Tomasz Kosciolek

ORCID

Publication Activity (10 Years)

Years Active: 2019-2024
Publications (10 Years): 15

Top Venues

Nature communications

Nature

Nature biotechnology

Microbiology spectrum

This page only lists publications with an associated author ORCID identifier.

Publications

Gregory D Poore, Evguenia Kopylova, Qiyun Zhu, Carolina Carpenter, Serena Fraraccio, Stephen Wandro, Tomasz Kosciolek, Stefan Janssen, Jessica Metcalf, Se Jin Song, Jad Kanbar, Sandrine Miller-Montgomery, Robert Heaton, Rana Mckay, Sandip Pravin Patel, Austin D Swafford, Rob Knight
Retraction Note: Microbiome analyses of blood and tissues suggest cancer diagnostic approach. Nature (2024)
Stefanie Duller, Simone Vrbancic, Łukasz Szydłowski, Alexander Mahnert, Marcus Blohs, Michael Predl, Christina Kumpitsch, Verena Zrim, Christoph Högenauer, Tomasz Kosciolek, Ruth Anne Schmitz, Anna Eberhard, Melanie Dragovan, Laura Schmidberger, Tamara Zurabischvili, Viktoria Weinberger, Adrian Mathias Moser, Dagmar Kolb, Dominique Pernitsch, Rokhsareh Mohammadzadeh, Torben Kühnast, Thomas Rattei, Christine Moissl-Eichinger
Targeted isolation of Methanobrevibacter strains from fecal samples expands the cultivated human archaeome. Nature communications 15 (1) (2024)
Gregory D Poore, Evguenia Kopylova, Qiyun Zhu, Carolina Carpenter, Serena Fraraccio, Stephen Wandro, Tomasz Kosciolek, Stefan Janssen, Jessica Metcalf, Se Jin Song, Jad Kanbar, Sandrine Miller-Montgomery, Robert Heaton, Rana Mckay, Sandip Pravin Patel, Austin D Swafford, Rob Knight
Retraction Note: Microbiome analyses of blood and tissues suggest cancer diagnostic approach. Nature (2024)
Zuzanna Karwowska, Paweł Szczerbiak, Tomasz Kosciolek
Microbiome time series data reveal predictable patterns of change. Microbiology spectrum (2024)
Stefanie Duller, Simone Vrbancic, Łukasz Szydłowski, Alexander Mahnert, Marcus Blohs, Michael Predl, Christina Kumpitsch, Verena Zrim, Christoph Högenauer, Tomasz Kosciolek, Ruth Anne Schmitz, Anna Eberhard, Melanie Dragovan, Laura Schmidberger, Tamara Zurabischvili, Viktoria Weinberger, Adrian Mathias Moser, Dagmar Kolb, Dominique Pernitsch, Rokhsareh Mohammadzadeh, Torben Kühnast, Thomas Rattei, Christine Moissl-Eichinger
Targeted isolation of Methanobrevibacter strains from fecal samples expands the cultivated human archaeome. Nature communications 15 (1) (2024)
Mary Maranga, Pawel Szczerbiak, Valentyn Bezshapkin, Vladimir Gligorijevic, Chris Chandler, Richard Bonneau, Ramnik J Xavier, Tommi Vatanen, Tomasz Kosciolek
Comprehensive Functional Annotation of Metagenomes and Microbial Genomes Using a Deep Learning-Based Method. mSystems (2023)
Julia Koehler Leman, Pawel Szczerbiak, P Douglas Renfrew, Vladimir Gligorijevic, Daniel Berenberg, Tommi Vatanen, Bryn C Taylor, Chris Chandler, Stefan Janssen, Andras Pataki, Nick Carriero, Ian Fisk, Ramnik J Xavier, Rob Knight, Richard Bonneau, Tomasz Kosciolek
Sequence-structure-function relationships in the microbial protein universe. Nature communications 14 (1) (2023)
Julia Koehler Leman, Pawel Szczerbiak, P Douglas Renfrew, Vladimir Gligorijevic, Daniel Berenberg, Tommi Vatanen, Bryn C Taylor, Chris Chandler, Stefan Janssen, Andras Pataki, Nick Carriero, Ian Fisk, Ramnik J Xavier, Rob Knight, Richard Bonneau, Tomasz Kosciolek
Sequence-structure-function relationships in the microbial protein universe. Nature communications 14 (1) (2023)
Julia Koehler Leman, Pawel Szczerbiak, P Douglas Renfrew, Vladimir Gligorijevic, Daniel Berenberg, Tommi Vatanen, Bryn C Taylor, Chris Chandler, Stefan Janssen, Andras Pataki, Nick Carriero, Ian Fisk, Ramnik J Xavier, Rob Knight, Richard Bonneau, Tomasz Kosciolek
Sequence-structure-function relationships in the microbial protein universe. Nature communications 14 (1) (2023)
Julia Koehler Leman, Pawel Szczerbiak, P Douglas Renfrew, Vladimir Gligorijevic, Daniel Berenberg, Tommi Vatanen, Bryn C Taylor, Chris Chandler, Stefan Janssen, Andras Pataki, Nick Carriero, Ian Fisk, Ramnik J Xavier, Rob Knight, Richard Bonneau, Tomasz Kosciolek
Sequence-structure-function relationships in the microbial protein universe. Nature communications 14 (1) (2023)
Vladimir Gligorijević, P Douglas Renfrew, Tomasz Kosciolek, Julia Koehler Leman, Daniel Berenberg, Tommi Vatanen, Chris Chandler, Bryn C Taylor, Ian M Fisk, Hera Vlamakis, Ramnik J Xavier, Rob Knight, Kyunghyun Cho, Richard A Bonneau
Structure-based protein function prediction using graph convolutional networks. Nature communications 12 (1) (2021)
Gregory D Poore, Evguenia Kopylova, Qiyun Zhu, Carolina Carpenter, Serena Fraraccio, Stephen Wandro, Tomasz Kosciolek, Stefan Janssen, Jessica Metcalf, Se Jin Song, Jad Kanbar, Sandrine Miller-Montgomery, Robert Heaton, Rana Mckay, Sandip Pravin Patel, Austin D Swafford, Rob Knight
Microbiome analyses of blood and tissues suggest cancer diagnostic approach. Nature 579 (7800) (2020)
Rob Knight, Alison Vrbanac, Bryn C Taylor, Alexander Aksenov, Chris Callewaert, Justine Debelius, Antonio Gonzalez, Tomasz Kosciolek, Laura-Isobel McCall, Daniel McDonald, Alexey V Melnik, James T Morton, Jose Navas, Robert A Quinn, Jon G Sanders, Austin D Swafford, Luke R Thompson, Anupriya Tripathi, Zhenjiang Z Xu, Jesse R Zaneveld, Qiyun Zhu, J Gregory Caporaso, Pieter C Dorrestein
Best practices for analysing microbiomes. Nature reviews. Microbiology 16 (7) (2019)
Qiyun Zhu, Uyen Mai, Wayne Pfeiffer, Stefan Janssen, Francesco Asnicar, Jon G Sanders, Pedro Belda Ferre, Gabriel A Al-Ghalith, Evguenia Kopylova, Daniel McDonald, Tomasz Kosciolek, John B Yin, Shi Huang, Nimaichand Salam, Jian-Yu Jiao, Zijun Wu, Zhenjiang Z Xu, Kalen Cantrell, Yimeng Yang, Erfan Sayyari, Maryam Rabiee, James T Morton, Sheila Podell, Dan Knights, Wen-Jun Li, Curtis Huttenhower, Nicola Segata, Larry Smarr, Siavash Mirarab, Rob Knight
Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea. Nature communications 10 (1) (2019)
Evan Bolyen, Jai Ram Rideout, Matthew R Dillon, Nicholas A Bokulich, Christian C Abnet, Gabriel A Al-Ghalith, Harriet Alexander, Eric John Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J Brislawn, C Titus Brown, Benjamin J Callahan, Andrés Mauricio Caraballo-Rodriguez, John Chase, Emily K Cope, Ricardo Da Silva, Christian Diener, Pieter C Dorrestein, Gavin M Douglas, Daniel M Durall, Claire Duvallet, Christian F Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M Gauglitz, Sean M Gibbons, Deanna L Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan P Holmes, Hannes Holste, Curtis Huttenhower, Gavin A Huttley, Stefan Janssen, Alan K Jarmusch, Lingjing Jiang, Benjamin D Kaehler, Kyo-Bin Kang, Christopher R Keefe, Paul Keim, Scott T Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan G I Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine A Lozupone, Massoud Maher, Clarisse A Marotz, Bryan D Martin, Daniel McDonald, Lauren J McIver, Alexey V Melnik, Jessica L Metcalf, Sydney C Morgan, Jamie T Morton, Ahmad Turan Naimey, Jose A Navas-Molina, Louis Felix Nothias, Stephanie B Orchanian, Talima R Pearson, Samuel L Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam R Rivers, Michael Scott Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R Spear, Austin D Swafford, Luke R Thompson, Pedro J Torres, Pauline Trinh, Anupriya Tripathi, Peter J Turnbaugh, Sabah Ul-Hasan, Justin Johan Jozias van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C Weber, Charles H D Williamson, Amy D Willis, Zhenjiang Zech Xu, Jesse R Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight, J Gregory Caporaso
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature biotechnology 37 (8) (2019)

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Publication Activity (10 Years)

Top Topics

Top Venues

Tomasz Kosciolek