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Teufel, Felix, Almagro Armenteros, José Juan, Johansen, Alexander Rosenberg, Gíslason, Magnús Halldór, Pihl, Silas Irby, Tsirigos, Konstantinos D., Winther, Ole, Brunak, Søren, von Heijne, Gunnar, Nielsen, Henrik
Published in Nature biotechnology (01.07.2022)
Published in Nature biotechnology (01.07.2022)
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Fast and accurate protein structure search with Foldseek
van Kempen, Michel, Kim, Stephanie S., Tumescheit, Charlotte, Mirdita, Milot, Lee, Jeongjae, Gilchrist, Cameron L. M., Söding, Johannes, Steinegger, Martin
Published in Nature biotechnology (01.02.2024)
Published in Nature biotechnology (01.02.2024)
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PICRUSt2 for prediction of metagenome functions
Douglas, Gavin M., Maffei, Vincent J., Zaneveld, Jesse R., Yurgel, Svetlana N., Brown, James R., Taylor, Christopher M., Huttenhower, Curtis, Langille, Morgan G. I.
Published in Nature biotechnology (01.06.2020)
Published in Nature biotechnology (01.06.2020)
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Visualizing and interpreting cancer genomics data via the Xena platform
Goldman, Mary J., Craft, Brian, Hastie, Mim, Repečka, Kristupas, McDade, Fran, Kamath, Akhil, Banerjee, Ayan, Luo, Yunhai, Rogers, Dave, Brooks, Angela N., Zhu, Jingchun, Haussler, David
Published in Nature biotechnology (01.06.2020)
Published in Nature biotechnology (01.06.2020)
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CRISPR–Cas12-based detection of SARS-CoV-2
Broughton, James P., Deng, Xianding, Yu, Guixia, Fasching, Clare L., Servellita, Venice, Singh, Jasmeet, Miao, Xin, Streithorst, Jessica A., Granados, Andrea, Sotomayor-Gonzalez, Alicia, Zorn, Kelsey, Gopez, Allan, Hsu, Elaine, Gu, Wei, Miller, Steve, Pan, Chao-Yang, Guevara, Hugo, Wadford, Debra A., Chen, Janice S., Chiu, Charles Y.
Published in Nature Biotechnology (01.07.2020)
Published in Nature Biotechnology (01.07.2020)
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Generalizing RNA velocity to transient cell states through dynamical modeling
Bergen, Volker, Lange, Marius, Peidli, Stefan, Wolf, F. Alexander, Theis, Fabian J.
Published in Nature biotechnology (01.12.2020)
Published in Nature biotechnology (01.12.2020)
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Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype
Kim, Daehwan, Paggi, Joseph M., Park, Chanhee, Bennett, Christopher, Salzberg, Steven L.
Published in Nature biotechnology (01.08.2019)
Published in Nature biotechnology (01.08.2019)
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Dictionary learning for integrative, multimodal and scalable single-cell analysis
Hao, Yuhan, Stuart, Tim, Kowalski, Madeline H., Choudhary, Saket, Hoffman, Paul, Hartman, Austin, Srivastava, Avi, Molla, Gesmira, Madad, Shaista, Fernandez-Granda, Carlos, Satija, Rahul
Published in Nature biotechnology (01.02.2024)
Published in Nature biotechnology (01.02.2024)
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Determining cell type abundance and expression from bulk tissues with digital cytometry
Newman, Aaron M., Steen, Chloé B., Liu, Chih Long, Gentles, Andrew J., Chaudhuri, Aadel A., Scherer, Florian, Khodadoust, Michael S., Esfahani, Mohammad S., Luca, Bogdan A., Steiner, David, Diehn, Maximilian, Alizadeh, Ash A.
Published in Nature biotechnology (01.07.2019)
Published in Nature biotechnology (01.07.2019)
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A SARS-CoV-2 surrogate virus neutralization test based on antibody-mediated blockage of ACE2–spike protein–protein interaction
Tan, Chee Wah, Chia, Wan Ni, Qin, Xijian, Liu, Pei, Chen, Mark I.-C., Tiu, Charles, Hu, Zhiliang, Chen, Vivian Chih-Wei, Young, Barnaby E., Sia, Wan Rong, Tan, Yee-Joo, Foo, Randy, Yi, Yongxiang, Lye, David C., Anderson, Danielle E., Wang, Lin-Fa
Published in Nature biotechnology (01.09.2020)
Published in Nature biotechnology (01.09.2020)
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Large language models generate functional protein sequences across diverse families
Madani, Ali, Krause, Ben, Greene, Eric R., Subramanian, Subu, Mohr, Benjamin P., Holton, James M., Olmos, Jose Luis, Xiong, Caiming, Sun, Zachary Z., Socher, Richard, Fraser, James S., Naik, Nikhil
Published in Nature biotechnology (01.08.2023)
Published in Nature biotechnology (01.08.2023)
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SignalP 5.0 improves signal peptide predictions using deep neural networks
Almagro Armenteros, José Juan, Tsirigos, Konstantinos D., Sønderby, Casper Kaae, Petersen, Thomas Nordahl, Winther, Ole, Brunak, Søren, von Heijne, Gunnar, Nielsen, Henrik
Published in Nature biotechnology (01.04.2019)
Published in Nature biotechnology (01.04.2019)
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Assembly of long, error-prone reads using repeat graphs
Kolmogorov, Mikhail, Yuan, Jeffrey, Lin, Yu, Pevzner, Pavel A.
Published in Nature biotechnology (01.05.2019)
Published in Nature biotechnology (01.05.2019)
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The nf-core framework for community-curated bioinformatics pipelines
Ewels, Philip A., Peltzer, Alexander, Fillinger, Sven, Patel, Harshil, Alneberg, Johannes, Wilm, Andreas, Garcia, Maxime Ulysse, Di Tommaso, Paolo, Nahnsen, Sven
Published in Nature biotechnology (01.03.2020)
Published in Nature biotechnology (01.03.2020)
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COVID-19 severity correlates with airway epithelium–immune cell interactions identified by single-cell analysis
Chua, Robert Lorenz, Lukassen, Soeren, Trump, Saskia, Hennig, Bianca P., Wendisch, Daniel, Pott, Fabian, Debnath, Olivia, Thürmann, Loreen, Kurth, Florian, Völker, Maria Theresa, Kazmierski, Julia, Timmermann, Bernd, Twardziok, Sven, Schneider, Stefan, Machleidt, Felix, Müller-Redetzky, Holger, Maier, Melanie, Krannich, Alexander, Schmidt, Sein, Balzer, Felix, Liebig, Johannes, Loske, Jennifer, Suttorp, Norbert, Eils, Jürgen, Ishaque, Naveed, Liebert, Uwe Gerd, von Kalle, Christof, Hocke, Andreas, Witzenrath, Martin, Goffinet, Christine, Drosten, Christian, Laudi, Sven, Lehmann, Irina, Conrad, Christian, Sander, Leif-Erik, Eils, Roland
Published in Nature biotechnology (01.08.2020)
Published in Nature biotechnology (01.08.2020)
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A unified catalog of 204,938 reference genomes from the human gut microbiome
Almeida, Alexandre, Nayfach, Stephen, Boland, Miguel, Strozzi, Francesco, Beracochea, Martin, Shi, Zhou Jason, Pollard, Katherine S., Sakharova, Ekaterina, Parks, Donovan H., Hugenholtz, Philip, Segata, Nicola, Kyrpides, Nikos C., Finn, Robert D.
Published in Nature biotechnology (01.01.2021)
Published in Nature biotechnology (01.01.2021)
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Measurement of SARS-CoV-2 RNA in wastewater tracks community infection dynamics
Peccia, Jordan, Zulli, Alessandro, Brackney, Doug E., Grubaugh, Nathan D., Kaplan, Edward H., Casanovas-Massana, Arnau, Ko, Albert I., Malik, Amyn A., Wang, Dennis, Wang, Mike, Warren, Joshua L., Weinberger, Daniel M., Arnold, Wyatt, Omer, Saad B.
Published in Nature biotechnology (01.10.2020)
Published in Nature biotechnology (01.10.2020)
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Human chimeric antigen receptor macrophages for cancer immunotherapy
Klichinsky, Michael, Ruella, Marco, Shestova, Olga, Lu, Xueqing Maggie, Best, Andrew, Zeeman, Martha, Schmierer, Maggie, Gabrusiewicz, Konrad, Anderson, Nicholas R., Petty, Nicholas E., Cummins, Katherine D., Shen, Feng, Shan, Xinhe, Veliz, Kimberly, Blouch, Kristin, Yashiro-Ohtani, Yumi, Kenderian, Saad S., Kim, Miriam Y., O’Connor, Roddy S., Wallace, Stephen R., Kozlowski, Miroslaw S., Marchione, Dylan M., Shestov, Maksim, Garcia, Benjamin A., June, Carl H., Gill, Saar
Published in Nature biotechnology (01.08.2020)
Published in Nature biotechnology (01.08.2020)
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