1. Guided extraction of genome-scale metabolic models for the integration and analysis of omics dataAndrew Walakira, Damjana Rozman, Tadeja Režen, Miha Mraz, Miha Moškon, 2021, original scientific article Keywords: genome-scale metabolic model, model extraction methods, context-specific metabolic model, omics data integration, subsystem enrichment analysis, model interpretability Full text (file, 1,95 MB) This document has more files! More... |
2. Towards a data-integrated cellNoël Malod-Dognin, Julia Petschnigg, Sam F. L. Windels, Janez Povh, Harry Hemmingway, Robin Ketteler, Nataša Pržulj, 2019, original scientific article Keywords: non-negative matrix factorization, data integration, cancer-related genes, pan-cancer genes, integrated cell, biological networks Full text (file, 1,39 MB) This document has more files! More... |
3. Embedding to Reference t-SNE Space Addresses Batch Effects in Single-Cell ClassificationPavlin Gregor Poličar, 2019, master's thesis/paper Keywords: batch effects, embedding, t-SNE, visualization, single-cell transcriptomics, data integration, domain adaptation Full text (file, 16,34 MB) |
4. Transcriptomics of receptive endometrium in women with sonographic features of adenomyosisErika Prašnikar, Tanja Kunej, Mario Gorenjak, Uroš Potočnik, Borut Kovačič, Jure Knez, 2022, original scientific article Keywords: adenomyosis, assisted reproductive techniques (ART), data integration, endometrial receptivity, enrichment pathway analysis, omics approaches, RNA-seq, systems biology, transcriptomics, window of implantation Full text (file, 3,76 MB) This document has more files! More... |
5. Bioinformatics integration of microbiome and metabolomics data in the translational contextLeon Deutsch, 2022, doctoral dissertation Keywords: bioinformatics, metabolomics, metagenomcis, physical inactivity, data integration, systems biology, microbiome, urine, nuclear magnetic spectrometry Full text (file, 30,37 MB) |
6. QuNexJie Lisa Ji, Jure Demšar, Aleksij Kraljič, Andraž Matkovič, Nina Purg, Grega Repovš, 2023, original scientific article Keywords: neuroimaging, data processing, functional MRI, diffusion MRI, multi-modal analyses, containerization, cloud integration, high-performance computing, functional magnetic resonance imaging fMRI, analysis, brain, diffusion Full text (file, 2,59 MB) This document has more files! More... |
7. Integration and analysis of scRNAseq data using genome-scale metabolic modelsJurij Nastran, 2024, master's thesis Keywords: genome-scale metabolic models, model extraction methods, context-specific metabolic models, omics data integration, metabolism, cancer, single-cell RNA sequencing data Full text (file, 9,00 MB) |
8. Prioritization of candidate genes for the effect of Fob3b1 QTL on chromosome 15 in mouse models for polygenic obesity and leanness using integrative genomicsMartin Šimon, Tanja Kunej, Nicholas M. Morton, Simon Horvat, 2024, original scientific article Keywords: data integration, gene expression, gene prioritisation, mouse models, obesity, QTL, single nucleotide polymorphism Full text (file, 320,52 KB) This document has more files! More... |