Evidence map›Paper›PMID 30830400›Full record

ArticleMetabolomics : Official journal of the Metabolomic Society2018

Impact of post-collection freezing delay on the reliability of serum metabolomics in samples reflecting the California mid-term pregnancy biobank.

Michael R La Frano, Suzan L Carmichael, Chen Ma, Macy Hardley, Tong Shen, Ron Wong, Lorenzo Rosales, Kamil Borkowski, Theresa L Pedersen, Gary M Shaw and 3 more

Abstract read
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In one paragraph

Article in Metabolomics : Official journal of the Metabolomic Society, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
19citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

19 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Trial
  3. Article
  4. Article
  5. Article
  6. Article
  7. Review
  8. Endocannabinoids as potential biomarkers: It's all about pre-analytics.Journal of mass spectrometry and advances in the clinical lab · 2021
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  9. Observational
  10. Comparison of dried blood spot and plasma sampling for untargeted metabolomics.Metabolomics : Official journal of the Metabolomic Society · 2021
    Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Observational
  16. The key points in the pre-analytical procedures of blood and urine samples in metabolomics studies.Metabolomics : Official journal of the Metabolomic Society · 2020
    Review
  17. Review
  18. Article
  19. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

13 authors.

Michael R La FranoWest Coast Metabolomics Center, Genome Center, University of California Davis, Davis, CA, USA.
Suzan L CarmichaelDepartment of Pediatrics, Stanford University, Stanford, CA, 94305, USA.
Chen MaDepartment of Pediatrics, Stanford University, Stanford, CA, 94305, USA.
Macy HardleyDepartment of Pediatrics, Stanford University, Stanford, CA, 94305, USA.
Tong ShenWest Coast Metabolomics Center, Genome Center, University of California Davis, Davis, CA, USA.
Ron WongDepartment of Pediatrics, Stanford University, Stanford, CA, 94305, USA.
Lorenzo RosalesDepartment of Food Science and Nutrition, California Polytechnic State University, San Luis Obispo, CA, USA.
Kamil BorkowskiWest Coast Metabolomics Center, Genome Center, University of California Davis, Davis, CA, USA.
Theresa L PedersenAdvanced Analytics, Woodland, CA, USA.
Gary M ShawDepartment of Pediatrics, Stanford University, Stanford, CA, 94305, USA.
David K StevensonDepartment of Pediatrics, Stanford University, Stanford, CA, 94305, USA.
Oliver FiehnWest Coast Metabolomics Center, Genome Center, University of California Davis, Davis, CA, USA.
John W NewmanWest Coast Metabolomics Center, Genome Center, University of California Davis, Davis, CA, USA. John.newman@ars.usda.gov.ORCID 0000-0001-9632-6571

Funding

Agricultural Research Service 2032-51530-022-00DFoundation for the National Institutes of Health U24-DK097154Foundation for the National Institutes of Health UL1-TR001085March of Dimes Foundation Prematurity Research Center, Stanford University School of Medicine 22-FY18-808
6 · The paper itself

Abstract

backgroundPopulation-based biorepositories are important resources, but sample handling can affect data quality.

objectiveIdentify metabolites of value for clinical investigations despite extended postcollection freezing delays, using protocols representing a California mid-term pregnancy biobank.

methodsBlood collected from non-pregnant healthy female volunteers (n = 20) underwent three handling protocols after 30 min clotting at room temperature: (1) ideal-samples frozen (- 80 °C) within 2 h of collection; (2) delayed freezing-samples held at room temperature for 3 days, then 4 °C for 9 days, the median times for biobank samples, and then frozen; (3) delayed freezing with freeze-thaw-the delayed freezing protocol with a freeze-thaw cycle simulating retrieved sample sub-aliquoting. Mass spectrometry-based untargeted metabolomic analyses of primary metabolism and complex lipids and targeted profiling of oxylipins, endocannabinoids, ceramides/sphingoid-bases, and bile acids were performed. Metabolite concentrations and intraclass correlation coefficients (ICC) were compared, with the ideal protocol as the reference.

resultsSixty-two percent of 428 identified compounds had good to excellent ICCs, a metric of concordance between measurements of samples handled with the different protocols. Sphingomyelins, phosphatidylcholines, cholesteryl esters, triacylglycerols, bile acids and fatty acid diols were the least affected by non-ideal handling, while sugars, organic acids, amino acids, monoacylglycerols, lysophospholipids, N-acylethanolamides, polyunsaturated fatty acids, and numerous oxylipins were altered by delayed freezing. Freeze-thaw effects were assay-specific with lipids being most stable.

conclusionsDespite extended post-collection freezing delays characteristic of some biobanks of opportunistically collected clinical samples, numerous metabolomic compounds had both stable levels and good concordance.

Indexed as

AdultBlood BankingBlood BanksBlood PreservationCaliforniaCryopreservationFemaleHumansMetabolomicsPregnancyBiorepositoriesData qualityDelayed freezingMetabolite stabilityMetabolomics

Identifiers

PMID30830400

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.