Stability and reproducibility of proteomic profiles measured with an aptamer-based platform

Scientific Reports
Claire H KimA Heather Eliassen

Abstract

The feasibility of SOMAscan, a multiplex, high sensitivity proteomics platform, for use in studies using archived plasma samples has not yet been assessed. We quantified 1,305 proteins from plasma samples donated by 16 Nurses' Health Study (NHS) participants, 40 NHSII participants, and 12 local volunteers. We assessed assay reproducibility using coefficients of variation (CV) from duplicate samples and intra-class correlation coefficients (ICC) and Spearman correlation coefficients (r) of samples processed (i.e., centrifuged and aliquoted into separate components) immediately, 24, and 48 hours after collection, as well as those of samples collected from the same individuals 1 year apart. CVs were <20% for 99% of proteins overall and <10% for 92% of proteins in heparin samples compared to 66% for EDTA samples. We observed ICC or Spearman r (comparing immediate vs. 24-hour delayed processing) ≥0.75 for 61% of proteins, with some variation by anticoagulant (56% for heparin and 70% for EDTA) and protein class (ranging from 49% among kinases to 83% among hormones). Within-person stability over 1 year was good (ICC or Spearman r ≥ 0.4) for 91% of proteins. These results demonstrate the feasibility of SOMAscan for analyses of archived...Continue Reading

References

Oct 1, 1977·American Journal of Epidemiology·B RosnerW E Miall
Apr 1, 1975·The Journal of Clinical Investigation·B M Sherman, S G Korenman
Oct 8, 1987·The New England Journal of Medicine·T A StameyE Redwine
Jan 8, 1981·The New England Journal of Medicine·R B ShekelleW J Raynor
Sep 6, 1995·Journal of the National Cancer Institute·S E HankinsonF E Speizer
Sep 10, 1998·Journal of the National Cancer Institute·S E HankinsonF E Speizer
Jan 7, 1999·International Journal of Obesity and Related Metabolic Disorders : Journal of the International Association for the Study of Obesity·H HaunerF Hube
Jul 8, 1999·Journal of Internal Medicine·G S Hotamisligil
Apr 5, 2001·American Journal of Physiology. Endocrinology and Metabolism·P A KernG Ranganathan
Sep 26, 2001·International Journal of Obesity and Related Metabolic Disorders : Journal of the International Association for the Study of Obesity·N G ForouhiP M McKeigue
Oct 24, 2001·International Journal of Obesity and Related Metabolic Disorders : Journal of the International Association for the Study of Obesity·A FestaS M Haffner
Oct 24, 2001·International Journal of Obesity and Related Metabolic Disorders : Journal of the International Association for the Study of Obesity·N PannacciulliG De Pergola
Aug 3, 2002·Journal of Neuroendocrinology·C-P ShenL H T Van der Ploeg
Mar 26, 2003·Clinical Chemistry·Tobias PischonEric B Rimm
Oct 15, 2003·Arthritis and Rheumatism·Solbritt Rantapää-DahlqvistWalther J van Venrooij
Dec 17, 2004·The New England Journal of Medicine·Jennifer K PaiEric B Rimm
Apr 25, 2006·Biostatistics·W Evan JohnsonAriel Rabinovic
Mar 21, 2007·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Shelley S TworogerSusan E Hankinson
Jun 8, 2007·Expert Review of Proteomics·Stefano BarelliJean-Daniel Tissot
Jun 9, 2009·Diabetes Care·UNKNOWN International Expert Committee
Mar 25, 2010·Cancer Epidemiology, Biomarkers & Prevention : a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology·Joanne KotsopoulosA Heather Eliassen
Jan 17, 2012·Biochimica Et Biophysica Acta·Thiruvarangan RamarajBrendan Mumey
Nov 10, 2012·Proceedings of the National Academy of Sciences of the United States of America·Douglas R DaviesThale C Jarvis
Oct 15, 2013·Journal of Alzheimer's Disease : JAD·Steven J KiddleRichard J B Dobson
Feb 8, 2014·Molecular & Cellular Proteomics : MCP·Jason WebberAled Clayton
Jul 15, 2015·American Journal of Physiology. Endocrinology and Metabolism·Gabrielle Page-WilsonSharon L Wardlaw
Apr 19, 2016·PloS One·Tony MarionKlaus Schughart
Jun 22, 2016·JAMA : the Journal of the American Medical Association·Peter GanzStephen A Williams
Aug 18, 2016·Scientific Reports·Yetrib HathoutEric P Hoffman

❮ Previous
Next ❯

Citations

Aug 17, 2019·Basic Research in Cardiology·Michael J DasekeMerry L Lindsey
Dec 10, 2019·Clinical Transplantation·Aws AlmuflehSharon Chih
Jun 4, 2020·PLoS Computational Biology·Hélène RuffieuxArmand Valsesia
May 6, 2020·Sleep·Aditya AmbatiShahrad Taheri
Sep 9, 2020·Neuropsychopharmacology : Official Publication of the American College of Neuropsychopharmacology·Sruti RayaproluNicholas T Seyfried
Jan 31, 2019·Translational Vision Science & Technology·Anne M LynchNaresh Mandava
Sep 5, 2019·American Journal of Physiology. Gastrointestinal and Liver Physiology·Madhusudan GroverGianrico Farrugia
May 10, 2020·Proteomics·Laura M RaffieldUNKNOWN NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium
Apr 8, 2020·Alzheimer's & Dementia : Diagnosis, Assessment & Disease Monitoring·Mark MapstoneUNKNOWN Alzheimer's Biomarkers Consortium–Down Syndrome (ABC‐DS) Investigators
Sep 26, 2020·Translational Vision Science & Technology·Anne M LynchNaresh Mandava
Dec 4, 2019·Nature Medicine·Stephen A WilliamsNicholas J Wareham
Dec 19, 2020·International Journal of Molecular Sciences·Marta ZampinoLuigi Ferrucci
Jan 22, 2021·Cell Systems·Jeffrey Molendijk, Benjamin L Parker
Apr 9, 2021·The American Journal of Clinical Nutrition·Parul ChristianDaniel J Raiten
May 18, 2021·Circulation. Genomic and Precision Medicine·Hongsheng GuiDavid E Lanfear
May 29, 2021·Nature Metabolism·Jeremy M RobbinsRobert E Gerszten
May 18, 2021·Nature Reviews. Materials·Benjamin J BielajewKyriacos A Athanasiou
Jun 20, 2021·Communications Biology·Thjodbjorg EiriksdottirMagnus O Ulfarsson
Aug 3, 2021·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Joni V LindbohmMika Kivimäki
Sep 29, 2021·Analytical and Bioanalytical Chemistry·Ming-Qing TangLin-Sen Qing
Aug 25, 2021·The Journal of Clinical Investigation·Justin M SniderFloyd H Chilton
Nov 13, 2021·JCI Insight·Louisa HelmsBenjamin S Freedman
Dec 12, 2021·Environmental and Molecular Mutagenesis·Mohammad L RahmanQing Lan

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Methods Mentioned

BETA
SELEX
Assay
proteomic profiling
blood collection
ELISA
pull down

Software Mentioned

sva
SOMAscan
SomaLogic
SAS
R

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