Evidence map›Paper›PMID 26826592›Full record

ArticleMethods (San Diego, Calif.)2016

Combining high-throughput MALDI-TOF mass spectrometry and isoelectric focusing gel electrophoresis for virtual 2D gel-based proteomics.

Karen Lohnes, Neil R Quebbemann, Kate Liu, Fred Kobzeff, Joseph A Loo, Rachel R Ogorzalek Loo

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Methods (San Diego, Calif.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
2.7field-weighted citation impact, top 11% 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

9 citing papers in PubMed, 26 citations in OpenAlex.

  1. Top-down proteomics.Nature reviews. Methods primers · 2024
    Article
  2. Article
  3. Article
  4. Finding a Needle in a Haystack: Proteomics in Heart Failure.JACC. Basic to translational science · 2020
    Review
  5. Article
  6. Review
  7. Maillard Proteomics: Opening New Pages.International journal of molecular sciences · 2017
    Review
  8. Article
  9. 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

6 authors at 1 institution in 1 country.

Karen LohnesDepartment of Biological Chemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Neil R QuebbemannDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Kate LiuDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Fred KobzeffDepartment of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Joseph A LooDepartment of Biological Chemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA; Department of Chemistry and Biochemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA; DOE/UCLA Institute of Genomics and Proteomics and UCLA Molecular Biology Institute, University of California, Los Angeles, Los Angeles, CA 90095, USA. Electronic address: JLoo@chem.ucla.edu.
Rachel R Ogorzalek LooDepartment of Biological Chemistry, University of California, Los Angeles, Los Angeles, CA 90095, USA; DOE/UCLA Institute of Genomics and Proteomics and UCLA Molecular Biology Institute, University of California, Los Angeles, Los Angeles, CA 90095, USA. Electronic address: RLoo@mednet.ucla.edu.
University of California, Los Angeles · US

Funding

Human Salivary ProteomeU01DE016275 · NIDCR · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI WONG, DAVID T · 2004 to 2007
$5.5M
Impact of Non-canonical Decoding on the ProteomeR01GM085402 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI LOO, JOSEPH A, OGORZALEK LOO, RACHEL R. · 2008 to 2011
$1.2M
Mass Spectrometry Imaging of Protein GelsR01GM104610 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI LOO, JOSEPH A, OGORZALEK LOO, RACHEL R. · 2012 to 2015
$1.2M
MALDI TOF/TOF Mass Spectrometer for Imaging Thin Tissue SectionsS10RR025600 · NCRR · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI LOO, JOSEPH A · 2010 to 2010
$466k
NCRR NIH HHS S10 RR025600NIDCR NIH HHS U01 DE016275NIGMS NIH HHS R01 GM085402NIGMS NIH HHS R01 GM104610
6 · The paper itself

Abstract

The virtual two-dimensional gel electrophoresis/mass spectrometry (virtual 2D gel/MS) technology combines the premier, high-resolution capabilities of 2D gel electrophoresis with the sensitivity and high mass accuracy of mass spectrometry (MS). Intact proteins separated by isoelectric focusing (IEF) gel electrophoresis are imaged from immobilized pH gradient (IPG) polyacrylamide gels (the first dimension of classic 2D-PAGE) by matrix-assisted laser desorption/ionization (MALDI) MS. Obtaining accurate intact masses from sub-picomole-level proteins embedded in 2D-PAGE gels or in IPG strips is desirable to elucidate how the protein of one spot identified as protein 'A' on a 2D gel differs from the protein of another spot identified as the same protein, whenever tryptic peptide maps fail to resolve the issue. This task, however, has been extremely challenging. Virtual 2D gel/MS provides access to these intact masses. Modifications to our matrix deposition procedure improve the reliability with which IPG gels can be prepared; the new procedure is described. Development of this MALDI MS imaging (MSI) method for high-throughput MS with integrated 'top-down' MS to elucidate protein isoforms from complex biological samples is described and it is demonstrated that a 4-cm IPG gel segment can now be imaged in approximately 5min. Gel-wide chemical and enzymatic methods with further interrogation by MALDI MS/MS provide identifications, sequence-related information, and post-translational/transcriptional modification information. The MSI-based virtual 2D gel/MS platform may potentially link the benefits of 'top-down' and 'bottom-up' proteomics.

Indexed as

Electrophoresis, Gel, Two-DimensionalHumansIsoelectric FocusingMolecular WeightProtein IsoformsProteomicsSpectrometry, Mass, Matrix-Assisted Laser Desorption-IonizationProtein IsoformsGel electrophoresisIsoelectric focusing (IEF)Mass spectrometryMatrix-assisted laser desorption/ionization (MALDI)ProteomicsVirtual 2D gel

Identifiers

PMID26826592
PMCPMC4930893
OpenAlexW2260091513

What OpenQuestion holds

Textmetadata
LicenceTDM
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.