Evidence map›Paper›PMID 28889248›Full record

ArticleJournal of the American Society for Mass Spectrometry2018

Towards Discovery and Targeted Peptide Biomarker Detection Using nanoESI-TIMS-TOF MS.

Alyssa Garabedian, Paolo Benigni, Cesar E Ramirez, Erin S Baker, Tao Liu, Richard D Smith, Francisco Fernandez-Lima

Abstract read
In one paragraph

Article in Journal of the American Society for Mass Spectrometry, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
3.0field-weighted citation impact, top 9% 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

13 citing papers in PubMed, 38 citations in OpenAlex.

  1. Article
  2. Article
  3. Review
  4. Review
  5. Article
  6. Methylglyoxal Adducts Levels in Blood Measured onNanomaterials (Basel, Switzerland) · 2021
    Article
  7. Review
  8. Article
  9. Article
  10. Evidence of Cis/Trans-Isomerization at Pro7/Pro16 in the Lasso Peptide Microcin J25.Journal of the American Society for Mass Spectrometry · 2019
    Article
  11. Review
  12. Review
  13. 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

7 authors at 2 institutions in 1 country.

Alyssa GarabedianDepartment of Chemistry and Biochemistry, Florida International University, Miami, FL, 33199, USA.
Paolo BenigniDepartment of Chemistry and Biochemistry, Florida International University, Miami, FL, 33199, USA.
Cesar E RamirezDepartment of Chemistry and Biochemistry, Florida International University, Miami, FL, 33199, USA.
Erin S BakerBiological Sciences Division and Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, 99352, USA.
Tao LiuBiological Sciences Division and Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, 99352, USA.
Richard D SmithBiological Sciences Division and Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA, 99352, USA.
Francisco Fernandez-LimaDepartment of Chemistry and Biochemistry, Florida International University, Miami, FL, 33199, USA. fernandf@fiu.edu.ORCID 0000-0002-1283-4390
Florida International University · USEnvironmental Molecular Sciences Laboratory · US

Funding

PNNL Clinical Proteome Characterization CenterU24CA160019 · NCI · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI RODLAND, KARIN D, SMITH, RICHARD D · 2011 to 2016
$15.7M
PNNL Proteome Characterization CenterU24CA210955 · NCI · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI LIU, TAO, SMITH, RICHARD D · 2016 to 2020
$5.3M
Mass Spectrometry based molecular imaging of native biological nanodomainsR00GM106414 · NIGMS · FLORIDA INTERNATIONAL UNIVERSITY · PI FERNANDEZ-LIMA, FRANCISCO · 2012 to 2014
$731k
NCI NIH HHS 14X2333NCI NIH HHS U24 CA160019NCI NIH HHS U24 CA210955NIGMS NIH HHS R00 GM106414NIGMS NIH HHS R00GM106414U.S. Department of Energy DE-AC05-76RL01830
6 · The paper itself

Abstract

In the present work, the potential of trapped ion mobility spectrometry coupled to TOF mass spectrometry (TIMS-TOF MS) for discovery and targeted monitoring of peptide biomarkers from human-in-mouse xenograft tumor tissue was evaluated. In particular, a TIMS-MS workflow was developed for the detection and quantification of peptide biomarkers using internal heavy analogs, taking advantage of the high mobility resolution (R = 150-250) prior to mass analysis. Five peptide biomarkers were separated, identified, and quantified using offline nanoESI-TIMS-CID-TOF MS; the results were in good agreement with measurements using a traditional LC-ESI-MS/MS proteomics workflow. The TIMS-TOF MS analysis permitted peptide biomarker detection based on accurate mobility, mass measurements, and high sequence coverage for concentrations in the 10-200 nM range, while simultaneously achieving discovery measurements of not initially targeted peptides as markers from the same proteins and, eventually, other proteins. Graphical Abstract ᅟ.

Indexed as

Amino Acid SequenceBiomarkers, TumorBreast NeoplasmsFemaleHumansIon Mobility SpectrometryPeptidesProteomicsSpectrometry, Mass, Electrospray IonizationTandem Mass SpectrometryWorkflowBiomarkers, TumorPeptidesBiomarker detectionDiscovery and targeted monitoringMassQuantitative proteomicsSpectrometryTrapped ion mobility spectrometry

Identifiers

PMID28889248
PMCPMC5844780
OpenAlexW2755251026

What OpenQuestion holds

Textmetadata
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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.