Improved precision and accuracy for microarrays using updated probe set definitions

Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set defin...
Ausführliche Beschreibung

Gespeichert in:

Autor*in:	Sandberg, Rickard [verfasserIn] Larsson, Ola

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2007

Schlagwörter:	Probe Pair Affymetrix Platform ensEMBL Transcript Precision Difference Exon Expression Level

Anmerkung:	© Sandberg and Larsson; licensee BioMed Central Ltd. 2007

Übergeordnetes Werk:	Enthalten in: BMC bioinformatics - London : BioMed Central, 2000, 8(2007), 1 vom: 08. Feb.
Übergeordnetes Werk:	volume:8 ; year:2007 ; number:1 ; day:08 ; month:02

Links:	Volltext

DOI / URN:	10.1186/1471-2105-8-48

Katalog-ID:	SPR026835320

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520			\|a Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data.
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matchkey_str	article:14712105:2007----::mrvdrcsoadcuayomcorassnudtd
hierarchy_sort_str	2007
publishDate	2007
allfields	10.1186/1471-2105-8-48 doi (DE-627)SPR026835320 (SPR)1471-2105-8-48-e DE-627 ger DE-627 rakwb eng Sandberg, Rickard verfasserin aut Improved precision and accuracy for microarrays using updated probe set definitions 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Sandberg and Larsson; licensee BioMed Central Ltd. 2007 Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. Probe Pair (dpeaa)DE-He213 Affymetrix Platform (dpeaa)DE-He213 ensEMBL Transcript (dpeaa)DE-He213 Precision Difference (dpeaa)DE-He213 Exon Expression Level (dpeaa)DE-He213 Larsson, Ola aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 8(2007), 1 vom: 08. Feb. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:8 year:2007 number:1 day:08 month:02 https://dx.doi.org/10.1186/1471-2105-8-48 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 1 08 02
spelling	10.1186/1471-2105-8-48 doi (DE-627)SPR026835320 (SPR)1471-2105-8-48-e DE-627 ger DE-627 rakwb eng Sandberg, Rickard verfasserin aut Improved precision and accuracy for microarrays using updated probe set definitions 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Sandberg and Larsson; licensee BioMed Central Ltd. 2007 Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. Probe Pair (dpeaa)DE-He213 Affymetrix Platform (dpeaa)DE-He213 ensEMBL Transcript (dpeaa)DE-He213 Precision Difference (dpeaa)DE-He213 Exon Expression Level (dpeaa)DE-He213 Larsson, Ola aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 8(2007), 1 vom: 08. Feb. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:8 year:2007 number:1 day:08 month:02 https://dx.doi.org/10.1186/1471-2105-8-48 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 1 08 02
allfields_unstemmed	10.1186/1471-2105-8-48 doi (DE-627)SPR026835320 (SPR)1471-2105-8-48-e DE-627 ger DE-627 rakwb eng Sandberg, Rickard verfasserin aut Improved precision and accuracy for microarrays using updated probe set definitions 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Sandberg and Larsson; licensee BioMed Central Ltd. 2007 Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. Probe Pair (dpeaa)DE-He213 Affymetrix Platform (dpeaa)DE-He213 ensEMBL Transcript (dpeaa)DE-He213 Precision Difference (dpeaa)DE-He213 Exon Expression Level (dpeaa)DE-He213 Larsson, Ola aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 8(2007), 1 vom: 08. Feb. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:8 year:2007 number:1 day:08 month:02 https://dx.doi.org/10.1186/1471-2105-8-48 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 1 08 02
allfieldsGer	10.1186/1471-2105-8-48 doi (DE-627)SPR026835320 (SPR)1471-2105-8-48-e DE-627 ger DE-627 rakwb eng Sandberg, Rickard verfasserin aut Improved precision and accuracy for microarrays using updated probe set definitions 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Sandberg and Larsson; licensee BioMed Central Ltd. 2007 Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. Probe Pair (dpeaa)DE-He213 Affymetrix Platform (dpeaa)DE-He213 ensEMBL Transcript (dpeaa)DE-He213 Precision Difference (dpeaa)DE-He213 Exon Expression Level (dpeaa)DE-He213 Larsson, Ola aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 8(2007), 1 vom: 08. Feb. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:8 year:2007 number:1 day:08 month:02 https://dx.doi.org/10.1186/1471-2105-8-48 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 1 08 02
allfieldsSound	10.1186/1471-2105-8-48 doi (DE-627)SPR026835320 (SPR)1471-2105-8-48-e DE-627 ger DE-627 rakwb eng Sandberg, Rickard verfasserin aut Improved precision and accuracy for microarrays using updated probe set definitions 2007 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Sandberg and Larsson; licensee BioMed Central Ltd. 2007 Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. Probe Pair (dpeaa)DE-He213 Affymetrix Platform (dpeaa)DE-He213 ensEMBL Transcript (dpeaa)DE-He213 Precision Difference (dpeaa)DE-He213 Exon Expression Level (dpeaa)DE-He213 Larsson, Ola aut Enthalten in BMC bioinformatics London : BioMed Central, 2000 8(2007), 1 vom: 08. Feb. (DE-627)326644814 (DE-600)2041484-5 1471-2105 nnns volume:8 year:2007 number:1 day:08 month:02 https://dx.doi.org/10.1186/1471-2105-8-48 kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER SSG-OLC-PHA GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2007 1 08 02
language	English
source	Enthalten in BMC bioinformatics 8(2007), 1 vom: 08. Feb. volume:8 year:2007 number:1 day:08 month:02
sourceStr	Enthalten in BMC bioinformatics 8(2007), 1 vom: 08. Feb. volume:8 year:2007 number:1 day:08 month:02
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institution	findex.gbv.de
topic_facet	Probe Pair Affymetrix Platform ensEMBL Transcript Precision Difference Exon Expression Level
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container_title	BMC bioinformatics
authorswithroles_txt_mv	Sandberg, Rickard @@aut@@ Larsson, Ola @@aut@@
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author	Sandberg, Rickard
spellingShingle	Sandberg, Rickard misc Probe Pair misc Affymetrix Platform misc ensEMBL Transcript misc Precision Difference misc Exon Expression Level Improved precision and accuracy for microarrays using updated probe set definitions
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topic_title	Improved precision and accuracy for microarrays using updated probe set definitions Probe Pair (dpeaa)DE-He213 Affymetrix Platform (dpeaa)DE-He213 ensEMBL Transcript (dpeaa)DE-He213 Precision Difference (dpeaa)DE-He213 Exon Expression Level (dpeaa)DE-He213
topic	misc Probe Pair misc Affymetrix Platform misc ensEMBL Transcript misc Precision Difference misc Exon Expression Level
topic_unstemmed	misc Probe Pair misc Affymetrix Platform misc ensEMBL Transcript misc Precision Difference misc Exon Expression Level
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title	Improved precision and accuracy for microarrays using updated probe set definitions
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title_full	Improved precision and accuracy for microarrays using updated probe set definitions
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title_sort	improved precision and accuracy for microarrays using updated probe set definitions
title_auth	Improved precision and accuracy for microarrays using updated probe set definitions
abstract	Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. © Sandberg and Larsson; licensee BioMed Central Ltd. 2007
abstractGer	Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. © Sandberg and Larsson; licensee BioMed Central Ltd. 2007
abstract_unstemmed	Background Microarrays enable high throughput detection of transcript expression levels. Different investigators have recently introduced updated probe set definitions to more accurately map probes to our current knowledge of genes and transcripts. Results We demonstrate that updated probe set definitions provide both better precision and accuracy in probe set estimates compared to the original Affymetrix definitions. We show that the improved precision mainly depends on the increased number of probes that are integrated into each probe set, but we also demonstrate an improvement when the same number of probes is used. Conclusion Updated probe set definitions does not only offer expression levels that are more accurately associated to genes and transcripts but also improvements in the estimated transcript expression levels. These results give support for the use of updated probe set definitions for analysis and meta-analysis of microarray data. © Sandberg and Larsson; licensee BioMed Central Ltd. 2007
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title_short	Improved precision and accuracy for microarrays using updated probe set definitions
url	https://dx.doi.org/10.1186/1471-2105-8-48
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up_date	2024-07-03T22:59:52.586Z
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Improved precision and accuracy for microarrays using updated probe set definitions

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