Evidence map›Paper›PMID 24443746›Full record

ArticleMolecular & cellular proteomics : MCP2014

Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach.

Steven A Carr, Susan E Abbatiello, Bradley L Ackermann, Christoph Borchers, Bruno Domon, Eric W Deutsch, Russell P Grant, Andrew N Hoofnagle, Ruth Hüttenhain, John M Koomen and 35 more

Open access · hybridAbstract readConference Proceedings
In one paragraph

Article in Molecular & cellular proteomics : MCP, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 261 papers.

0numbers the graph read from it
0cells of the map it votes in
261citing papers in PubMed
35.7field-weighted citation impact, top 1% of its field
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

261 citing papers in PubMed, 553 citations in OpenAlex.

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201 more citing papers are in PubMed but not listed here.

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

45 authors at 20 institutions in 3 countries.

Steven A CarrBroad Institute of MIT and Harvard, Cambridge, Massachusetts;
Susan E Abbatiello
Bradley L Ackermann
Christoph Borchers
Bruno Domon
Eric W Deutsch
Russell P Grant
Andrew N Hoofnagle
Ruth Hüttenhain
John M Koomen
Daniel C Liebler
Tao Liu
Brendan MacLean
D R Mani
Elizabeth Mansfield
Hendrik Neubert
Amanda G Paulovich
Lukas Reiter
Olga Vitek
Ruedi Aebersold
Leigh Anderson
Robert Bethem
Josip Blonder
Emily Boja
Julianne Botelho
Michael Boyne
Ralph A Bradshaw
Alma L Burlingame
Daniel Chan
Hasmik Keshishian
Eric Kuhn
Christopher Kinsinger
Jerry S H Lee
Sang-Won Lee
Robert Moritz
Juan Oses-Prieto
Nader Rifai
James Ritchie
Henry Rodriguez
Pothur R Srinivas
R Reid Townsend
Jennifer Van Eyk
Gordon Whiteley
Arun Wiita
Susan Weintraub
Broad Institute · USUniversity of California, San Francisco · USNational Institutes of Health · USETH Zurich · CHJohns Hopkins University · USLabCorp (United States) · USUnited States Food and Drug Administration · USUniversity of Washington · USBiognosys (Switzerland) · CHBoston Children's Hospital · USCenters for Disease Control and Prevention · USEli Lilly (United States) · USEmory University · USFred Hutch Cancer Center · USInstitute for Systems Biology · USKorea University · KRLeidos (United States) · USMarin Community Foundation · USMoffitt Cancer Center · USNational Heart Lung and Blood Institute · US

Funding

TRANSLATIONAL RESEARCHP30CA076292 · NCI · UNIVERSITY OF SOUTH FLORIDA · PI KENNETH Lynn WRIGHT · 1998 to 2026
$93.5M
Proteo-genomic Discovery, Prioritization and Verification of Cancer BiomarkersU24CA160034 · NCI · BROAD INSTITUTE, INC. · PI CARR, STEVEN A, PAULOVICH, AMANDA G · 2011 to 2016
$16.2M
PNNL Clinical Proteome Characterization CenterU24CA160019 · NCI · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI RODLAND, KARIN D, SMITH, RICHARD D · 2011 to 2016
$15.7M
Vanderbilt Proteome Characterization CenterU24CA159988 · NCI · VANDERBILT UNIVERSITY MEDICAL CENTER · PI LIEBLER, DANIEL C · 2011 to 2016
$13.9M
Cancer Proteome Center at Washington Univ, Univ of North Carolina & Boise StateU24CA160035 · NCI · WASHINGTON UNIVERSITY · PI CHEN, XIAN, ELLIS, MATTHEW J · 2011 to 2016
$11.8M
Bio-Organic Biomedical Mass Spectromy ResourceP41GM103481 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI BURLINGAME, ALMA L · 2012 to 2015
$6.4M
Discovery & Application of Proteomics-Based Biomarkers of Early Myocardial InjuryR01HL096738 · NHLBI · MASSACHUSETTS GENERAL HOSPITAL · PI CARR, STEVEN A, GERSZTEN, ROBERT E · 2009 to 2012
$2.9M
NCI NIH HHS P30 CA076292NCI NIH HHS U24 CA159988NCI NIH HHS U24 CA160019NCI NIH HHS U24 CA160034NCI NIH HHS U24CA160034NCI NIH HHS U24 CA160035NHLBI NIH HHS HHSN268201000033CNHLBI NIH HHS R01 HL096738NHLBI NIH HHS R01HL096738NIGMS NIH HHS P41 GM103481
6 · The paper itself

Abstract

Adoption of targeted mass spectrometry (MS) approaches such as multiple reaction monitoring (MRM) to study biological and biomedical questions is well underway in the proteomics community. Successful application depends on the ability to generate reliable assays that uniquely and confidently identify target peptides in a sample. Unfortunately, there is a wide range of criteria being applied to say that an assay has been successfully developed. There is no consensus on what criteria are acceptable and little understanding of the impact of variable criteria on the quality of the results generated. Publications describing targeted MS assays for peptides frequently do not contain sufficient information for readers to establish confidence that the tests work as intended or to be able to apply the tests described in their own labs. Guidance must be developed so that targeted MS assays with established performance can be made widely distributed and applied by many labs worldwide. To begin to address the problems and their solutions, a workshop was held at the National Institutes of Health with representatives from the multiple communities developing and employing targeted MS assays. Participants discussed the analytical goals of their experiments and the experimental evidence needed to establish that the assays they develop work as intended and are achieving the required levels of performance. Using this "fit-for-purpose" approach, the group defined three tiers of assays distinguished by their performance and extent of analytical characterization. Computational and statistical tools useful for the analysis of targeted MS results were described. Participants also detailed the information that authors need to provide in their manuscripts to enable reviewers and readers to clearly understand what procedures were performed and to evaluate the reliability of the peptide or protein quantification measurements reported. This paper presents a summary of the meeting and recommendations.

Indexed as

BiologyMedicineAnimalsBiological AssayGuidelines as TopicHumansIsotope LabelingMass SpectrometryPeptidesProteomicsReference StandardsSoftwarePeptides

Identifiers

PMID24443746
PMCPMC3945918
OpenAlexW2109326791

What OpenQuestion holds

Textmetadata
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.