Sunbeam: an extensible pipeline for analyzing metagenomic sequencing experiments
Clarke, Erik L, Taylor, Louis J, Zhao, Chunyu, Connell, Andrew, Lee, Jung-Jin, Fett, Bryton, Bushman, Frederic D, Bittinger, Kyle
Published in Microbiome (22.03.2019)
Published in Microbiome (22.03.2019)
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Journal Article
Lack of detection of a human placenta microbiome in samples from preterm and term deliveries
Leiby, Jacob S, McCormick, Kevin, Sherrill-Mix, Scott, Clarke, Erik L, Kessler, Lyanna R, Taylor, Louis J, Hofstaedter, Casey E, Roche, Aoife M, Mattei, Lisa M, Bittinger, Kyle, Elovitz, Michal A, Leite, Rita, Parry, Samuel, Bushman, Frederic D
Published in Microbiome (30.10.2018)
Published in Microbiome (30.10.2018)
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Journal Article
Microbial Lineages in Sarcoidosis. A Metagenomic Analysis Tailored for Low-Microbial Content Samples
Clarke, Erik L, Lauder, Abigail P, Hofstaedter, Casey E, Hwang, Young, Fitzgerald, Ayannah S, Imai, Ize, Biernat, Wojciech, Rękawiecki, Bartłomiej, Majewska, Hanna, Dubaniewicz, Anna, Litzky, Leslie A, Feldman, Michael D, Bittinger, Kyle, Rossman, Milton D, Patterson, Karen C, Bushman, Frederic D, Collman, Ronald G
Published in American journal of respiratory and critical care medicine (15.01.2018)
Published in American journal of respiratory and critical care medicine (15.01.2018)
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Journal Article
The Gene Wiki in 2011: community intelligence applied to human gene annotation
Good, Benjamin M., Clarke, Erik L., de Alfaro, Luca, Su, Andrew I.
Published in Nucleic acids research (01.01.2012)
Published in Nucleic acids research (01.01.2012)
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Journal Article
T cell dynamics and response of the microbiota after gene therapy to treat X-linked severe combined immunodeficiency
Clarke, Erik L, Connell, A Jesse, Six, Emmanuelle, Kadry, Nadia A, Abbas, Arwa A, Hwang, Young, Everett, John K, Hofstaedter, Casey E, Marsh, Rebecca, Armant, Myriam, Kelsen, Judith, Notarangelo, Luigi D, Collman, Ronald G, Hacein-Bey-Abina, Salima, Kohn, Donald B, Cavazzana, Marina, Fischer, Alain, Williams, David A, Pai, Sung-Yun, Bushman, Frederic D
Published in Genome medicine (28.09.2018)
Published in Genome medicine (28.09.2018)
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Journal Article
Evaluation of a therapy for Idiopathic Chronic Enterocolitis in rhesus macaques ( Macaca mulatta ) and linked microbial community correlates
Taylor, Joshua M, Clarke, Erik L, Baker, Kate, Lauder, Abigail, Kim, Dorothy, Bailey, Aubrey, Wu, Gary D, Collman, Ronald G, Doyle-Meyers, Lara, Russell-Lodrigue, Kasi, Blanchard, James, Bushman, Frederic D, Bohm, Rudolf
Published in PeerJ (San Francisco, CA) (11.04.2018)
Published in PeerJ (San Francisco, CA) (11.04.2018)
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Journal Article
A task-based approach for Gene Ontology evaluation
Clarke, Erik L, Loguercio, Salvatore, Good, Benjamin M, Su, Andrew I
Published in Journal of biomedical semantics (15.04.2013)
Published in Journal of biomedical semantics (15.04.2013)
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Journal Article
Linking genes to diseases with a SNPedia-Gene Wiki mashup
Good, Benjamin M, Clarke, Erik L, Loguercio, Salvatore, Su, Andrew I
Published in Journal of biomedical semantics (24.04.2012)
Published in Journal of biomedical semantics (24.04.2012)
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Journal Article
Respiratory Microbiome Disruption and Risk for Ventilator-Associated Lower Respiratory Tract Infection
Harrigan, James J, Abdallah, Hatem O, Clarke, Erik L, Oganisian, Arman, Roy, Jason A, Lautenbach, Ebbing, Reesey, Emily, Wernovsky, Magda, Tolomeo, Pam, Morawski, Zygmunt, Jacob, Jerry, Grippi, Michael A, Kelly, Brendan J
Published in Clinical infectious diseases (03.05.2022)
Published in Clinical infectious diseases (03.05.2022)
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Journal Article
Bidirectional transfer of Anelloviridae lineages between graft and host during lung transplantation
Abbas, Arwa A., Young, Jacque C., Clarke, Erik L., Diamond, Joshua M., Imai, Ize, Haas, Andrew R., Cantu, Edward, Lederer, David J., Meyer, Keith, Milewski, Rita K., Olthoff, Kim M., Shaked, Abraham, Christie, Jason D., Bushman, Frederic D., Collman, Ronald G.
Published in American journal of transplantation (01.04.2019)
Published in American journal of transplantation (01.04.2019)
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Journal Article
Molecular analysis of bacterial contamination on stethoscopes in an intensive care unit
Knecht, Vincent R, McGinniss, John E, Shankar, Hari M, Clarke, Erik L, Kelly, Brendan J, Imai, Ize, Fitzgerald, Ayannah S, Bittinger, Kyle, Bushman, Frederic D, Collman, Ronald G
Published in Infection control and hospital epidemiology (01.02.2019)
Published in Infection control and hospital epidemiology (01.02.2019)
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Journal Article
Upper Respiratory Dysbiosis with a Facultative-dominated Ecotype in Advanced Lung Disease and Dynamic Change after Lung Transplant
Simon-Soro, Aurea, Sohn, Michael B, McGinniss, John E, Imai, Ize, Brown, Melanie C, Knecht, Vincent R, Bailey, Aubrey, Clarke, Erik L, Cantu, Edward, Li, Hongzhe, Bittinger, Kyle, Diamond, Joshua M, Christie, Jason D, Bushman, Frederic D, Collman, Ronald G
Published in Annals of the American Thoracic Society (01.11.2019)
Published in Annals of the American Thoracic Society (01.11.2019)
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Journal Article
Deducing Transport Protein Evolution Based on Sequence, Structure, and Function
Wakabayashi, Steven T, Shlykov, Maksim A, Kumar, Ujjwal, Reddy, Vamsee S, Malhotra, Ankur, Clarke, Erik L, Chen, Jonathan S, Castillo, Rostislav, Mare, Russell de La, Sun, Eric I, Saier, Milton H
Published in Protein Families (13.12.2013)
Published in Protein Families (13.12.2013)
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