FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W3203258105> ?p ?o ?g. }

• W3203258105 endingPage "1636" @default.
• W3203258105 startingPage "1626" @default.
• W3203258105 abstract "Tumor mutational burden (TMB) measurements aid in identifying patients who are likely to benefit from immunotherapy; however, there is empirical variability across panel assays and factors contributing to this variability have not been comprehensively investigated. Identifying sources of variability can help facilitate comparability across different panel assays, which may aid in broader adoption of panel assays and development of clinical applications.Twenty-nine tumor samples and 10 human-derived cell lines were processed and distributed to 16 laboratories; each used their own bioinformatics pipelines to calculate TMB and compare to whole exome results. Additionally, theoretical positive percent agreement (PPA) and negative percent agreement (NPA) of TMB were estimated. The impact of filtering pathogenic and germline variants on TMB estimates was assessed. Calibration curves specific to each panel assay were developed to facilitate translation of panel TMB values to whole exome sequencing (WES) TMB values.Panel sizes >667 Kb are necessary to maintain adequate PPA and NPA for calling TMB high versus TMB low across the range of cut-offs used in practice. Failure to filter out pathogenic variants when estimating panel TMB resulted in overestimating TMB relative to WES for all assays. Filtering out potential germline variants at >0% population minor allele frequency resulted in the strongest correlation to WES TMB. Application of a calibration approach derived from The Cancer Genome Atlas data, tailored to each panel assay, reduced the spread of panel TMB values around the WES TMB as reflected in lower root mean squared error (RMSE) for 26/29 (90%) of the clinical samples.Estimation of TMB varies across different panels, with panel size, gene content, and bioinformatics pipelines contributing to empirical variability. Statistical calibration can achieve more consistent results across panels and allows for comparison of TMB values across various panel assays. To promote reproducibility and comparability across assays, a software tool was developed and made publicly available." @default.
• W3203258105 created "2021-10-11" @default.
• W3203258105 creator A5001120955 @default.
• W3203258105 creator A5002293304 @default.
• W3203258105 creator A5002641296 @default.
• W3203258105 creator A5005629366 @default.
• W3203258105 creator A5009262747 @default.
• W3203258105 creator A5009917154 @default.
• W3203258105 creator A5009934771 @default.
• W3203258105 creator A5013083952 @default.
• W3203258105 creator A5013778834 @default.
• W3203258105 creator A5015251725 @default.
• W3203258105 creator A5015321732 @default.
• W3203258105 creator A5016015665 @default.
• W3203258105 creator A5022218277 @default.
• W3203258105 creator A5022654068 @default.
• W3203258105 creator A5023235979 @default.
• W3203258105 creator A5024048779 @default.
• W3203258105 creator A5024283710 @default.
• W3203258105 creator A5026607584 @default.
• W3203258105 creator A5026835151 @default.
• W3203258105 creator A5029445887 @default.
• W3203258105 creator A5029779848 @default.
• W3203258105 creator A5029805571 @default.
• W3203258105 creator A5032072335 @default.
• W3203258105 creator A5037827919 @default.
• W3203258105 creator A5039414235 @default.
• W3203258105 creator A5040419960 @default.
• W3203258105 creator A5045263771 @default.
• W3203258105 creator A5047082579 @default.
• W3203258105 creator A5048780647 @default.
• W3203258105 creator A5049717780 @default.
• W3203258105 creator A5053726530 @default.
• W3203258105 creator A5054839814 @default.
• W3203258105 creator A5059471274 @default.
• W3203258105 creator A5059877721 @default.
• W3203258105 creator A5062299746 @default.
• W3203258105 creator A5063854011 @default.
• W3203258105 creator A5067217729 @default.
• W3203258105 creator A5067225889 @default.
• W3203258105 creator A5067701996 @default.
• W3203258105 creator A5073415783 @default.
• W3203258105 creator A5076411468 @default.
• W3203258105 creator A5076853103 @default.
• W3203258105 creator A5081996540 @default.
• W3203258105 creator A5082563757 @default.
• W3203258105 creator A5083576354 @default.
• W3203258105 creator A5088965709 @default.
• W3203258105 creator A5089035898 @default.
• W3203258105 creator A5091723132 @default.
• W3203258105 creator A5091817176 @default.
• W3203258105 creator A5091831019 @default.
• W3203258105 date "2021-12-01" @default.
• W3203258105 modified "2023-10-16" @default.
• W3203258105 title "Aligning tumor mutational burden (TMB) quantification across diagnostic platforms: phase II of the Friends of Cancer Research TMB Harmonization Project" @default.
• W3203258105 cites W2160981405 @default.
• W3203258105 cites W223909586 @default.
• W3203258105 cites W2557730509 @default.
• W3203258105 cites W2594059953 @default.
• W3203258105 cites W2594102731 @default.
• W3203258105 cites W2601943254 @default.
• W3203258105 cites W2605612731 @default.
• W3203258105 cites W2606495925 @default.
• W3203258105 cites W2613362156 @default.
• W3203258105 cites W2754223242 @default.
• W3203258105 cites W2783897381 @default.
• W3203258105 cites W2788797147 @default.
• W3203258105 cites W2789211248 @default.
• W3203258105 cites W2790164909 @default.
• W3203258105 cites W2797675588 @default.
• W3203258105 cites W2800160190 @default.
• W3203258105 cites W2886963239 @default.
• W3203258105 cites W2890023109 @default.
• W3203258105 cites W2890909649 @default.
• W3203258105 cites W2891795654 @default.
• W3203258105 cites W2897633553 @default.
• W3203258105 cites W2914458127 @default.
• W3203258105 cites W2916508569 @default.
• W3203258105 cites W2956015063 @default.
• W3203258105 cites W2960479648 @default.
• W3203258105 cites W2970981278 @default.
• W3203258105 cites W2978209487 @default.
• W3203258105 cites W3007317932 @default.
• W3203258105 cites W3008139761 @default.
• W3203258105 cites W3010839046 @default.
• W3203258105 cites W3013239365 @default.
• W3203258105 cites W3027407285 @default.
• W3203258105 cites W3083408667 @default.
• W3203258105 cites W3083986479 @default.
• W3203258105 cites W3093673980 @default.
• W3203258105 cites W3093785879 @default.
• W3203258105 cites W3095580221 @default.
• W3203258105 cites W3120667986 @default.
• W3203258105 cites W4253144250 @default.
• W3203258105 doi "https://doi.org/10.1016/j.annonc.2021.09.016" @default.
• W3203258105 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/34606929" @default.
• W3203258105 hasPublicationYear "2021" @default.
• W3203258105 type Work @default.

• next