FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2799193166> ?p ?o ?g. }

• W2799193166 abstract "Abstract Phage ImmunoPrecipitation Sequencing (PhIP-Seq) is a massively multiplexed, phage-display based methodology for analyzing antibody binding specificities, with several advantages over existing techniques, including the uniformity and completeness of proteomic libraries, as well as high sample throughput and low cost. Data generated by the PhIP-Seq assay are unique in many ways. The only published analytical approach for these data suffers from important limitations. Here, we propose a new statistical framework with several improvements. Using a set of replicate mock immunoprecipitations (negative controls lacking antibody input) to generate background binding distributions, we establish a statistical model to quantify antibody-dependent changes in phage clone abundance. Our approach incorporates robust regression of experimental samples against the mock IPs as a means to calculate the expected phage clone abundance, and provides a generalized model for calculating each clone’s expected abundance-associated standard deviation. In terms of bias removal and detection sensitivity, we demonstrate that this z-score algorithm outperforms the previous approach. Further, in a large cohort of autoantibody-defined Sjögren’s Syndrome (SS) patient sera, PhIP-Seq robustly identified Ro52, Ro60, and SSB/La as known autoantigens associated with SS. In an effort to identify novel SS-specific binding specificities, SS z-scores were compared with z-scores obtained by screening Ropositive sera from patients with systemic lupus erythematosus (SLE). This analysis did not yield any commonly targeted SS-specific autoantigens, suggesting that if they exist at all, their epitopes are likely to be discontinuous or post-translationally modified. In summary, we have developed an improved algorithm for PhIP-Seq data analysis, which was validated using a large set of sera with clinically characterized autoantibodies. This z-score approach will substantially improve the ability of PhIP-Seq to detect and interpret antibody binding specificities. The associated Python code is freely available for download here: https://github.com/LarmanLab/PhIP-Seq-Analyzer ." @default.
• W2799193166 created "2018-05-07" @default.
• W2799193166 creator A5018878859 @default.
• W2799193166 creator A5025626996 @default.
• W2799193166 creator A5032435132 @default.
• W2799193166 creator A5038098176 @default.
• W2799193166 creator A5059663009 @default.
• W2799193166 creator A5086448897 @default.
• W2799193166 date "2018-04-26" @default.
• W2799193166 modified "2023-10-03" @default.
• W2799193166 title "Improved Analysis of Phage ImmunoPrecipitation Sequencing (PhIP-Seq) Data Using a Z-score Algorithm" @default.
• W2799193166 cites W112689046 @default.
• W2799193166 cites W1486057911 @default.
• W2799193166 cites W1572553812 @default.
• W2799193166 cites W1788543171 @default.
• W2799193166 cites W1900892538 @default.
• W2799193166 cites W1985921653 @default.
• W2799193166 cites W1987716371 @default.
• W2799193166 cites W1996631006 @default.
• W2799193166 cites W1998702086 @default.
• W2799193166 cites W2000301518 @default.
• W2799193166 cites W2002205128 @default.
• W2799193166 cites W2012284676 @default.
• W2799193166 cites W2017344650 @default.
• W2799193166 cites W2023663343 @default.
• W2799193166 cites W2029176495 @default.
• W2799193166 cites W2034975699 @default.
• W2799193166 cites W2043107072 @default.
• W2799193166 cites W2067319956 @default.
• W2799193166 cites W2070527591 @default.
• W2799193166 cites W2077321024 @default.
• W2799193166 cites W2081165519 @default.
• W2799193166 cites W2084130542 @default.
• W2799193166 cites W2096439158 @default.
• W2799193166 cites W2107018762 @default.
• W2799193166 cites W2117230117 @default.
• W2799193166 cites W2120675240 @default.
• W2799193166 cites W2124985265 @default.
• W2799193166 cites W2131497870 @default.
• W2799193166 cites W2146203649 @default.
• W2799193166 cites W2152239989 @default.
• W2799193166 cites W2154533992 @default.
• W2799193166 cites W2167385753 @default.
• W2799193166 cites W2550055437 @default.
• W2799193166 cites W3022289262 @default.
• W2799193166 doi "https://doi.org/10.1101/285916" @default.
• W2799193166 hasPublicationYear "2018" @default.
• W2799193166 type Work @default.
• W2799193166 sameAs 2799193166 @default.
• W2799193166 citedByCount "7" @default.
• W2799193166 countsByYear W27991931662018 @default.
• W2799193166 countsByYear W27991931662019 @default.
• W2799193166 countsByYear W27991931662020 @default.
• W2799193166 countsByYear W27991931662021 @default.
• W2799193166 countsByYear W27991931662023 @default.
• W2799193166 crossrefType "posted-content" @default.
• W2799193166 hasAuthorship W2799193166A5018878859 @default.
• W2799193166 hasAuthorship W2799193166A5025626996 @default.
• W2799193166 hasAuthorship W2799193166A5032435132 @default.
• W2799193166 hasAuthorship W2799193166A5038098176 @default.
• W2799193166 hasAuthorship W2799193166A5059663009 @default.
• W2799193166 hasAuthorship W2799193166A5086448897 @default.
• W2799193166 hasBestOaLocation W27991931661 @default.
• W2799193166 hasConcept C104317684 @default.
• W2799193166 hasConcept C105795698 @default.
• W2799193166 hasConcept C11413529 @default.
• W2799193166 hasConcept C142724271 @default.
• W2799193166 hasConcept C159654299 @default.
• W2799193166 hasConcept C186268636 @default.
• W2799193166 hasConcept C192800701 @default.
• W2799193166 hasConcept C195616568 @default.
• W2799193166 hasConcept C203014093 @default.
• W2799193166 hasConcept C204787440 @default.
• W2799193166 hasConcept C2780367336 @default.
• W2799193166 hasConcept C2781162219 @default.
• W2799193166 hasConcept C33923547 @default.
• W2799193166 hasConcept C41008148 @default.
• W2799193166 hasConcept C51679486 @default.
• W2799193166 hasConcept C54355233 @default.
• W2799193166 hasConcept C70721500 @default.
• W2799193166 hasConcept C71829478 @default.
• W2799193166 hasConcept C71924100 @default.
• W2799193166 hasConcept C81089528 @default.
• W2799193166 hasConcept C86803240 @default.
• W2799193166 hasConceptScore W2799193166C104317684 @default.
• W2799193166 hasConceptScore W2799193166C105795698 @default.
• W2799193166 hasConceptScore W2799193166C11413529 @default.
• W2799193166 hasConceptScore W2799193166C142724271 @default.
• W2799193166 hasConceptScore W2799193166C159654299 @default.
• W2799193166 hasConceptScore W2799193166C186268636 @default.
• W2799193166 hasConceptScore W2799193166C192800701 @default.
• W2799193166 hasConceptScore W2799193166C195616568 @default.
• W2799193166 hasConceptScore W2799193166C203014093 @default.
• W2799193166 hasConceptScore W2799193166C204787440 @default.
• W2799193166 hasConceptScore W2799193166C2780367336 @default.
• W2799193166 hasConceptScore W2799193166C2781162219 @default.
• W2799193166 hasConceptScore W2799193166C33923547 @default.
• W2799193166 hasConceptScore W2799193166C41008148 @default.
• W2799193166 hasConceptScore W2799193166C51679486 @default.
• W2799193166 hasConceptScore W2799193166C54355233 @default.

• next