FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W3204256587> ?p ?o ?g. }

• W3204256587 endingPage "87" @default.
• W3204256587 startingPage "76" @default.
• W3204256587 abstract "Pathway analysis is a popular method aiming to derive biological interpretation from high-throughput gene expression studies. However, existing methods focus mostly on identifying which pathway or pathways could have been perturbed, given differential gene expression patterns. In this paper, we present a novel pathway analysis framework, namely rPAC, which decomposes each signaling pathway route into two parts, the upstream portion of a transcription factor (TF) block and the downstream portion from the TF block and generates a pathway route perturbation analysis scheme examining disturbance scores assigned to both parts together. This rPAC scoring is further applied to a cohort of gene expression data sets which produces two summary metrics, “Proportion of Significance” (PS) and “Average Route Score” (ARS), as quantitative measures discerning perturbed pathway routes within and/or between cohorts. To demonstrate rPAC’s scoring competency, we first used a large amount of simulated data and compared the method’s performance against those by conventional methods in terms of power curve. Next, we performed a case study involving three epithelial cancer data sets from The Cancer Genome Atlas (TCGA). The rPAC method revealed specific pathway routes as potential cancer type signatures. A deeper pathway analysis of sub-groups (i.e., age groups in COAD or cancer sub-types in BRCA) resulted in pathway routes that are known to be associated with the sub-groups. In addition, multiple previously uncharacterized pathways routes were identified, potentially suggesting that rPAC is better in deciphering etiology of a disease than conventional methods particularly in isolating routes and sections of perturbed pathways in a finer granularity." @default.
• W3204256587 created "2021-10-11" @default.
• W3204256587 creator A5015185874 @default.
• W3204256587 creator A5029257492 @default.
• W3204256587 creator A5030274030 @default.
• W3204256587 creator A5038577350 @default.
• W3204256587 creator A5045068038 @default.
• W3204256587 creator A5076114384 @default.
• W3204256587 date "2022-02-01" @default.
• W3204256587 modified "2023-09-27" @default.
• W3204256587 title "rPAC: Route based pathway analysis for cohorts of gene expression data sets" @default.
• W3204256587 cites W1967220865 @default.
• W3204256587 cites W1967374891 @default.
• W3204256587 cites W1986911605 @default.
• W3204256587 cites W1989277387 @default.
• W3204256587 cites W1999086631 @default.
• W3204256587 cites W2009684443 @default.
• W3204256587 cites W2011995257 @default.
• W3204256587 cites W2014349355 @default.
• W3204256587 cites W2020667072 @default.
• W3204256587 cites W2073117863 @default.
• W3204256587 cites W2088718071 @default.
• W3204256587 cites W2100714130 @default.
• W3204256587 cites W2110687686 @default.
• W3204256587 cites W2113624587 @default.
• W3204256587 cites W2121971740 @default.
• W3204256587 cites W2126547130 @default.
• W3204256587 cites W2128211963 @default.
• W3204256587 cites W2130410032 @default.
• W3204256587 cites W2131204570 @default.
• W3204256587 cites W2137119270 @default.
• W3204256587 cites W2140683554 @default.
• W3204256587 cites W2149441684 @default.
• W3204256587 cites W2153747194 @default.
• W3204256587 cites W2154972152 @default.
• W3204256587 cites W2159482845 @default.
• W3204256587 cites W2167097026 @default.
• W3204256587 cites W2184284683 @default.
• W3204256587 cites W2262414037 @default.
• W3204256587 cites W2309067861 @default.
• W3204256587 cites W2466883271 @default.
• W3204256587 cites W2527438532 @default.
• W3204256587 cites W2534292219 @default.
• W3204256587 cites W2592806593 @default.
• W3204256587 cites W2665195004 @default.
• W3204256587 cites W2766290664 @default.
• W3204256587 cites W2772497653 @default.
• W3204256587 cites W2898368038 @default.
• W3204256587 cites W2900616936 @default.
• W3204256587 cites W2904251687 @default.
• W3204256587 cites W2907110005 @default.
• W3204256587 cites W2948631285 @default.
• W3204256587 cites W2952498028 @default.
• W3204256587 cites W2971488563 @default.
• W3204256587 cites W2979832776 @default.
• W3204256587 cites W2987220384 @default.
• W3204256587 cites W2989945352 @default.
• W3204256587 cites W4231254854 @default.
• W3204256587 cites W4256409604 @default.
• W3204256587 doi "https://doi.org/10.1016/j.ymeth.2021.10.002" @default.
• W3204256587 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/34628030" @default.
• W3204256587 hasPublicationYear "2022" @default.
• W3204256587 type Work @default.
• W3204256587 sameAs 3204256587 @default.
• W3204256587 citedByCount "5" @default.
• W3204256587 countsByYear W32042565872021 @default.
• W3204256587 countsByYear W32042565872022 @default.
• W3204256587 countsByYear W32042565872023 @default.
• W3204256587 crossrefType "journal-article" @default.
• W3204256587 hasAuthorship W3204256587A5015185874 @default.
• W3204256587 hasAuthorship W3204256587A5029257492 @default.
• W3204256587 hasAuthorship W3204256587A5030274030 @default.
• W3204256587 hasAuthorship W3204256587A5038577350 @default.
• W3204256587 hasAuthorship W3204256587A5045068038 @default.
• W3204256587 hasAuthorship W3204256587A5076114384 @default.
• W3204256587 hasBestOaLocation W32042565872 @default.
• W3204256587 hasConcept C104317684 @default.
• W3204256587 hasConcept C150194340 @default.
• W3204256587 hasConcept C2779230013 @default.
• W3204256587 hasConcept C54355233 @default.
• W3204256587 hasConcept C60644358 @default.
• W3204256587 hasConcept C70721500 @default.
• W3204256587 hasConcept C86803240 @default.
• W3204256587 hasConcept C9927688 @default.
• W3204256587 hasConceptScore W3204256587C104317684 @default.
• W3204256587 hasConceptScore W3204256587C150194340 @default.
• W3204256587 hasConceptScore W3204256587C2779230013 @default.
• W3204256587 hasConceptScore W3204256587C54355233 @default.
• W3204256587 hasConceptScore W3204256587C60644358 @default.
• W3204256587 hasConceptScore W3204256587C70721500 @default.
• W3204256587 hasConceptScore W3204256587C86803240 @default.
• W3204256587 hasConceptScore W3204256587C9927688 @default.
• W3204256587 hasFunder F4320332161 @default.
• W3204256587 hasLocation W32042565871 @default.
• W3204256587 hasLocation W32042565872 @default.
• W3204256587 hasLocation W32042565873 @default.
• W3204256587 hasOpenAccess W3204256587 @default.
• W3204256587 hasPrimaryLocation W32042565871 @default.

• next