ES, Segrè D.

Genome Inform. 2008;20:123-34.

PMID:
19425128
31.

Towards the identification of essential genes using targeted genome sequencing and comparative analysis.

Gustafson AM, Snitkin ES, Parker SC, DeLisi C, Kasif S.

BMC Genomics. 2006 Oct 19;7:265.

32.

Comparative assessment of performance and genome dependence among phylogenetic profiling methods.

Snitkin ES, Gustafson AM, Mellor J, Wu J, DeLisi C.

BMC Bioinformatics. 2006 Sep 27;7:420.

33.

TSG-6 protein binding to glycosaminoglycans: formation of stable complexes with hyaluronan and binding to chondroitin sulfates.

Wisniewski HG, Snitkin ES, Mindrescu C, Sweet MH, Vilcek J.

J Biol Chem. 2005 Apr 15;280(15):14476-84. Epub 2005 Feb 7.

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