Journal: GeroScience

Article Title: Effect of longevity genetic variants on the molecular aging rate

doi: 10.1007/s11357-021-00376-4

Figure Lengend Snippet: Subjects with SOMAscan protein data—NECS

Article Snippet: NECS proteomic data Serum samples of 77 centenarians (mean age 106 years (SD 3.7), 82 centenarians’ offspring: mean age 71 years (SD 9.1), and 62 controls, mean age 71 years (SD 5)), were profiled using a SOMAscan array custom-made for Novartis that included 5034 aptamers linked to 4387 unique proteins [ 22 ] (Table ).

Techniques:

Journal: GeroScience

Article Title: Effect of longevity genetic variants on the molecular aging rate

doi: 10.1007/s11357-021-00376-4

Figure Lengend Snippet: Manhattan plot of the genome-wide association with extreme human longevity in the New England Centenarian Study. The x-axis reports chromosomes and coordinates within chromosomes. The y-axis reports the −log10 (p-value). The 4 heatmaps report the log-transformed standardized protein expression data (rows) for the 224 individuals (columns) included in the serum protein SOMAscan experiment. The heatmap for the APOE locus includes only the top significant proteins

Article Snippet: NECS proteomic data Serum samples of 77 centenarians (mean age 106 years (SD 3.7), 82 centenarians’ offspring: mean age 71 years (SD 9.1), and 62 controls, mean age 71 years (SD 5)), were profiled using a SOMAscan array custom-made for Novartis that included 5034 aptamers linked to 4387 unique proteins [ 22 ] (Table ).

Techniques: GWAS, Transformation Assay, Expressing

Journal: Proteomics

Article Title: Comparison of Proteomic Assessment Methods in Multiple Cohort Studies

doi: 10.1002/pmic.201900278

Figure Lengend Snippet: Correlation coefficients for the 63 proteins assessed between the SOMAscan and Myriad RBM platform in both COPDGene and SPIROMICS. Presence or absence of a cis pQTL variant (p <1 × 10 −4 within 1 megabase of the gene encoding the protein product) is also listed. r s , estimated Spearman’s rho. We have separated out low correlation (r s <0.3 in both cohorts) and high correlation (r s ≥0.7 in both cohorts) proteins, with all other proteins listed in the moderate correlation category. We also list whether aptamers have cis pQTLs found in genetic analyses from either of the larger AGES [ 7 ] and INTERVAL [ 25 ] studies using SOMAscan data or from previous analysis of the full published sample size in SPIROMICS and COPDGene cohorts with Myriad RBM data [ 16 ] . Finally, we list if an aptamer has been validated as having at least some binding to its target by mass spectrometry in AGES [ 7 ] , and whether an aptamer has comparable binding in cross-reactivity testing against homologous proteins (at least 40% sequence homology) in [ 25 ] . UniProt ID, gene name, and aptamer SomaId are listed in Supplementary Table 2 .

Article Snippet: As explored in Supplementary Table 3 , for proteins from SPIROMICS and COPDGene compared across the Myriad RBM and SOMAscan platforms, we did not see systematic differences in post-translational modifications or number of isoforms between highly correlated and poorly correlated (or pQTL discordant) proteins.

Techniques: Variant Assay, Binding Assay, Mass Spectrometry, Sequencing, Coagulation, Glycoproteomics

Journal: Proteomics

Article Title: Comparison of Proteomic Assessment Methods in Multiple Cohort Studies

doi: 10.1002/pmic.201900278

Figure Lengend Snippet: Distribution of Spearman correlation coefficients for comparison of Olink analytes which overlap with SOMAscan 1.1k array in a small cohort of hypertrophic cardiomyopathy patients undergoing septal ablation (n=48). Full results in Supplementary Table 9 . r s , estimated Spearman’s rho.

Article Snippet: As explored in Supplementary Table 3 , for proteins from SPIROMICS and COPDGene compared across the Myriad RBM and SOMAscan platforms, we did not see systematic differences in post-translational modifications or number of isoforms between highly correlated and poorly correlated (or pQTL discordant) proteins.

Techniques: Comparison