Z -matrix formalism for quantitative noise assessment of covariance nuclear magnetic resonance spectra
Due to the limited sensitivity of many nuclear magnetic resonance (NMR) applications, careful consideration must be given to the effect of NMR data processing on spectral noise. This work presents analytical relationships as well as simulated and experimental results characterizing the propagation o...
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Veröffentlicht in: | The Journal of chemical physics 2008-09, Vol.129 (10), p.104511-104511-8 |
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container_title | The Journal of chemical physics |
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creator | Snyder, David A. Ghosh, Arindam Zhang, Fengli Szyperski, Thomas Brüschweiler, Rafael |
description | Due to the limited sensitivity of many nuclear magnetic resonance (NMR) applications, careful consideration must be given to the effect of NMR data processing on spectral noise. This work presents analytical relationships as well as simulated and experimental results characterizing the propagation of noise by unsymmetric covariance NMR processing, which concatenates two NMR spectra along a common dimension, resulting in a new spectrum showing spin correlations as cross peaks that are not directly measured in either of the two input spectra. It is shown how the unsymmetric covariance spectrum possesses an inhomogeneous noise distribution across the spectrum with the least amount of noise in regions whose rows and columns do not contain any cross or diagonal peaks and with the largest amount of noise on top of signal peaks. Therefore, methods of noise estimation commonly used in Fourier transform spectroscopy underestimate the amount of uncertainty in unsymmetric covariance spectra. Different data processing procedures, including the
Z
-matrix formalism, thresholding, and maxima ratio scaling, are described to assess noise contributions and to reduce noise inhomogeneity. In particular, determination of a
Z
score, which measures the difference in standard deviations of a statistic from its mean, for each spectral point yields a
Z
matrix, which indicates whether a given peak intensity above a threshold arises from the covariance of signals in the input spectra or whether it is likely to be caused by noise. Application to an unsymmetric covariance spectrum, obtained by concatenating two 2D
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heteronuclear, single quantum coherence (HSQC) and
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heteronuclear, multiple bond correlation (HMBC) spectra of a metabolite mixture along their common proton dimension, reveals that for sufficiently sensitive input spectra the reduction in sensitivity due to covariance processing is modest. |
doi_str_mv | 10.1063/1.2975206 |
format | Article |
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Z
-matrix formalism, thresholding, and maxima ratio scaling, are described to assess noise contributions and to reduce noise inhomogeneity. In particular, determination of a
Z
score, which measures the difference in standard deviations of a statistic from its mean, for each spectral point yields a
Z
matrix, which indicates whether a given peak intensity above a threshold arises from the covariance of signals in the input spectra or whether it is likely to be caused by noise. Application to an unsymmetric covariance spectrum, obtained by concatenating two 2D
C
13
-
H
1
heteronuclear, single quantum coherence (HSQC) and
C
13
-
H
1
heteronuclear, multiple bond correlation (HMBC) spectra of a metabolite mixture along their common proton dimension, reveals that for sufficiently sensitive input spectra the reduction in sensitivity due to covariance processing is modest.</description><identifier>ISSN: 0021-9606</identifier><identifier>EISSN: 1089-7690</identifier><identifier>DOI: 10.1063/1.2975206</identifier><identifier>PMID: 19044928</identifier><identifier>CODEN: JCPSA6</identifier><language>eng</language><publisher>United States: American Institute of Physics</publisher><subject>Analysis of Variance ; Condensed Phase Dynamics, Structure, and Thermodynamics: Spectroscopy, Reactions, and Relaxation ; Magnetic Resonance Spectroscopy - methods ; Sensitivity and Specificity</subject><ispartof>The Journal of chemical physics, 2008-09, Vol.129 (10), p.104511-104511-8</ispartof><rights>2008 American Institute of Physics</rights><rights>Copyright © 2008 American Institute of Physics 2008 American Institute of Physics</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c424t-48148691706ae51016031b30c198419886a27dc59645a8084eede6d7e9d145d63</citedby><cites>FETCH-LOGICAL-c424t-48148691706ae51016031b30c198419886a27dc59645a8084eede6d7e9d145d63</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,314,776,780,790,881,1553,4498,27901,27902</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/19044928$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Snyder, David A.</creatorcontrib><creatorcontrib>Ghosh, Arindam</creatorcontrib><creatorcontrib>Zhang, Fengli</creatorcontrib><creatorcontrib>Szyperski, Thomas</creatorcontrib><creatorcontrib>Brüschweiler, Rafael</creatorcontrib><title>Z -matrix formalism for quantitative noise assessment of covariance nuclear magnetic resonance spectra</title><title>The Journal of chemical physics</title><addtitle>J Chem Phys</addtitle><description>Due to the limited sensitivity of many nuclear magnetic resonance (NMR) applications, careful consideration must be given to the effect of NMR data processing on spectral noise. This work presents analytical relationships as well as simulated and experimental results characterizing the propagation of noise by unsymmetric covariance NMR processing, which concatenates two NMR spectra along a common dimension, resulting in a new spectrum showing spin correlations as cross peaks that are not directly measured in either of the two input spectra. It is shown how the unsymmetric covariance spectrum possesses an inhomogeneous noise distribution across the spectrum with the least amount of noise in regions whose rows and columns do not contain any cross or diagonal peaks and with the largest amount of noise on top of signal peaks. Therefore, methods of noise estimation commonly used in Fourier transform spectroscopy underestimate the amount of uncertainty in unsymmetric covariance spectra. Different data processing procedures, including the
Z
-matrix formalism, thresholding, and maxima ratio scaling, are described to assess noise contributions and to reduce noise inhomogeneity. In particular, determination of a
Z
score, which measures the difference in standard deviations of a statistic from its mean, for each spectral point yields a
Z
matrix, which indicates whether a given peak intensity above a threshold arises from the covariance of signals in the input spectra or whether it is likely to be caused by noise. Application to an unsymmetric covariance spectrum, obtained by concatenating two 2D
C
13
-
H
1
heteronuclear, single quantum coherence (HSQC) and
C
13
-
H
1
heteronuclear, multiple bond correlation (HMBC) spectra of a metabolite mixture along their common proton dimension, reveals that for sufficiently sensitive input spectra the reduction in sensitivity due to covariance processing is modest.</description><subject>Analysis of Variance</subject><subject>Condensed Phase Dynamics, Structure, and Thermodynamics: Spectroscopy, Reactions, and Relaxation</subject><subject>Magnetic Resonance Spectroscopy - methods</subject><subject>Sensitivity and Specificity</subject><issn>0021-9606</issn><issn>1089-7690</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2008</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp1kUFP3DAQhS1UBAvlwB-ofKrUQ2CcOE7MAQkhoJWQemkvXKzBmVBXib3Yzqr9982SVQuHHqyx9D69eZrH2KmAMwGqOhdnpW7qEtQeWwloddEoDe_YCqAUhVagDtlRSj8BQDSlPGCHQoOUumxXrH_gxYg5ul-8D3HEwaVx--PPE_rsMma3Ie6DS8QxJUppJJ956LkNG4wOvZ3lyQ6EkY_45Ck7yyOl4F-ktCabI75n-z0OiU5285h9v735dv25uP969-X66r6wspS5kK2QrdKiAYVUCxAKKvFYgRW6lfNrFZZNZ2utZI0ttJKoI9U1pDsh605Vx-xy8V1PjyN1ds4acTDr6EaMv01AZ94q3v0wT2FjSqV0o7YGH3cGMTxPlLIZXbI0DOgpTMmoOYjWsprBTwtoY0gpUv93iQCzbcUIs2tlZj-8TvWP3NUwAxcLkOzLyYP_v5t5MEthZims-gPCrZz5</recordid><startdate>20080914</startdate><enddate>20080914</enddate><creator>Snyder, David A.</creator><creator>Ghosh, Arindam</creator><creator>Zhang, Fengli</creator><creator>Szyperski, Thomas</creator><creator>Brüschweiler, Rafael</creator><general>American Institute of Physics</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20080914</creationdate><title>Z -matrix formalism for quantitative noise assessment of covariance nuclear magnetic resonance spectra</title><author>Snyder, David A. ; Ghosh, Arindam ; Zhang, Fengli ; Szyperski, Thomas ; Brüschweiler, Rafael</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c424t-48148691706ae51016031b30c198419886a27dc59645a8084eede6d7e9d145d63</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2008</creationdate><topic>Analysis of Variance</topic><topic>Condensed Phase Dynamics, Structure, and Thermodynamics: Spectroscopy, Reactions, and Relaxation</topic><topic>Magnetic Resonance Spectroscopy - methods</topic><topic>Sensitivity and Specificity</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Snyder, David A.</creatorcontrib><creatorcontrib>Ghosh, Arindam</creatorcontrib><creatorcontrib>Zhang, Fengli</creatorcontrib><creatorcontrib>Szyperski, Thomas</creatorcontrib><creatorcontrib>Brüschweiler, Rafael</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>The Journal of chemical physics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Snyder, David A.</au><au>Ghosh, Arindam</au><au>Zhang, Fengli</au><au>Szyperski, Thomas</au><au>Brüschweiler, Rafael</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Z -matrix formalism for quantitative noise assessment of covariance nuclear magnetic resonance spectra</atitle><jtitle>The Journal of chemical physics</jtitle><addtitle>J Chem Phys</addtitle><date>2008-09-14</date><risdate>2008</risdate><volume>129</volume><issue>10</issue><spage>104511</spage><epage>104511-8</epage><pages>104511-104511-8</pages><issn>0021-9606</issn><eissn>1089-7690</eissn><coden>JCPSA6</coden><abstract>Due to the limited sensitivity of many nuclear magnetic resonance (NMR) applications, careful consideration must be given to the effect of NMR data processing on spectral noise. This work presents analytical relationships as well as simulated and experimental results characterizing the propagation of noise by unsymmetric covariance NMR processing, which concatenates two NMR spectra along a common dimension, resulting in a new spectrum showing spin correlations as cross peaks that are not directly measured in either of the two input spectra. It is shown how the unsymmetric covariance spectrum possesses an inhomogeneous noise distribution across the spectrum with the least amount of noise in regions whose rows and columns do not contain any cross or diagonal peaks and with the largest amount of noise on top of signal peaks. Therefore, methods of noise estimation commonly used in Fourier transform spectroscopy underestimate the amount of uncertainty in unsymmetric covariance spectra. Different data processing procedures, including the
Z
-matrix formalism, thresholding, and maxima ratio scaling, are described to assess noise contributions and to reduce noise inhomogeneity. In particular, determination of a
Z
score, which measures the difference in standard deviations of a statistic from its mean, for each spectral point yields a
Z
matrix, which indicates whether a given peak intensity above a threshold arises from the covariance of signals in the input spectra or whether it is likely to be caused by noise. Application to an unsymmetric covariance spectrum, obtained by concatenating two 2D
C
13
-
H
1
heteronuclear, single quantum coherence (HSQC) and
C
13
-
H
1
heteronuclear, multiple bond correlation (HMBC) spectra of a metabolite mixture along their common proton dimension, reveals that for sufficiently sensitive input spectra the reduction in sensitivity due to covariance processing is modest.</abstract><cop>United States</cop><pub>American Institute of Physics</pub><pmid>19044928</pmid><doi>10.1063/1.2975206</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
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recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_2669766 |
source | MEDLINE; AIP Journals Complete; AIP Digital Archive; Alma/SFX Local Collection |
subjects | Analysis of Variance Condensed Phase Dynamics, Structure, and Thermodynamics: Spectroscopy, Reactions, and Relaxation Magnetic Resonance Spectroscopy - methods Sensitivity and Specificity |
title | Z -matrix formalism for quantitative noise assessment of covariance nuclear magnetic resonance spectra |
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