Evidence map›Paper›PMID 35767427›Full record

ArticleAnalytical chemistry2022

Internal Standard Triggered-Parallel Reaction Monitoring Mass Spectrometry Enables Multiplexed Quantification of Candidate Biomarkers in Plasma.

Jacob J Kennedy, Jeffrey R Whiteaker, Richard G Ivey, Aura Burian, Shrabanti Chowdhury, Chia-Feng Tsai, Tao Liu, ChenWei Lin, Oscar D Murillo, Rachel A Lundeen and 9 more

Abstract read
In one paragraph

Article in Analytical chemistry, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
14citing 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

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

  1. Pooled it
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  11. Multi-omic stratification of the missense variant cysteinome.bioRxiv : the preprint server for biology · 2023
    Article
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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

19 authors.

Jacob J KennedyClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.ORCID 0000-0003-2532-3861
Jeffrey R WhiteakerClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.ORCID 0000-0001-5042-8580
Richard G IveyClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Aura BurianClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Shrabanti ChowdhuryDepartment of Genetics and Genomic Sciences and Icahn Institute for Data Science and Genomic Technology, Icahn School of Medicine at Mount Sinai, New York, New York 10029, United States.
Chia-Feng TsaiBiological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States.ORCID 0000-0002-6514-6911
Tao LiuBiological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States.ORCID 0000-0001-9529-6550
ChenWei LinClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Oscar D MurilloClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Rachel A LundeenClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Lisa A JonesProteomics and Metabolomics Shared Resources, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Philip R GafkenProteomics and Metabolomics Shared Resources, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Gary LongtonPublic Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.
Karin D RodlandBiological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99352, United States.ORCID 0000-0001-7070-6541
Steven J SkatesMGH Biostatistics Center, Harvard Medical School, Boston, Massachusetts 02114, United States.
John LanduaLester and Sue Smith Breast Center, Baylor College of Medicine, Houston, Texas 77030, United States.
Pei WangDepartment of Genetics and Genomic Sciences, Mount Sinai Hospital, New York, New York 10065, United States.
Michael T LewisLester and Sue Smith Breast Center, Baylor College of Medicine, Houston, Texas 77030, United States.
Amanda G PaulovichClinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington 98109, United States.ORCID 0000-0001-6532-6499

Funding

Translational Bioimaging Core Shared ResourceP30CA015704 · NCI · FRED HUTCHINSON CANCER RESEARCH CENTER · PI Eric Collisson · 1985 to 2026
$296.4M
Proteogenomic translator for cancer biomarker discovery towards precision medicineU24CA271114 · NCI · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI Avi Ma'ayan, Pei Wang · 2022 to 2026
$5.0M
Systems Biology based Proteogenomic Translator for Cancer Marker Discovery towards Precision MedicineU24CA210993 · NCI · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI SCHADT, ERIC E, WANG, PEI · 2016 to 2020
$4.6M
Project-002U01CA214172 · NCI · FRED HUTCHINSON CANCER RESEARCH CENTER · PI LEWIS, MICHAEL T., PAULOVICH, AMANDA G · 2016 to 2021
$3.3M
A proteomics research specialist in developing targeted mass spectrometry methods for quantifying proteins important in cancerR50CA211499 · NCI · FRED HUTCHINSON CANCER RESEARCH CENTER · PI Jeff Whiteaker · 2016 to 2026
$2.8M
High-Performance Compute Cluster for Comprehensive Cancer and Infectious Diseases ResearchS10OD028685 · OD · FRED HUTCHINSON CANCER RESEARCH CENTER · PI BRADLEY, PHILIP · 2020 to 2020
$2.0M
NCI NIH HHS P30 CA015704NCI NIH HHS R50 CA211499NCI NIH HHS U01 CA214172NCI NIH HHS U24 CA210993NCI NIH HHS U24 CA271114NIH HHS S10 OD028685
6 · The paper itself

Abstract

Despite advances in proteomic technologies, clinical translation of plasma biomarkers remains low, partly due to a major bottleneck between the discovery of candidate biomarkers and costly clinical validation studies. Due to a dearth of multiplexable assays, generally only a few candidate biomarkers are tested, and the validation success rate is accordingly low. Previously, mass spectrometry-based approaches have been used to fill this gap but feature poor quantitative performance and were generally limited to hundreds of proteins. Here, we demonstrate the capability of an internal standard triggered-parallel reaction monitoring (IS-PRM) assay to greatly expand the numbers of candidates that can be tested with improved quantitative performance. The assay couples immunodepletion and fractionation with IS-PRM and was developed and implemented in human plasma to quantify 5176 peptides representing 1314 breast cancer biomarker candidates. Characterization of the IS-PRM assay demonstrated the precision (median % CV of 7.7%), linearity (median

Indexed as

Breast NeoplasmsProteomicsBiomarkersBiomarkers, TumorFemaleHumansMass SpectrometryPeptidesProteinsBiomarkersBiomarkers, TumorPeptidesProteins

Identifiers

PMID35767427
PMCPMC9280723

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
Read underepoch 390

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.