Blar i Fakultet for medisin og helsevitenskap (MH) på tidsskrift "Bioinformatics"
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CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination
(Peer reviewed; Journal article, 2019)Motivation Combining multiple layers of information underlying biological complexity into a structured framework represent a challenge in systems biology. A key task is the formalization of such information in models ... -
CImbinator: a web-based tool for drug synergy analysis in small- and large-scale datasets
(Journal article; Peer reviewed, 2017)Motivation: Drug synergies are sought to identify combinations of drugs particularly beneficial. User-friendly software solutions that can assist analysis of large-scale datasets are required. Results: CImbinator is a ... -
Methplotlib: Analysis of modified nucleotides from nanopore sequencing
(Journal article; Peer reviewed, 2020)Summary Modified nucleotides play a crucial role in gene expression regulation. Here, we describe methplotlib, a tool developed for the visualization of modified nucleotides detected from Oxford Nanopore Technologies ... -
The Minimum Information about a Molecular Interaction Causal Statement (MI2CAST)
(Peer reviewed; Journal article, 2020)Motivation A large variety of molecular interactions occurs between biomolecular components in cells. When a molecular interaction results in a regulatory effect, exerted by one component onto a downstream component, a ... -
PyRanges: efficient comparison of genomic intervals in Python
(Journal article; Peer reviewed, 2019)Complex genomic analyses often use sequences of simple set operations like intersection, overlap and nearest on genomic intervals. These operations, coupled with some custom programming, allow a wide range of analyses to ... -
The Cytoscape BioGateway App: explorative network building from an RDF store
(Journal article; Peer reviewed, 2019)The BioGateway App is a Cytoscape (version 3) plugin designed to provide easy query access to the BioGateway Resource Description Framework triple store, which contains functional and interaction information for proteins ...