Matches in SemOpenAlex for { <https://semopenalex.org/work/W2892214166> ?p ?o ?g. }
Showing items 1 to 89 of
89
with 100 items per page.
- W2892214166 abstract "Abstract Motivation Integrative network methods are commonly used for interpretation of high-throughput experimental biological data: transcriptomics, proteomics, metabolomics and others. One of the common approaches consists in finding a connected subnetwork of a global interaction network that best encompasses significant individual changes in the data and represents a so-called active module. Usually methods implementing this approach find a single subnetwork and thus solve a hard classification problem for vertices. This subnetwork inherently contains erroneous vertices, while no instrument is provided to estimate the confidence level of any particular vertex inclusion. To address this issue, in the current study we consider the active module problem as a soft classification problem. We propose a method to estimate probabilities of each vertex to belong to the active module based on Markov chain Monte Carlo subnetwork sampling. Results The proposed method allows to estimate the probability that an individual vertex belongs to the active module as well as the false discovery rate (FDR) for a given set of vertices. Given the estimated probabilities, it becomes possible to provide a connected subgraph in a consistent manner for any given FDR level: no vertex can disappear when the FDR level is relaxed. We show on simulated dataset that the proposed method has good computational performance and high classification accuracy. As an example of the performance of our method on real data, we run it on a protein-protein interaction network together with a gene expression DLBCL dataset. The results are consistent with the previous studies while, at the same time, the proposed approach is more flexible. Source code is available at https://github.com/ctlab/mcmcRanking under MIT licence." @default.
- W2892214166 created "2018-09-27" @default.
- W2892214166 creator A5031525061 @default.
- W2892214166 creator A5043105503 @default.
- W2892214166 creator A5072236122 @default.
- W2892214166 creator A5080846001 @default.
- W2892214166 date "2018-09-04" @default.
- W2892214166 modified "2023-09-24" @default.
- W2892214166 title "The Soft Vertex Classification for Active Module Identification Problem" @default.
- W2892214166 cites W2040847667 @default.
- W2892214166 cites W2044545767 @default.
- W2892214166 cites W2076272449 @default.
- W2892214166 cites W2081038787 @default.
- W2892214166 cites W2088891952 @default.
- W2892214166 cites W2104843251 @default.
- W2892214166 cites W2112811019 @default.
- W2892214166 cites W2117310472 @default.
- W2892214166 cites W2138309709 @default.
- W2892214166 cites W2140207977 @default.
- W2892214166 cites W2140954822 @default.
- W2892214166 cites W2147566730 @default.
- W2892214166 cites W2171662214 @default.
- W2892214166 cites W2593324361 @default.
- W2892214166 doi "https://doi.org/10.1101/407460" @default.
- W2892214166 hasPublicationYear "2018" @default.
- W2892214166 type Work @default.
- W2892214166 sameAs 2892214166 @default.
- W2892214166 citedByCount "0" @default.
- W2892214166 crossrefType "posted-content" @default.
- W2892214166 hasAuthorship W2892214166A5031525061 @default.
- W2892214166 hasAuthorship W2892214166A5043105503 @default.
- W2892214166 hasAuthorship W2892214166A5072236122 @default.
- W2892214166 hasAuthorship W2892214166A5080846001 @default.
- W2892214166 hasBestOaLocation W28922141661 @default.
- W2892214166 hasConcept C104317684 @default.
- W2892214166 hasConcept C107673813 @default.
- W2892214166 hasConcept C111350023 @default.
- W2892214166 hasConcept C11413529 @default.
- W2892214166 hasConcept C119857082 @default.
- W2892214166 hasConcept C124101348 @default.
- W2892214166 hasConcept C132525143 @default.
- W2892214166 hasConcept C154945302 @default.
- W2892214166 hasConcept C177264268 @default.
- W2892214166 hasConcept C185592680 @default.
- W2892214166 hasConcept C193244246 @default.
- W2892214166 hasConcept C199360897 @default.
- W2892214166 hasConcept C2780186347 @default.
- W2892214166 hasConcept C38652104 @default.
- W2892214166 hasConcept C41008148 @default.
- W2892214166 hasConcept C55493867 @default.
- W2892214166 hasConcept C80444323 @default.
- W2892214166 hasConcept C80899671 @default.
- W2892214166 hasConcept C98763669 @default.
- W2892214166 hasConceptScore W2892214166C104317684 @default.
- W2892214166 hasConceptScore W2892214166C107673813 @default.
- W2892214166 hasConceptScore W2892214166C111350023 @default.
- W2892214166 hasConceptScore W2892214166C11413529 @default.
- W2892214166 hasConceptScore W2892214166C119857082 @default.
- W2892214166 hasConceptScore W2892214166C124101348 @default.
- W2892214166 hasConceptScore W2892214166C132525143 @default.
- W2892214166 hasConceptScore W2892214166C154945302 @default.
- W2892214166 hasConceptScore W2892214166C177264268 @default.
- W2892214166 hasConceptScore W2892214166C185592680 @default.
- W2892214166 hasConceptScore W2892214166C193244246 @default.
- W2892214166 hasConceptScore W2892214166C199360897 @default.
- W2892214166 hasConceptScore W2892214166C2780186347 @default.
- W2892214166 hasConceptScore W2892214166C38652104 @default.
- W2892214166 hasConceptScore W2892214166C41008148 @default.
- W2892214166 hasConceptScore W2892214166C55493867 @default.
- W2892214166 hasConceptScore W2892214166C80444323 @default.
- W2892214166 hasConceptScore W2892214166C80899671 @default.
- W2892214166 hasConceptScore W2892214166C98763669 @default.
- W2892214166 hasLocation W28922141661 @default.
- W2892214166 hasOpenAccess W2892214166 @default.
- W2892214166 hasPrimaryLocation W28922141661 @default.
- W2892214166 hasRelatedWork W2323945603 @default.
- W2892214166 hasRelatedWork W2348097614 @default.
- W2892214166 hasRelatedWork W2348925352 @default.
- W2892214166 hasRelatedWork W2376418607 @default.
- W2892214166 hasRelatedWork W2389529561 @default.
- W2892214166 hasRelatedWork W2748952813 @default.
- W2892214166 hasRelatedWork W2892214166 @default.
- W2892214166 hasRelatedWork W2949951245 @default.
- W2892214166 hasRelatedWork W303980170 @default.
- W2892214166 hasRelatedWork W63131150 @default.
- W2892214166 isParatext "false" @default.
- W2892214166 isRetracted "false" @default.
- W2892214166 magId "2892214166" @default.
- W2892214166 workType "article" @default.