Evidence map›Paper›PMID 27663132›Full record

ArticleAnalytical biochemistry2016

Use of focused ultrasonication in activity-based profiling of deubiquitinating enzymes in tissue.

Bindu Nanduri, Leslie A Shack, Aswathy N Rai, William B Epperson, Wes Baumgartner, Ty B Schmidt, Mariola J Edelmann

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

Article in Analytical biochemistry, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
–field-weighted citation impact, top 93% 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

3 citing papers in PubMed, 6 citations in OpenAlex.

  1. Response ofJournal of bacteriology · 2024
    Article
  2. Article
  3. 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

7 authors at 3 institutions in 1 country.

Bindu NanduriCollege of Veterinary Medicine, Department of Basic Sciences, Mississippi State University, MS, USA.
Leslie A ShackCollege of Veterinary Medicine, Department of Basic Sciences, Mississippi State University, MS, USA.
Aswathy N RaiCollege of Veterinary Medicine, Department of Basic Sciences, Mississippi State University, MS, USA.
William B EppersonCollege of Veterinary Medicine, Department of Pathobiology and Population Medicine, Mississippi State University, MS, USA.
Wes BaumgartnerCollege of Veterinary Medicine, Department of Pathobiology and Population Medicine, Mississippi State University, MS, USA.
Ty B SchmidtAnimal Science Department, Institute of Agriculture and Natural Resources, University of Nebraska - Lincoln, USA.
Mariola J EdelmannDepartment of Microbiology and Cell Science, University of Florida, Gainesville, FL, USA. Electronic address: medelmann@ufl.edu.
Mississippi State University · USUniversity of Florida · USUniversity of Nebraska–Lincoln · US

Funding

Training and Mentoring Core P20GM103476 · NIGMS · UNIVERSITY OF SOUTHERN MISSISSIPPI · PI MICHAEL R GARRETT · 2012 to 2026
$60.2M
Zinc dependent conformational changes in AdcR and their impact on DNA bindingP20GM103646 · NIGMS · MISSISSIPPI STATE UNIVERSITY · PI THIBAUDEAU, GISELLE · 2013 to 2022
$21.1M
NIGMS NIH HHS P20 GM103476NIGMS NIH HHS P20 GM103646
6 · The paper itself

Abstract

To develop a reproducible tissue lysis method that retains enzyme function for activity-based protein profiling, we compared four different methods to obtain protein extracts from bovine lung tissue: focused ultrasonication, standard sonication, mortar & pestle method, and homogenization combined with standard sonication. Focused ultrasonication and mortar & pestle methods were sufficiently effective for activity-based profiling of deubiquitinases in tissue, and focused ultrasonication also had the fastest processing time. We used focused-ultrasonicator for subsequent activity-based proteomic analysis of deubiquitinases to test the compatibility of this method in sample preparation for activity-based chemical proteomics.

Indexed as

Ultrasonic WavesAnimalsCattleDeubiquitinating EnzymesLungProteomicsDeubiquitinating EnzymesActivity-based profilingChemical proteomicsDeubiquitinasesFocused-ultrasonicationTissue lysis

Identifiers

PMID27663132
PMCPMC5094370
OpenAlexW2523724067

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.