Evidence map›Paper›PMID 28456751›Full record

ReviewMolecular & cellular proteomics : MCP2017

Methods, Tools and Current Perspectives in Proteogenomics.

Kelly V Ruggles, Karsten Krug, Xiaojing Wang, Karl R Clauser, Jing Wang, Samuel H Payne, David Fenyö, Bing Zhang, D R Mani

Abstract readReview
PubMed Full text at PMC Publisher
In one paragraph

Review in Molecular & cellular proteomics : MCP, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 74 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
74citing 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

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

  1. Pooled it
  2. Article
  3. Review
  4. Article
  5. Article
  6. Review
  7. Article
  8. Article
  9. Article
  10. Proteogenomic Approaches for Diseasome Studies.Methods in molecular biology (Clifton, N.J.) · 2025
    Review
  11. Review
  12. Article
  13. Review
  14. Review
  15. Integrative Proteogenomics Using ProteomeGenerator2.Journal of proteome research · 2023
    Article
  16. Review
  17. Article
  18. Article
  19. Small Open Reading Frame-Encoded Micro-Peptides: An Emerging Protein World.International journal of molecular sciences · 2023
    Review
  20. Review

14 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

9 authors.

Kelly V RugglesFrom the ‡Department of Medicine, New York University School of Medicine, New York, New York 10016.
Karsten Krug§The Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142.
Xiaojing Wang¶Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, Texas 77030.
Karl R Clauser§The Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142.
Jing Wang¶Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, Texas 77030.
Samuel H Payne**Biological Sciences Division, Pacific Northwest National Laboratory, Richland, Washington 99354.
David Fenyö‡‡Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, New York, New York 10016; manidr@broadinstitute.org bing.zhang@bcm.edu David.Fenyo@nyumc.org.
Bing Zhang¶Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, Texas 77030; manidr@broadinstitute.org bing.zhang@bcm.edu David.Fenyo@nyumc.org.
D R Mani§The Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142; manidr@broadinstitute.org bing.zhang@bcm.edu David.Fenyo@nyumc.org.

Funding

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
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
Center of Excellence for High Throughput Proteogenomic CharacterizationU24CA210986 · NCI · BROAD INSTITUTE, INC. · PI CARR, STEVEN A, GILLETTE, MICHAEL A · 2016 to 2020
$6.4M
iPGDAC, An Integrative Proteogenomic Data Analysis Center for CPTACU24CA210954 · NCI · BAYLOR COLLEGE OF MEDICINE · PI ZHANG, BING · 2016 to 2020
$4.9M
Integrated high throughput proteogenomic data analysis center for CPTACU24CA210979 · NCI · BROAD INSTITUTE, INC. · PI BIRGER, CHET, GETZ, GAD A · 2016 to 2020
$4.4M
Proteogenomic Data Analysis for Cancer Systems Biology and Clinical TranslationU24CA210972 · NCI · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI DING, LI, FENYO, DAVID · 2016 to 2020
$3.3M
NCI NIH HHS U24 CA159988NCI NIH HHS U24 CA160034NCI NIH HHS U24 CA160035NCI NIH HHS U24 CA210954NCI NIH HHS U24 CA210972NCI NIH HHS U24 CA210979NCI NIH HHS U24 CA210986
6 · The paper itself

Abstract

With combined technological advancements in high-throughput next-generation sequencing and deep mass spectrometry-based proteomics, proteogenomics,

Indexed as

ProteogenomicsHumansInformation DisseminationModels, Biological

Identifiers

PMID28456751
PMCPMC5461547

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.