| Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ... Nature biotechnology 37 (8), 852-857, 2019 | 6425* | 2019 |
| A communal catalogue reveals Earth’s multiscale microbial diversity LR Thompson, JG Sanders, D McDonald, A Amir, J Ladau, KJ Locey, ... Nature 551 (7681), 2017 | 1438 | 2017 |
| Best practices for analysing microbiomes R Knight, A Vrbanac, BC Taylor, A Aksenov, C Callewaert, J Debelius, ... Nature Reviews Microbiology 16 (7), 410-422, 2018 | 925 | 2018 |
| American gut: an open platform for citizen science microbiome research D McDonald, E Hyde, JW Debelius, JT Morton, A Gonzalez, G Ackermann, ... Msystems 3 (3), e00031-18, 2018 | 427* | 2018 |
| MetaPSICOV: combining coevolution methods for accurate prediction of contacts and long range hydrogen bonding in proteins DT Jones, T Singh, T Kosciolek, S Tetchner Bioinformatics 31 (7), 999-1006, 2015 | 348 | 2015 |
| Microbiome analyses of blood and tissues suggest cancer diagnostic approach GD Poore, E Kopylova, Q Zhu, C Carpenter, S Fraraccio, S Wandro, ... Nature 579 (7800), 567-574, 2020 | 312 | 2020 |
| Qiita: rapid, web-enabled microbiome meta-analysis A Gonzalez, JA Navas-Molina, T Kosciolek, D McDonald, ... Nature methods 15 (10), 796-798, 2018 | 299 | 2018 |
| Overview and systematic review of studies of microbiome in schizophrenia and bipolar disorder TT Nguyen, T Kosciolek, LT Eyler, R Knight, DV Jeste Journal of psychiatric research 99, 50-61, 2018 | 151 | 2018 |
| Differences in gut microbiome composition between persons with chronic schizophrenia and healthy comparison subjects TT Nguyen, T Kosciolek, Y Maldonado, RE Daly, AS Martin, D McDonald, ... Schizophrenia research 204, 23-29, 2019 | 119 | 2019 |
| De novo structure prediction of globular proteins aided by sequence variation-derived contacts T Kosciolek, DT Jones PloS one 9 (3), e92197, 2014 | 113 | 2014 |
| Phylogenomics of 10,575 genomes reveals evolutionary proximity between domains Bacteria and Archaea Q Zhu, U Mai, W Pfeiffer, S Janssen, F Asnicar, JG Sanders, ... Nature communications 10 (1), 1-14, 2019 | 112 | 2019 |
| Structure-based protein function prediction using graph convolutional networks V Gligorijević, PD Renfrew, T Kosciolek, JK Leman, D Berenberg, ... Nature communications 12 (1), 1-14, 2021 | 111 | 2021 |
| IL-4Rα blockade by dupilumab decreases Staphylococcus aureus colonization and increases microbial diversity in atopic dermatitis C Callewaert, T Nakatsuji, R Knight, T Kosciolek, A Vrbanac, P Kotol, ... Journal of Investigative Dermatology 140 (1), 191-202. e7, 2020 | 89 | 2020 |
| QIIME 2 enables comprehensive end‐to‐end analysis of diverse microbiome data and comparative studies with publicly available data M Estaki, L Jiang, NA Bokulich, D McDonald, A González, T Kosciolek, ... Current protocols in bioinformatics 70 (1), e100, 2020 | 80 | 2020 |
| The impact of skin care products on skin chemistry and microbiome dynamics A Bouslimani, R da Silva, T Kosciolek, S Janssen, C Callewaert, A Amir, ... BMC biology 17 (1), 1-20, 2019 | 77 | 2019 |
| Gut microbiome and magnetic resonance spectroscopy study of subjects at ultra-high risk for psychosis may support the membrane hypothesis Y He, T Kosciolek, J Tang, Y Zhou, Z Li, X Ma, Q Zhu, N Yuan, L Yuan, ... European Psychiatry 53, 37-45, 2018 | 68 | 2018 |
| Accurate contact predictions using covariation techniques and machine learning T Kosciolek, DT Jones Proteins: Structure, Function, and Bioinformatics 84, 145-151, 2016 | 60 | 2016 |
| Protein binding site analysis by means of structural interaction fingerprint patterns S Mordalski, T Kosciolek, K Kristiansen, I Sylte, AJ Bojarski Bioorganic & medicinal chemistry letters 21 (22), 6816-6819, 2011 | 44 | 2011 |
| Impact of template choice on homology model efficiency in virtual screening K Rataj, J Witek, S Mordalski, T Kosciolek, AJ Bojarski Journal of chemical information and modeling 54 (6), 1661-1668, 2014 | 41 | 2014 |
| Gut microbiome in serious mental illnesses: A systematic review and critical evaluation TT Nguyen, H Hathaway, T Kosciolek, R Knight, DV Jeste Schizophrenia research 234, 24-40, 2021 | 37 | 2021 |
Rob KnightDirector, Center for Microbiome Innovation; Professor, Pediatrics, Bioengineering and CSE, UCSDVerified email at ucsd.edu
