Evidence map›Paper›PMID 19345125›Full record

ArticleJournal of magnetic resonance (San Diego, Calif. : 1997)2009

Efficient and accurate estimation of relative order tensors from lambda-maps.

Rishi Mukhopadhyay, Xijiang Miao, Paul Shealy, Homayoun Valafar

Abstract read
In one paragraph

Article in Journal of magnetic resonance (San Diego, Calif. : 1997), 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

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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

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3 · Its place in the literature

Who cites it

10 citing papers in PubMed.

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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

4 authors.

Rishi MukhopadhyayComputer Science and Engineering, University of South Carolina, 315 Main Street, Swearingen Engineering Center, Columbia, SC 29208, USA.
Xijiang Miao
Paul Shealy
Homayoun Valafar

Funding

Structure and Dynamics of Membrane Proteins from NMR Orientational ConstraintsR01GM081793 · NIGMS · UNIVERSITY OF SOUTH CAROLINA AT COLUMBIA · PI VALAFAR, HOMAYOUN · 2007 to 2010
$915k
NIGMS NIH HHS 1R01GM081793NIGMS NIH HHS R01 GM081793
6 · The paper itself

Abstract

The rapid increase in the availability of RDC data from multiple alignment media in recent years has necessitated the development of more sophisticated analyses that extract the RDC data's full information content. This article presents an analysis of the distribution of RDCs from two media (2D-RDC data), using the information obtained from a lambda-map. This article also introduces an efficient algorithm, which leverages these findings to extract the order tensors for each alignment medium using unassigned RDC data in the absence of any structural information. The results of applying this 2D-RDC analysis method to synthetic and experimental data are reported in this article. The relative order tensor estimates obtained from the 2D-RDC analysis are compared to order tensors obtained from the program REDCAT after using assignment and structural information. The final comparisons indicate that the relative order tensors estimated from the unassigned 2D-RDC method very closely match the results from methods that require assignment and structural information. The presented method is successful even in cases with small datasets. The results of analyzing experimental RDC data for the protein 1P7E are presented to demonstrate the potential of the presented work in accurately estimating the principal order parameters from RDC data that incompletely sample the RDC space. In addition to the new algorithm, a discussion of the uniqueness of the solutions is presented; no more than two clusters of distinct solutions have been shown to satisfy each lambda-map.

Indexed as

AlgorithmsAnisotropyComputer SimulationData Interpretation, StatisticalModels, MolecularNuclear Magnetic Resonance, BiomolecularProteinsProtein Structure, TertiarySoftwareProteins

Identifiers

PMID19345125
PMCPMC4071621

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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.