Tomasz Kościółek
Tomasz Kościółek
Sano Centre for Computational Medicine
Verified email at - Homepage
Cited by
Cited by
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
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
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
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
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), 10.1128/msystems. 00031-18, 2018
Structure-based protein function prediction using graph convolutional networks
V Gligorijević, PD Renfrew, T Kosciolek, JK Leman, D Berenberg, ...
Nature communications 12 (1), 3168, 2021
Qiita: rapid, web-enabled microbiome meta-analysis
A Gonzalez, JA Navas-Molina, T Kosciolek, D McDonald, ...
Nature methods 15 (10), 796-798, 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
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
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), 5477, 2019
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
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
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
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, 1-20, 2019
De novo structure prediction of globular proteins aided by sequence variation-derived contacts
T Kosciolek, DT Jones
PloS one 9 (3), e92197, 2014
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
Accurate contact predictions using covariation techniques and machine learning
T Kosciolek, DT Jones
Proteins: Structure, Function, and Bioinformatics 84, 145-151, 2016
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
Gut microbiome in Schizophrenia: altered functional pathways related to immune modulation and atherosclerotic risk
TT Nguyen, T Kosciolek, RE Daly, Y Vázquez-Baeza, A Swafford, ...
Brain, behavior, and immunity 91, 245-256, 2021
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
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