Tools
Resources and tools developed by the lab
DIEM (Debris Identification using Expectation Maximization)
More information: Enhancing droplet-based single-nucleus RNA-seq resolution using the semi-supervised machine learning classifier DIEM. Sci Rep. 2020 07 03; 10(1):11019. Alvarez M, Rahmani E, Jew B, Garske KM, Miao Z, Benhammou JN, Ye CJ, Pisegna JR, Pietiläinen KH, Halperin E, Pajukanta P. PMID: 32620816; PMCID: PMC7335186.
Access DIEM Code on GitHub
Bisque
More information: Accurate estimation of cell composition in bulk expression through robust integration of single-cell information. Nat Commun. 2020 Apr 24; 11(1):1971. Jew B, Alvarez M, Rahmani E, Miao Z, Ko A, Garske KM, Sul JH, Pietiläinen KH, Pajukanta P, Halperin E. PMID: 32332754; PMCID: PMC7181686.
Access Bisque Code on GitHub
ASElux
More information: ASElux: an ultra-fast and accurate allelic reads counter. Bioinformatics. 2018 Apr 15; 34(8):1313-1320. Miao Z, Alvarez M, Pajukanta P, Ko A. PMID: 29186329; PMCID: PMC5905663.
Access ASElux Code on GitHub
Summary statistics of the NAFLD score GWAS
Description: These are the summary statistics of the NAFLD score GWAS data for our paper Miao Z, Garske KM, Pan DZ, Koka A, Kaminska D, Männistö V, Sinsheimer JS, Pihlajamäki J, Pajukanta P. Identification of 90 NAFLD GWAS loci and establishment of NAFLD PRS and causal role of NAFLD in coronary artery disease. HGG Adv. 2021; 3(1): 100056. PMID: 35047847.
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