Evidence map›Paper›PMID 26432397›Full record

ArticleJournal of magnetic resonance (San Diego, Calif. : 1997)2015

Effortless assignment with 4D covariance sequential correlation maps.

Bradley J Harden, Subrata H Mishra, Dominique P Frueh

Abstract read
In one paragraph

Article in Journal of magnetic resonance (San Diego, Calif. : 1997), 2015. 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
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.

  1. Article
  2. Article
  3. Covariance nuclear magnetic resonance methods for obtaining protein assignments and novel correlations.Concepts in magnetic resonance. Part A, Bridging education and research · 2017
    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

3 authors.

Bradley J HardenDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, 701 Hunterian, 725 N Wolfe St, Baltimore, MD 21205, United States.
Subrata H MishraDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, 701 Hunterian, 725 N Wolfe St, Baltimore, MD 21205, United States.
Dominique P FruehDepartment of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, 701 Hunterian, 725 N Wolfe St, Baltimore, MD 21205, United States.

Funding

NMR studies of heterocyclization and epimerization in yersiniabactin synthesisR01GM104257 · NIGMS · JOHNS HOPKINS UNIVERSITY · PI FRUEH, DOMINIQUE PASCAL · 2013 to 2023
$3.0M
Purchase of a 600 MHz NMR Console and ProbesS10RR029191 · NCRR · JOHNS HOPKINS UNIVERSITY · PI STIVERS, JAMES T. · 2011 to 2011
$550k
NCRR NIH HHS S10 RR029191NIGMS NIH HHS R01 GM104257NIGMS NIH HHS R01GM104257
6 · The paper itself

Abstract

Traditional Nuclear Magnetic Resonance (NMR) assignment procedures for proteins rely on preliminary peak-picking to identify and label NMR signals. However, such an approach has severe limitations when signals are erroneously labeled or completely neglected. The consequences are especially grave for proteins with substantial peak overlap, and mistakes can often thwart entire projects. To overcome these limitations, we previously introduced an assignment technique that bypasses traditional pick peaking altogether. Covariance Sequential Correlation Maps (COSCOMs) transform the indirect connectivity information provided by multiple 3D backbone spectra into direct (H, N) to (H, N) correlations. Here, we present an updated method that utilizes a single four-dimensional spectrum rather than a suite of three-dimensional spectra. We demonstrate the advantages of 4D-COSCOMs relative to their 3D counterparts. We introduce improvements accelerating their calculation. We discuss practical considerations affecting their quality. And finally we showcase their utility in the context of a 52 kDa cyclization domain from a non-ribosomal peptide synthetase.

Indexed as

AlgorithmsCyclizationData Interpretation, StatisticalImaging, Three-DimensionalNuclear Magnetic Resonance, BiomolecularPeptide SynthasesProteinsPeptide SynthasesProteins4DBackbone assignmentCOSCOMCovariance sequential correlation mapsPeak picking

Identifiers

PMID26432397
PMCPMC4628886

What OpenQuestion holds

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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.