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Publications

2016

In vivo protein interaction network analysis reveals porin-localized antibiotic inactivation in Acinetobacter baumannii strain AB5075.

Wu X, Chavez JD, Schweppe DK, Zheng C, Weisbrod CR, Eng JK, Murali A, Lee SA, Ramage E, Gallagher LA, Kulasekara HD, Edrozo ME, Kamischke CN, Brittnacher MJ, Miller SI, Singh PK, Manoil C, Bruce JE.

Nat Commun. 2016 Nov 11;7:13414. doi: 10.1038/ncomms13414.

PMID: 27834373

XLinkDB 2.0: Integrated, large-scale structural analysis of protein crosslinking data.

Devin K. Schweppe, Chunxiang Zheng, Juan D. Chavez, Arti T. Navare, Xia Wu, Jimmy K Eng, and James E. Bruce

Bioinformatics (2016) doi: 10.1093/bioinformatics/btw232

Spectral library searching to identify crosslinked peptides.

Schweppe DK, Chavez JD, Navare AT, Wu X, Ruiz B, Eng JK, Lam H, Bruce JE.

J Proteome Res. 2016 Apr 18. [Epub ahead of print]

PMID: 27089058

2015

Quantitative interactome analysis reveals a chemoresistant edgotype.

Chavez JD, Schweppe DK, Eng JK, Zheng C, Taipale A, Zhang Y, Takara K, Bruce JE.

Nat Commun. 2015 Aug 3;6:7928. doi: 10.1038/ncomms8928.

PubMed PMID: 26235782; PubMed Central PMCID: PMC4532879

Joint Transcriptional Control of Virulence and Resistance to Antibiotic and Environmental Stress in Acinetobacter baumannii.

Gebhardt MJ, Gallagher LA, Jacobson RK, Usacheva EA, Peterson LR, Zurawski DV, Shuman HA.

MBio. 2015 Nov 10;6(6). pii: e01660-15. doi: 10.1128/mBio.01660-15.

PubMed PMID: 26556274; PubMed Central PMCID: PMC4659468.

Host-Microbe Protein Interactions during Bacterial Infection.

Schweppe DK, Harding C, Chavez JD, Wu X, Ramage E, Singh PK, Manoil C, Bruce JE.

Chem Biol. 2015 Nov 3. pii: S1074-5521(15)00383-X. doi: 10.1016/j.chembiol.2015.09.015. [Epub ahead of print]

PubMed PMID: 26548613

XLmap: an R package to visualize and score protein structure models based on sites of protein cross-linking.

Schweppe DK, Chavez JD, Bruce JE.

Bioinformatics. 2015 Sep 26. pii: btv519. [Epub ahead of print]

PubMed PMID: 26411867

Resources for Genetic and Genomic Analysis of Emerging Pathogen Acinetobacter baumannii.

Gallagher LA, Ramage E, Weiss EJ, Radey M, Hayden HS, Held KG, Huse HK, Zurawski DV, Brittnacher MJ, Manoil C.

J Bacteriol. 2015 Jun 15;197(12):2027-35. doi: 10.1128/JB.00131-15. Epub 2015 Apr 6.

PubMed PMID: 25845845; PubMed Central PMCID: PMC4438207