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Plos Computational Biology|August 11, 2023
VarSCAT: A computational tool for sequence context annotations of genomic variantsNing Wang, Sofia Khan, Laura L EloBriefings in Functional Genomics|February 9, 2022
Deep learning tools are top performers in long non-coding RNA predictionTea Ammunét, Ning Wang, Sofia Khan, et al.Plos Computational Biology|February 17, 2022
Tool evaluation for the detection of variably sized indels from next generation whole genome and targeted sequencing dataNing Wang, Vladislav Lysenkov, Katri Orte, et al.Critical Care (London, England)|March 17, 2023
Polymorphism in interferon alpha/beta receptor contributes to glucocorticoid response and outcome of ARDS and COVID-19Juho Jalkanen, Sofia Khan, Kati Elima, et al.The Journal of Clinical Investigation|January 3, 2020
Integrative omics approaches provide biological and clinical insights: examples from mitochondrial diseasesSofia Khan, Gulayse Ince-Dunn, Anu Suomalainen, et al.Computational and Structural Biotechnology Journal|May 24, 2021
Computational strategies for single-cell multi-omics integrationNigatu Adossa, Sofia Khan, Kalle T Rytkönen, et al.BMC Genomics|May 18, 2021
Evaluation of tools for identifying large copy number variations from ultra-low-coverage whole-genome sequencing dataJohannes Smolander, Sofia Khan, Kalaimathy Singaravelu, et al.Briefings in Bioinformatics|December 6, 2019
Systematic evaluation of differential splicing tools for RNA-seq studiesArfa Mehmood, Asta Laiho, Mikko S Venäläinen, et al.Plos One|December 27, 2014
A note on an exon-based strategy to identify differentially expressed genes in RNA-seq experimentsAsta Laiho, Laura L EloMethods in Molecular Biology (Clifton, N.J.)|November 11, 2016
Accurate Detection of Differential Expression and Splicing Using Low-Level FeaturesTomi Suomi, Laura L EloPageof 834