High quality and quantity Genome-wide germline genotypes from FFPE normal tissue

Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for i...
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Autor*in:	Cannon-Albright, Lisa A [verfasserIn] Cooper, Kendal G Georgelas, Ann Bernard, Philip S

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2011

Schlagwörter:	Formalin Fixed Paraffin Embed Informative Individual Formalin Fixed Paraffin Embed Tissue Formalin Fixed Paraffin Embed Sample Formalin Fixed Paraffin Embed Tumor

Anmerkung:	© Cannon-Albright et al; licensee BioMed Central Ltd. 2011

Übergeordnetes Werk:	Enthalten in: BMC Research Notes - London, 2008, 4(2011), 1 vom: 26. Mai
Übergeordnetes Werk:	volume:4 ; year:2011 ; number:1 ; day:26 ; month:05

Links:	Volltext

DOI / URN:	10.1186/1756-0500-4-159

Katalog-ID:	SPR030278651

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520			\|a Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies.
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allfields	10.1186/1756-0500-4-159 doi (DE-627)SPR030278651 (SPR)1756-0500-4-159-e DE-627 ger DE-627 rakwb eng Cannon-Albright, Lisa A verfasserin aut High quality and quantity Genome-wide germline genotypes from FFPE normal tissue 2011 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Cannon-Albright et al; licensee BioMed Central Ltd. 2011 Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. Formalin Fixed Paraffin Embed (dpeaa)DE-He213 Informative Individual (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tissue (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Sample (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tumor (dpeaa)DE-He213 Cooper, Kendal G aut Georgelas, Ann aut Bernard, Philip S aut Enthalten in BMC Research Notes London, 2008 4(2011), 1 vom: 26. Mai (DE-627)559431805 (DE-600)2413336-X 1756-0500 nnns volume:4 year:2011 number:1 day:26 month:05 https://dx.doi.org/10.1186/1756-0500-4-159 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_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_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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_4338 GBV_ILN_4367 GBV_ILN_4700 AR 4 2011 1 26 05
spelling	10.1186/1756-0500-4-159 doi (DE-627)SPR030278651 (SPR)1756-0500-4-159-e DE-627 ger DE-627 rakwb eng Cannon-Albright, Lisa A verfasserin aut High quality and quantity Genome-wide germline genotypes from FFPE normal tissue 2011 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Cannon-Albright et al; licensee BioMed Central Ltd. 2011 Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. Formalin Fixed Paraffin Embed (dpeaa)DE-He213 Informative Individual (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tissue (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Sample (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tumor (dpeaa)DE-He213 Cooper, Kendal G aut Georgelas, Ann aut Bernard, Philip S aut Enthalten in BMC Research Notes London, 2008 4(2011), 1 vom: 26. Mai (DE-627)559431805 (DE-600)2413336-X 1756-0500 nnns volume:4 year:2011 number:1 day:26 month:05 https://dx.doi.org/10.1186/1756-0500-4-159 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_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_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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_4338 GBV_ILN_4367 GBV_ILN_4700 AR 4 2011 1 26 05
allfields_unstemmed	10.1186/1756-0500-4-159 doi (DE-627)SPR030278651 (SPR)1756-0500-4-159-e DE-627 ger DE-627 rakwb eng Cannon-Albright, Lisa A verfasserin aut High quality and quantity Genome-wide germline genotypes from FFPE normal tissue 2011 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Cannon-Albright et al; licensee BioMed Central Ltd. 2011 Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. Formalin Fixed Paraffin Embed (dpeaa)DE-He213 Informative Individual (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tissue (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Sample (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tumor (dpeaa)DE-He213 Cooper, Kendal G aut Georgelas, Ann aut Bernard, Philip S aut Enthalten in BMC Research Notes London, 2008 4(2011), 1 vom: 26. Mai (DE-627)559431805 (DE-600)2413336-X 1756-0500 nnns volume:4 year:2011 number:1 day:26 month:05 https://dx.doi.org/10.1186/1756-0500-4-159 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_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_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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_4338 GBV_ILN_4367 GBV_ILN_4700 AR 4 2011 1 26 05
allfieldsGer	10.1186/1756-0500-4-159 doi (DE-627)SPR030278651 (SPR)1756-0500-4-159-e DE-627 ger DE-627 rakwb eng Cannon-Albright, Lisa A verfasserin aut High quality and quantity Genome-wide germline genotypes from FFPE normal tissue 2011 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Cannon-Albright et al; licensee BioMed Central Ltd. 2011 Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. Formalin Fixed Paraffin Embed (dpeaa)DE-He213 Informative Individual (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tissue (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Sample (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tumor (dpeaa)DE-He213 Cooper, Kendal G aut Georgelas, Ann aut Bernard, Philip S aut Enthalten in BMC Research Notes London, 2008 4(2011), 1 vom: 26. Mai (DE-627)559431805 (DE-600)2413336-X 1756-0500 nnns volume:4 year:2011 number:1 day:26 month:05 https://dx.doi.org/10.1186/1756-0500-4-159 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_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_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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_4338 GBV_ILN_4367 GBV_ILN_4700 AR 4 2011 1 26 05
allfieldsSound	10.1186/1756-0500-4-159 doi (DE-627)SPR030278651 (SPR)1756-0500-4-159-e DE-627 ger DE-627 rakwb eng Cannon-Albright, Lisa A verfasserin aut High quality and quantity Genome-wide germline genotypes from FFPE normal tissue 2011 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © Cannon-Albright et al; licensee BioMed Central Ltd. 2011 Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. Formalin Fixed Paraffin Embed (dpeaa)DE-He213 Informative Individual (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tissue (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Sample (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tumor (dpeaa)DE-He213 Cooper, Kendal G aut Georgelas, Ann aut Bernard, Philip S aut Enthalten in BMC Research Notes London, 2008 4(2011), 1 vom: 26. Mai (DE-627)559431805 (DE-600)2413336-X 1756-0500 nnns volume:4 year:2011 number:1 day:26 month:05 https://dx.doi.org/10.1186/1756-0500-4-159 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_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_602 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 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_4338 GBV_ILN_4367 GBV_ILN_4700 AR 4 2011 1 26 05
language	English
source	Enthalten in BMC Research Notes 4(2011), 1 vom: 26. Mai volume:4 year:2011 number:1 day:26 month:05
sourceStr	Enthalten in BMC Research Notes 4(2011), 1 vom: 26. Mai volume:4 year:2011 number:1 day:26 month:05
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	Formalin Fixed Paraffin Embed Informative Individual Formalin Fixed Paraffin Embed Tissue Formalin Fixed Paraffin Embed Sample Formalin Fixed Paraffin Embed Tumor
isfreeaccess_bool	true
container_title	BMC Research Notes
authorswithroles_txt_mv	Cannon-Albright, Lisa A @@aut@@ Cooper, Kendal G @@aut@@ Georgelas, Ann @@aut@@ Bernard, Philip S @@aut@@
publishDateDaySort_date	2011-05-26T00:00:00Z
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Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. 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author	Cannon-Albright, Lisa A
spellingShingle	Cannon-Albright, Lisa A misc Formalin Fixed Paraffin Embed misc Informative Individual misc Formalin Fixed Paraffin Embed Tissue misc Formalin Fixed Paraffin Embed Sample misc Formalin Fixed Paraffin Embed Tumor High quality and quantity Genome-wide germline genotypes from FFPE normal tissue
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topic_title	High quality and quantity Genome-wide germline genotypes from FFPE normal tissue Formalin Fixed Paraffin Embed (dpeaa)DE-He213 Informative Individual (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tissue (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Sample (dpeaa)DE-He213 Formalin Fixed Paraffin Embed Tumor (dpeaa)DE-He213
topic	misc Formalin Fixed Paraffin Embed misc Informative Individual misc Formalin Fixed Paraffin Embed Tissue misc Formalin Fixed Paraffin Embed Sample misc Formalin Fixed Paraffin Embed Tumor
topic_unstemmed	misc Formalin Fixed Paraffin Embed misc Informative Individual misc Formalin Fixed Paraffin Embed Tissue misc Formalin Fixed Paraffin Embed Sample misc Formalin Fixed Paraffin Embed Tumor
topic_browse	misc Formalin Fixed Paraffin Embed misc Informative Individual misc Formalin Fixed Paraffin Embed Tissue misc Formalin Fixed Paraffin Embed Sample misc Formalin Fixed Paraffin Embed Tumor
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title	High quality and quantity Genome-wide germline genotypes from FFPE normal tissue
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title_full	High quality and quantity Genome-wide germline genotypes from FFPE normal tissue
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title_sort	high quality and quantity genome-wide germline genotypes from ffpe normal tissue
title_auth	High quality and quantity Genome-wide germline genotypes from FFPE normal tissue
abstract	Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. © Cannon-Albright et al; licensee BioMed Central Ltd. 2011
abstractGer	Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. © Cannon-Albright et al; licensee BioMed Central Ltd. 2011
abstract_unstemmed	Background Although collections of formalin fixed paraffin embedded (FFPE) samples exist, sometimes representing decades of stored samples, they have not typically been utilized to their full potential. Normal tissue from such samples would be extremely valuable for generation of genotype data for individuals who cannot otherwise provide a DNA sample. Findings We extracted DNA from normal tissue identified in FFPE tissue blocks from prostate surgery and obtained complete genome wide genotype data for over 500,000 SNP markers for these samples, and for DNA extracted from whole blood for 2 of the cases, for comparison. Four of the five FFPE samples of varying age and amount of tissue had identifiable normal tissue. We obtained good quality genotype data for between 89 and 99% of all SNP markers for the 4 samples from FFPE. Concordance rates of over 99% were observed for the 2 samples with DNA from both FFPE and from whole blood. Conclusions DNA extracted from normal FFPE tissue provides excellent quality and quantity genome-wide genotyping data representing germline DNA, sufficient for both linkage and association analyses. This allows genetic analysis of informative individuals who are no longer available for sampling in genetic studies. © Cannon-Albright et al; licensee BioMed Central Ltd. 2011
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title_short	High quality and quantity Genome-wide germline genotypes from FFPE normal tissue
url	https://dx.doi.org/10.1186/1756-0500-4-159
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author2	Cooper, Kendal G Georgelas, Ann Bernard, Philip S
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score	7.401719

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High quality and quantity Genome-wide germline genotypes from FFPE normal tissue

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