Evidence map›Paper›PMID 36595908›Full record

ArticleSTAR protocols2022

MATRIX platform to analyze translation machinery remodeling in glioblastoma cells.

J J David Ho, Tyler A Cunningham, Jonathan R Krieger, Jonathan H Schatz, Stephen Lee

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in STAR protocols, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–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

1 citing paper in PubMed.

  1. Article
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

5 authors.

J J David HoSylvester Comprehensive Cancer Center, Miller School of Medicine, University of Miami, Miami, FL 33136, USA; Division of Hematology, Department of Medicine, Miller School of Medicine, University of Miami, Miami, FL 33136, USA. Electronic address: david.ho@ananketx.com.
Tyler A CunninghamSylvester Comprehensive Cancer Center, Miller School of Medicine, University of Miami, Miami, FL 33136, USA; Medical Scientist Training Program, Miller School of Medicine, University of Miami, Miami, FL 33136, USA; Molecular and Cellular Pharmacology Graduate Program, Miller School of Medicine, University of Miami, Miami, FL 33136, USA.
Jonathan R KriegerBioinformatics Solutions Inc., Waterloo, ON N2L 6J2, Canada.
Jonathan H SchatzSylvester Comprehensive Cancer Center, Miller School of Medicine, University of Miami, Miami, FL 33136, USA; Division of Hematology, Department of Medicine, Miller School of Medicine, University of Miami, Miami, FL 33136, USA. Electronic address: jschatz@med.miami.edu.
Stephen LeeSylvester Comprehensive Cancer Center, Miller School of Medicine, University of Miami, Miami, FL 33136, USA; Department of Biochemistry and Molecular Biology, Miller School of Medicine, University of Miami, Miami, FL 33136, USA. Electronic address: stephenlee@med.miami.edu.

Funding

Tumor Biology Research ProgramP30CA240139 · NCI · UNIVERSITY OF MIAMI SCHOOL OF MEDICINE · PI George S. Grills · 2019 to 2026
$24.1M
The Nucleolar Detention Center: a Hub of Long Noncoding RNAs that Imprison Proteins During StressR01GM115342 · NIGMS · UNIVERSITY OF MIAMI SCHOOL OF MEDICINE · PI LEE, STEPHEN · 2015 to 2022
$2.6M
Induction of Tumor Cell Dormancy by Ribosomal Intergenic Spacer Noncoding RNAR01CA200676 · NCI · UNIVERSITY OF MIAMI SCHOOL OF MEDICINE · PI LEE, STEPHEN · 2016 to 2020
$1.7M
Adaptation to Extracellular Acidosis by pH-Sensing eIF5AF30CA243268 · NCI · UNIVERSITY OF MIAMI SCHOOL OF MEDICINE · PI BALUKOFF, NATHAN CHARLES · 2019 to 2021
$149k
NCI NIH HHS F30 CA243268NCI NIH HHS P30 CA240139NCI NIH HHS R01 CA200676NIGMS NIH HHS R01 GM115342
6 · The paper itself

Abstract

Here, we present a protocol using MATRIX (mass spectrometry analysis of active translation factors using ribosome density fractionation and isotopic labeling experiments) platform to investigate changes of the protein synthesis machinery in U87MG glioblastoma cells in response to the rocaglate silvestrol. This protocol describes steps to perform SILAC (stable isotope labeling by amino acids in cell culture), ribosome density fractionation, protein isolation, and mass spectrometry analysis. This approach can be applied to study any adaptive remodeling of protein synthesis machineries. For complete details on the use and execution of this protocol, please refer to Ho et al. (2021).

Indexed as

GlioblastomaAmino AcidsHumansMass SpectrometryProteinsProteomicsAmino AcidsProteinsCancerMass SpectrometryProtein BiochemistryProteomics

Identifiers

PMID36595908
PMCPMC9763746

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.