ITSxpress: Software to rapidly trim internally transcribed spacer sequences with quality scores for marker gene analysis [version 1; peer review: 2 approved]
Rivers, Adam R, Weber, Kyle C, Gardner, Terrence G, Liu, Shuang, Armstrong, Shalamar D
Published in F1000 research (2018)
Published in F1000 research (2018)
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Journal Article
Graph-based pangenomics maximizes genotyping density and reveals structural impacts on fungal resistance in melon
Vaughn, Justin N, Branham, Sandra E, Abernathy, Brian, Hulse-Kemp, Amanda M, Rivers, Adam R, Levi, Amnon, Wechter, William P
Published in Nature communications (22.12.2022)
Published in Nature communications (22.12.2022)
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Journal Article
MicroMPN: methods and software for high-throughput screening of microbe suppression in mixed populations
Franco Meléndez, Karla, Schuster, Layla, Donahey, Melinda Chue, Kairalla, Emily, Jansen, M Andrew, Reisch, Christopher, Rivers, Adam R
Published in Microbiology spectrum (05.03.2024)
Published in Microbiology spectrum (05.03.2024)
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Journal Article
Advancing Equity and Inclusion in Microbiome Research and Training
Foxx, Alicia J, Franco Meléndez, Karla P, Hariharan, Janani, Kozik, Ariangela J, Wattenburger, Cassandra J, Godoy-Vitorino, Filipa, Rivers, Adam R
Published in mSystems (26.10.2021)
Published in mSystems (26.10.2021)
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Journal Article
IgE and IgG4 epitopes of the peanut allergens shift following oral immunotherapy
Rambo, Ian M, Kronfel, Christina M, Rivers, Adam R, Swientoniewski, Lauren T, McBride, Jane K, Cheng, Hsiaopo, Simon, Reyna J, Ryan, Robert, Tilles, Stephen A, Nesbit, Jacqueline B, Kulis, Michael D, Hurlburt, Barry K, Maleki, Soheila J
Published in Frontiers in allergy (29.11.2023)
Published in Frontiers in allergy (29.11.2023)
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Journal Article
Under-the-Radar Dengue Virus Infections in Natural Populations of Aedes aegypti Mosquitoes
Boyles, Sean M, Mavian, Carla N, Finol, Esteban, Ukhanova, Maria, Stephenson, Caroline J, Hamerlinck, Gabriela, Kang, Seokyoung, Baumgartner, Caleb, Geesey, Mary, Stinton, Israel, Williams, Katie, Mathias, Derrick K, Prosperi, Mattia, Mai, Volker, Salemi, Marco, Buckner, Eva A, Lednicky, John A, Rivers, Adam R, Dinglasan, Rhoel R
Published in mSphere (29.04.2020)
Published in mSphere (29.04.2020)
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Journal Article
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea
Bowers, Robert M, Kyrpides, Nikos C, Stepanauskas, Ramunas, Harmon-Smith, Miranda, Doud, Devin, Reddy, T B K, Schulz, Frederik, Jarett, Jessica, Rivers, Adam R, Eloe-Fadrosh, Emiley A, Tringe, Susannah G, Ivanova, Natalia N, Copeland, Alex, Clum, Alicia, Becraft, Eric D, Malmstrom, Rex R, Birren, Bruce, Podar, Mircea, Bork, Peer, Weinstock, George M, Garrity, George M, Dodsworth, Jeremy A, Yooseph, Shibu, Sutton, Granger, Glöckner, Frank O, Gilbert, Jack A, Nelson, William C, Hallam, Steven J, Jungbluth, Sean P, Ettema, Thijs J G, Tighe, Scott, Konstantinidis, Konstantinos T, Liu, Wen-Tso, Baker, Brett J, Rattei, Thomas, Eisen, Jonathan A, Hedlund, Brian, McMahon, Katherine D, Fierer, Noah, Knight, Rob, Finn, Rob, Cochrane, Guy, Karsch-Mizrachi, Ilene, Tyson, Gene W, Rinke, Christian, Lapidus, Alla, Meyer, Folker, Yilmaz, Pelin, Parks, Donovan H, Eren, A M, Schriml, Lynn, Banfield, Jillian F, Hugenholtz, Philip, Woyke, Tanja
Published in Nature biotechnology (01.08.2017)
Published in Nature biotechnology (01.08.2017)
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Journal Article
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
Paez-Espino, David, Chen, I-Min A, Palaniappan, Krishna, Ratner, Anna, Chu, Ken, Szeto, Ernest, Pillay, Manoj, Huang, Jinghua, Markowitz, Victor M, Nielsen, Torben, Huntemann, Marcel, K Reddy, T B, Pavlopoulos, Georgios A, Sullivan, Matthew B, Campbell, Barbara J, Chen, Feng, McMahon, Katherine, Hallam, Steve J, Denef, Vincent, Cavicchioli, Ricardo, Caffrey, Sean M, Streit, Wolfgang R, Webster, John, Handley, Kim M, Salekdeh, Ghasem H, Tsesmetzis, Nicolas, Setubal, Joao C, Pope, Phillip B, Liu, Wen-Tso, Rivers, Adam R, Ivanova, Natalia N, Kyrpides, Nikos C
Published in Nucleic Acids Research (30.10.2016)
Published in Nucleic Acids Research (30.10.2016)
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Web Resource
GuideMaker: Software to design CRISPR-Cas guide RNA pools in non-model genomes
Poudel, Ravin, Rodriguez, Lidimarie Trujillo, Reisch, Christopher R, Rivers, Adam R
Published in Gigascience (01.04.2022)
Published in Gigascience (01.04.2022)
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Journal Article
Phenotypic plasticity in heterotrophic marine microbial communities in continuous cultures
Beier, Sara, Rivers, Adam R, Moran, Mary Ann, Obernosterer, Ingrid
Published in The ISME Journal (01.05.2015)
Published in The ISME Journal (01.05.2015)
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Journal Article
Patterns and drivers of fungal community depth stratification in Sphagnum peat
Lamit, Louis J, Romanowicz, Karl J, Potvin, Lynette R, Rivers, Adam R, Singh, Kanwar, Lennon, Jay T, Tringe, Susannah G, Kane, Evan S, Lilleskov, Erik A
Published in FEMS microbiology ecology (01.07.2017)
Published in FEMS microbiology ecology (01.07.2017)
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Journal Article
Annotated whole-genome sequences of fermentative and spoilage associated Bacilli and proteobacteria autochthonous to commercial cucumber fermentation
Page, Clinton A, Simpson, Sheron, Pérez-Díaz, Ilenys M, Rivers, Adam R
Published in Microbiology resource announcements (12.03.2024)
Published in Microbiology resource announcements (12.03.2024)
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Journal Article