• 1963 Citations
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Article
2020
1 Scopus citations
2019

The human gut chemical landscape predicts microbe-mediated biotransformation of foods and drugs

Guthrie, L., Wolfson, S. & Kelly, L., Jun 2019, In : eLife. 8, e42866.

Research output: Contribution to journalArticle

Open Access
8 Scopus citations
2018

A major lineage of non-tailed dsDNA viruses as unrecognized killers of marine bacteria

Kauffman, K. M., Hussain, F. A., Yang, J., Arevalo, P., Brown, J. M., Chang, W. K., Vaninsberghe, D., Elsherbini, J., Sharma, R. S., Cutler, M. B., Kelly, L. & Polz, M. F., Feb 1 2018, In : Nature. 554, 7690, p. 118-122 5 p.

Research output: Contribution to journalArticle

46 Scopus citations

Data descriptor: Single cell genomes of Prochlorococcus, Synechococcus, and sympatric microbes from diverse marine environments

Berube, P. M., Biller, S. J., Hackl, T., Hogle, S. L., Satinsky, B. M., Becker, J. W., Braakman, R., Collins, S. B., Kelly, L., Berta-Thompson, J., Coe, A., Bergauer, K., Bouman, H. A., Browning, T. J., De Corte, D., Hassler, C., Hulata, Y., Jacquot, J. E., Maas, E. W., Reinthaler, T. & 5 others, Sintes, E., Yokokawa, T., Lindell, D., Stepanauskas, R. & Chisholm, S. W., Jan 1 2018, In : Scientific Data. 5, 180154.

Research output: Contribution to journalArticle

17 Scopus citations

Data Descriptor: Viruses of the Nahant Collection, characterization of 251 marine Vibrionaceae viruses

Kauffman, K. M., Brown, J. M., Sharma, R. S., VanInsberghe, D., Elsherbini, J., Polz, M. & Kelly, L., Jul 3 2018, In : Scientific Data. 5, 180114.

Research output: Contribution to journalArticle

4 Scopus citations
2017

Human microbiome signatures of differential colorectal cancer drug metabolism

Guthrie, L., Gupta, S., Daily, J. & Kelly, L., Dec 1 2017, In : npj Biofilms and Microbiomes. 3, 1, 27.

Research output: Contribution to journalArticle

32 Scopus citations
2015

Microbiology and ecology are vitally important to premedical curricula

Smith, V. H., Rubinstein, R. J., Park, S., Kelly, L. & Klepac-Ceraj, V., Jan 1 2015, In : Evolution, Medicine and Public Health. 2015, 1, p. 179-192 14 p., eov014.

Research output: Contribution to journalArticle

2 Scopus citations

Structure and Inhibition of Microbiome β-Glucuronidases Essential to the Alleviation of Cancer Drug Toxicity

Wallace, B. D., Roberts, A. B., Pollet, R. M., Ingle, J. D., Biernat, K. A., Pellock, S. J., Venkatesh, M. K., Guthrie, L., O'Neal, S. K., Robinson, S. J., Dollinger, M., Figueroa, E., McShane, S. R., Cohen, R. D., Jin, J., Frye, S. V., Zamboni, W. C., Pepe-Ranney, C., Mani, S., Kelly, L. & 1 others, Redinbo, M. R., Sep 17 2015, In : Chemistry and Biology. 22, 9, p. 1238-1249 12 p.

Research output: Contribution to journalArticle

92 Scopus citations
2014

Genomes of diverse isolates of the marine cyanobacterium Prochlorococcus

Biller, S. J., Berube, P. M., Berta-Thompson, J. W., Kelly, L., Roggensack, S. E., Awad, L., Roache-Johnson, K. H., Ding, H., Giovannoni, S. J., Rocap, G., Moore, L. R. & Chisholm, S. W., Sep 30 2014, In : Scientific Data. 1, 140034.

Research output: Contribution to journalArticle

51 Scopus citations
2013

Ecology of uncultured Prochlorococcus clades revealed through single-cell genomics and biogeographic analysis

Malmstrom, R. R., Rodrigue, S., Huang, K. H., Kelly, L., Kern, S. E., Thompson, A., Roggensack, S., Berube, P. M., Henn, M. R. & Chisholm, S. W., Jan 1 2013, In : ISME Journal. 7, 1, p. 184-198 15 p.

Research output: Contribution to journalArticle

55 Scopus citations

Genetic diversity in cultured and wild marine cyanomyoviruses reveals phosphorus stress as a strong selective agent

Kelly, L., Ding, H., Huang, K. H., Osburne, M. S. & Chisholm, S. W., Sep 1 2013, In : ISME Journal. 7, 9, p. 1827-1841 15 p.

Research output: Contribution to journalArticle

36 Scopus citations

Genomes of marine cyanopodoviruses reveal multiple origins of diversity

Labrie, S. J., Frois-Moniz, K., Osburne, M. S., Kelly, L., Roggensack, S. E., Sullivan, M. B., Gearin, G., Zeng, Q., Fitzgerald, M., Henn, M. R. & Chisholm, S. W., May 1 2013, In : Environmental Microbiology. 15, 5, p. 1356-1376 21 p.

Research output: Contribution to journalArticle

54 Scopus citations
2012

ProPortal: A resource for integrated systems biology of Prochlorococcus and its phage

Kelly, L., Huang, K. H., Ding, H. & Chisholm, S. W., Jan 1 2012, In : Nucleic acids research. 40, D1, p. D632-D640

Research output: Contribution to journalArticle

24 Scopus citations
2011

Phage auxiliary metabolic genes and the redirection of cyanobacterial host carbon metabolism

Thompson, L. R., Zeng, Q., Kelly, L., Huang, K. H., Singer, A. U., Stubbe, J. A. & Chisholm, S. W., Sep 27 2011, In : Proceedings of the National Academy of Sciences of the United States of America. 108, 39, p. E757-E764

Research output: Contribution to journalArticle

168 Scopus citations
2010

Analysis of high-throughput sequencing and annotation strategies for phage genomes

Henn, M. R., Sullivan, M. B., Stange-Thomann, N., Osburne, M. S., Berlin, A. M., Kelly, L., Yandava, C., Kodira, C., Zeng, Q., Weiand, M., Sparrow, T., Saif, S., Giannoukos, G., Young, S. K., Nusbaum, C., Birren, B. W. & Chisholm, S. W., Feb 5 2010, In : PloS one. 5, 2, e9083.

Research output: Contribution to journalArticle

56 Scopus citations

Catalytic promiscuity in the biosynthesis of cyclic peptide secondary metabolites in planktonic marine cyanobacteria

Li, B., Sher, D., Kelly, L., Shi, Y., Huang, K., Knerr, P. J., Joewono, I., Rusch, D., Chisholm, S. W. & Van Der Donk, W. A., Jun 8 2010, In : Proceedings of the National Academy of Sciences of the United States of America. 107, 23, p. 10430-10435 6 p.

Research output: Contribution to journalArticle

148 Scopus citations

Comparison of human solute carriers

Schlessinger, A., Matsson, P., Shima, J. E., Pieper, U., Yee, S. W., Kelly, L., Apeltsin, L., Stroud, R. M., Ferrin, T. E., Giacomini, K. M. & Sali, A., Mar 1 2010, In : Protein Science. 19, 3, p. 412-428 17 p.

Research output: Contribution to journalArticle

67 Scopus citations

Functional hot spots in human ATP-binding cassette transporter nucleotide binding domains

Kelly, L., Fukushima, H., Karchin, R., Gow, J. M., Chinn, L. W., Pieper, U., Segal, M. R., Kroetz, D. L. & Sali, A., Nov 1 2010, In : Protein Science. 19, 11, p. 2110-2121 12 p.

Research output: Contribution to journalArticle

13 Scopus citations

Genomic analysis of oceanic cyanobacterial myoviruses compared with T4-like myoviruses from diverse hosts and environments

Sullivan, M. B., Huang, K. H., Ignacio-Espinoza, J. C., Berlin, A. M., Kelly, L., Weigele, P. R., DeFrancesco, A. S., Kern, S. E., Thompson, L. R., Young, S., Yandava, C., Fu, R., Krastins, B., Chase, M., Sarracino, D., Osburne, M. S., Henn, M. R. & Chisholm, S. W., Nov 1 2010, In : Environmental Microbiology. 12, 11, p. 3035-3056 22 p.

Research output: Contribution to journalArticle

185 Scopus citations

UV hyper-resistance in Prochlorococcus MED4 results from a single base pair deletion just upstream of an operon encoding nudix hydrolase and photolyase

Osburne, M. S., Holmbeck, B. M., Frias-Lopez, J., Steen, R., Huang, K., Kelly, L., Coe, A., Waraska, K., Gagne, A. & Chisholm, S. W., Jul 1 2010, In : Environmental Microbiology. 12, 7, p. 1978-1988 11 p.

Research output: Contribution to journalArticle

15 Scopus citations
2009

A survey of integral α-helical membrane proteins

Kelly, L., Pieper, U., Eswar, N., Hays, F. A., Li, M., Roe-Zurz, Z., Kroetz, D. L., Giacomini, K. M., Stroud, R. M. & Sali, A., Dec 1 2009, In : Journal of Structural and Functional Genomics. 10, 4, p. 269-280 12 p.

Research output: Contribution to journalArticle

13 Scopus citations

MODBASE, a database of annotated comparative protein structure models and associated resources

Pieper, U., Eswar, N., Webb, B. M., Eramian, D., Kelly, L., Barkan, D. T., Carter, H., Mankoo, P., Karchin, R., Marti-Renom, M. A., Davis, F. P. & Sali, A., Jan 9 2009, In : Nucleic acids research. 37, SUPPL. 1, p. D347-D354

Research output: Contribution to journalArticle

134 Scopus citations

Selecting Optimum Eukaryotic Integral Membrane Proteins for Structure Determination by Rapid Expression and Solubilization Screening

Li, M., Hays, F. A., Roe-Zurz, Z., Vuong, L., Kelly, L., Ho, C. M., Robbins, R. M., Pieper, U., O'Connell, J. D., Miercke, L. J. W., Giacomini, K. M., Sali, A. & Stroud, R. M., Jan 23 2009, In : Journal of Molecular Biology. 385, 3, p. 820-830 11 p.

Research output: Contribution to journalArticle

44 Scopus citations

Target selection and annotation for the structural genomics of the amidohydrolase and enolase superfamilies

Pieper, U., Chiang, R., Seffernick, J. J., Brown, S. D., Glasner, M. E., Kelly, L., Eswar, N., Sauder, J. M., Bonanno, J. B., Swaminathan, S., Burley, S. K., Zheng, X., Chance, M. R., Almo, S. C., Gerlt, J. A., Raushel, F. M., Jacobson, M. P., Babbitt, P. C. & Sali, A., Apr 1 2009, In : Journal of Structural and Functional Genomics. 10, 2, p. 107-125 19 p.

Research output: Contribution to journalArticle

24 Scopus citations

The genome and structural proteome of an ocean siphovirus: A new window into the cyanobacterial 'mobilome'

Sullivan, M. B., Krastins, B., Hughes, J. L., Kelly, L., Chase, M., Sarracino, D. & Chisholm, S. W., Nov 1 2009, In : Environmental Microbiology. 11, 11, p. 2935-2951 17 p.

Research output: Contribution to journalArticle

82 Scopus citations
2007

Lack of support for a role for RLIP76 (RALBP1) in response to treatment or predisposition to epilepsy

Soranzo, N., Kelly, L., Martinian, L., Burley, M. W., Thom, M., Sali, A., Kroetz, D. L., Goldstein, D. B. & Sisodiya, S. M., Apr 1 2007, In : Epilepsia. 48, 4, p. 674-683 10 p.

Research output: Contribution to journalArticle

24 Scopus citations
2006

MODBASE: a database of annotated comparative protein structure models and associated resources.

Pieper, U., Eswar, N., Davis, F. P., Braberg, H., Madhusudhan, M. S., Rossi, A., Marti-Renom, M., Karchin, R., Webb, B. M., Eramian, D., Shen, M. Y., Kelly, L., Melo, F. & Sali, A., Jan 1 2006, In : Nucleic acids research. 34, Database issue, p. D291-295

Research output: Contribution to journalArticle

198 Scopus citations
2005

LS-SNP: Large-scale annotation of coding non-synonymous SNPs based on multiple information sources

Karchin, R., Diekhans, M., Kelly, L., Thomas, D. J., Pieper, U., Eswar, N., Haussler, D. & Sali, A., Jun 15 2005, In : Bioinformatics. 21, 12, p. 2814-2820 7 p.

Research output: Contribution to journalArticle

177 Scopus citations
2001

A high-resolution radiation hybrid map of the human genome draft sequence

Olivier, M., Aggarwal, A., Allen, J., Almendras, A. A., Bajorek, E. S., Beasley, E. M., Brady, S. D., Bushard, J. M., Bustos, V. I., Chu, A., Chung, T. R., De Witte, A., Denys, M. E., Dominguez, R., Fang, N. Y., Foster, B. D., Freudenberg, R. W., Hadley, D., Hamilton, L. R., Jeffrey, T. J. & 35 others, Kelly, L., Lazzeroni, L., Levy, M. R., Lewis, S. C., Liu, X., Lopez, F. J., Louie, B., Marquis, J. P., Martinez, R. A., Matsuura, M. K., Misherghi, N. S., Norton, J. A., Olshen, A., Perkins, S. M., Perou, A. J., Piercy, C., Piercy, M., Qin, F., Reif, T., Sheppard, K., Shokoohi, V., Smick, G. A., Sun, W. L., Stewart, E. A., Fernando Tejeda, J., Tran, N. M., Trejo, T., Vo, N. T., Yan, S. C. M., Zierten, D. L., Zhao, S., Sachidanandam, R., Trask, B. J., Myers, R. M. & Cox, D. R., Feb 16 2001, In : Science. 291, 5507, p. 1298-1302 5 p.

Research output: Contribution to journalArticle

96 Scopus citations

Complex high-resolution linkage disequilibrium and haplotype patterns of single-nucleotide polymorphisms in 2.5 Mb of sequence on human chromosome 21

Olivier, M., Bustos, V. I., Levy, M. R., Smick, G. A., Moreno, I., Bushard, J. M., Almendras, A. A., Sheppard, K., Zierten, D. L., Aggarwal, A., Carlson, C. S., Foster, B. D., Vo, N., Kelly, L., Liu, X. & Cox, D. R., Sep 1 2001, In : Genomics. 78, 1-2, p. 64-72 9 p.

Research output: Contribution to journalArticle

18 Scopus citations