Strong pathogen competition in neonatal gut colonisation

Tommi Mäklin, Harry A. Thorpe, Anna K. Pöntinen, +9

Nature Communications

Themisto: a scalable colored <i>k</i> -mer index for sensitive pseudoalignment against hundreds of thousands of bacterial genomes

Jarno Alanko, Jaakko Vuohtoniemi, Tommi Mäklin, +1

Bioinformatics

Bacterial genomic epidemiology with mixed samples

Tommi Mäklin, Teemu Kallonen, Jarno Alanko, +6

Microbial Genomics

EngineeringMolecular EpidemiologyGenomic EpidemiologyGenomicsMgems Pipeline +16

High-resolution sweep metagenomics using fast probabilistic inference

Tommi Mäklin, Teemu Kallonen, Sophia David, +10

Wellcome Open Research

EngineeringMsweep PipelineGenomicsBacterial PathogensMicrobial Evolution +20

High-resolution sweep metagenomics using fast probabilistic inference

Tommi Mäklin, Teemu Kallonen, Sophia David, +10

Wellcome Open Research

Seamless, rapid, and accurate analyses of outbreak genomic data using split<i>k</i>-mer analysis

Romain Derelle, Johanna von Wachsmann, Tommi Mäklin, +7

Genome Research

Genomic and Phenotypic Characterization of Clostridium botulinum Isolates from an Infant Botulism Case Suggests Adaptation Signatures to the Gut

François P. Douillard, Yağmur Derman, Cédric Woudstra, +7

mBio

Group 2 and 3 ABC-transporter-dependent capsular K-loci contribute significantly to variation in the estimated invasive potential of <i>Escherichia coli</i>

Rebecca A. Gladstone, Maiju Pesonen, Anna K. Pöntinen, +13

Deep sequencing of Escherichia coli exposes colonisation diversity and impact of antibiotics in Punjab, Pakistan

Tamim Khawaja, Tommi Mäklin, Teemu Kallonen, +10

Nature Communications

Themisto: a scalable colored <i>k</i> -mer index for sensitive pseudoalignment against hundreds of thousands of bacterial genomes

Jarno Alanko, Jaakko Vuohtoniemi, Tommi Mäklin, +1