T. Kacprowski

Latest

• MeTEor - an R Shiny app for Exploring Longitudinal Metabolomics Data
• Network medicine-based epistasis detection in complex diseases: ready for quantum computing
• The publication titled 'Inference of differential gene regulatory networks using boosted differential trees' now published in Bioinformatics Advances.
• On the limits of 16S rRNA gene-based metagenome prediction and functional profiling
• Inference of differential gene regulatory networks using boosted differential trees
• Fake paper identification in the pool of withdrawn and rejected manuscripts submitted to Naunyn–Schmiedeberg’s Archives of Pharmacology
• Alternative splicing impacts microRNA regulation within coding regions
• Independent Tissue-Based Biomarkers in Endometrioid Endometrial Cancer: Tumor Budding in Microsatellite Instability and WHO Grading in Copy-Number-Low Patients
• Should Artificial Intelligence be used to support clinical ethical decision-making? A systematic review of reasons
• Alternative splicing analysis benchmark with DICAST
• Lacking mechanistic disease definitions and corresponding association data hamper progress in network medicine and beyond
• Network-based approaches for modeling disease regulation and progression
• Systematic analysis of alternative splicing in time course data using Spycone
• The limits of molecular signatures for pancreatic ductal adenocarcinoma subtyping
• Hypothesis of a potential BrainBiota and its relation to CNS autoimmune inflammation
• A zlog-based algorithm and tool for plausibility checks of reference intervals
• Forecasting admissions in psychiatric hospitals before and during Covid-19: a retrospective study with routine data
• Tumour cell budding and spread through air spaces in squamous cell carcinoma of the lung - Determination and validation of optimal prognostic cut-offs
• Small RNA Sequencing in the Tg4-42 Mouse Model Suggests the Involvement of snoRNAs in the Etiology of Alzheimer's Disease
• Gene-mapping study of extremes of cerebral small vessel disease reveals TRIM47 as a strong candidate
• P057 Mucosal microbiota adapts to ATF6-induced alterations in host lipid metabolism with prognostic value in colorectal cancer
• Systematic analysis of alternative splicing in time course data using Spycone
• sPLINK: a hybrid federated tool as a robust alternative to meta-analysis in genome-wide association studies
• Privacy-Preserving Artificial Intelligence Techniques in Biomedicine
• Robust disease module mining via enumeration of diverse prize-collecting Steiner trees
• Alternative splicing analysis benchmark with DICAST
• The Limits of Molecular Signatures for Pancreatic Ductal Adenocarcinoma Subtyping
• Functional enrichment of alternative splicing events with NEASE reveals insights into tissue identity and diseases
• Genome-wide analysis of mitochondrial DNA copy number reveals loci implicated in nucleotide metabolism, platelet activation, and megakaryocyte proliferation
• Network medicine for disease module identification and drug repurposing with the NeDRex platform
• MultiPep: a hierarchical deep learning approach for multi-label classification of peptide bioactivities
• Long-term instability of the intestinal microbiome is associated with metabolic liver disease, low microbiota diversity, diabetes mellitus and impaired exocrine pancreatic function
• Whole-body R2∗ mapping to quantify tissue iron in iron storage organs: Reference values and a genotype
• The AIMe registry for artificial intelligence in biomedical research
• ASimulatoR: splice-aware RNA-Seq data simulation
• Network analysis methods for studying microbial communities: A mini review
• A framework for modeling epistatic interactions
• Carrying asymptomatic gallstones is not associated with changes in intestinal microbiota composition and diversity but cholecystectomy with significant dysbiosis
• Enabling single-cell trajectory network enrichment
• BiCoN: Network-constrained biclustering of patients and omics data
• PySCNet: A tool for reconstructing and analyzing gene regulatory network from single-cell RNA-Seq data
• NOX5-induced uncoupling of endothelial NO synthase is a causal mechanism and theragnostic target of an age-related hypertension endotype
• DIGGER: exploring the functional role of alternative splicing in protein interactions
• The Gut Microbiome in Patients With Chronic Pancreatitis Is Characterized by Significant Dysbiosis and Overgrowth by Opportunistic Pathogens
• MiRNA Alterations Elicit Pathways Involved in Memory Decline and Synaptic Function in the Hippocampus of Aged Tg4-42 Mice
• sPLINK: A Federated, Privacy-Preserving Tool as a Robust Alternative to Meta-Analysis in Genome-Wide Association Studies
• Multi-Omics Analysis in a Network Context (in "Reference Module in Biomedical Sciences")
• Exploring the SARS-CoV-2 virus-host-drug interactome for drug repurposing
• EpiGEN: an epistasis simulation pipeline
• Comparative single-cell trajectory network enrichment identifies pseudo-temporal systems biology patterns in hematopoiesis and CD8 T-cell development
• BiCoN: Network-constrained biclustering of patients and omics data
• Impaired Exocrine Pancreatic Function Associates With Changes in Intestinal Microbiota Composition and Diversity
• Empowering thyroid hormone research in human subjects using OMICs technologies
• Functional abdominal pain and discomfort (IBS) is not associated with faecal microbiota composition in the general population
• MicroRNA analysis of gastroenteropancreatic neuroendocrine tumors and metastases
• Notions of similarity for systems biology models
• Profiling and validation of circulating microRNAs for cardiovascular events in patients presenting with ST-segment elevation myocardial infarction
• Exome Variant Analysis of Chronic Periodontitis in 2 Large Cohort Studies
• Plasma proteome and metabolome characterization of an experimental human thyrotoxicosis model
• Genome-wide association study of caffeine metabolites provides new insights to caffeine metabolism and dietary caffeine-consumption behavior
• Notions of similarity for systems biology models
• Transcriptome Alterations In X-Irradiated Human Gingiva Fibroblasts
• Platelet-Related Variants Identified by Exomechip Meta-analysis in 157,293 Individuals
• Gene transcripts associated with muscle strength: a CHARGE meta-analysis of 7,781 persons
• Associations of circulating plasma microRNAs with age, body mass index and sex in a population-based study
• Gene Expression Profiling in the APP/PS1KI Mouse Model of Familial Alzheimer's Disease
• Deciphering the molecular profile of plaques, memory decline and neuron loss in two mouse models for Alzheimer's disease by deep sequencing
• Characterization of the EGFR interactome reveals associated protein complex networks and intracellular receptor dynamics
• NetworkPrioritizer: a versatile tool for network-based prioritization of candidate disease genes or other molecules
• Recent approaches to the prioritization of candidate disease genes
• Measuring and analyzing tissue specificity of human genes and protein complexes