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Pyrosequencing Inc bisulfite pyrosequencing primer sequences

<t>Bisulfite</t> <t>pyrosequencing</t> of candidate gene SKI (cg18934822) validates direction of methylation change identified in 450k array. a – c Univariate analysis of SKI (cg18934822) in Illumina 450k BeadChip array. a Methylation β values for AMD ( n = 25) compared to normal ( n = 19) donor RPE cells after normalization, in addition to analysis of sex-stratified results for cg18934822 ( SKI ). Significantly reduced methylation levels are observed in AMD ( p < 0.0001), as well as in both AMD male ( n = 15) ( b ) and AMD female ( n = 10) ( c ) compared to normal male ( n = 12) ( p = 0.0063) and normal female ( n = 7) ( p = 0.0031) human RPE donor cells respectively. d – f Bisulfite pyrosequencing of candidate gene SKI (cg18934822) in combined technical and independent sample replications. d Reduced methylation of cg18934822 ( SKI ) is identified in AMD ( n = 30) compared to normal donor RPE cells ( n = 25) ( p = 0.0309). e Reduced methylation of cg18934822 ( SKI ) is identified in AMD AMD male ( n = 20) compared to normal male ( n = 18) ( p = 0.1223) and f AMD female ( n = 10) compared to normal female donor samples ( n = 7) ( p = 0.1002). (* p ≤ 0.05; ** p ≤ 0.01; *** p ≤ 0.001; **** p ≤ 0.0001). All statistical analysis was performed using the Mann-Whitney U test

Bisulfite Pyrosequencing Primer Sequences, supplied by Pyrosequencing Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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1) Product Images from "Whole-genome methylation profiling of the retinal pigment epithelium of individuals with age-related macular degeneration reveals differential methylation of the SKI , GTF2H4 , and TNXB genes"

Article Title: Whole-genome methylation profiling of the retinal pigment epithelium of individuals with age-related macular degeneration reveals differential methylation of the SKI , GTF2H4 , and TNXB genes

Journal: Clinical Epigenetics

doi: 10.1186/s13148-019-0608-2

Bisulfite pyrosequencing of candidate gene SKI (cg18934822) validates direction of methylation change identified in 450k array. a – c Univariate analysis of SKI (cg18934822) in Illumina 450k BeadChip array. a Methylation β values for AMD ( n = 25) compared to normal ( n = 19) donor RPE cells after normalization, in addition to analysis of sex-stratified results for cg18934822 ( SKI ). Significantly reduced methylation levels are observed in AMD ( p < 0.0001), as well as in both AMD male ( n = 15) ( b ) and AMD female ( n = 10) ( c ) compared to normal male ( n = 12) ( p = 0.0063) and normal female ( n = 7) ( p = 0.0031) human RPE donor cells respectively. d – f Bisulfite pyrosequencing of candidate gene SKI (cg18934822) in combined technical and independent sample replications. d Reduced methylation of cg18934822 ( SKI ) is identified in AMD ( n = 30) compared to normal donor RPE cells ( n = 25) ( p = 0.0309). e Reduced methylation of cg18934822 ( SKI ) is identified in AMD AMD male ( n = 20) compared to normal male ( n = 18) ( p = 0.1223) and f AMD female ( n = 10) compared to normal female donor samples ( n = 7) ( p = 0.1002). (* p ≤ 0.05; ** p ≤ 0.01; *** p ≤ 0.001; **** p ≤ 0.0001). All statistical analysis was performed using the Mann-Whitney U test

Figure Legend Snippet: Bisulfite pyrosequencing of candidate gene SKI (cg18934822) validates direction of methylation change identified in 450k array. a – c Univariate analysis of SKI (cg18934822) in Illumina 450k BeadChip array. a Methylation β values for AMD ( n = 25) compared to normal ( n = 19) donor RPE cells after normalization, in addition to analysis of sex-stratified results for cg18934822 ( SKI ). Significantly reduced methylation levels are observed in AMD ( p < 0.0001), as well as in both AMD male ( n = 15) ( b ) and AMD female ( n = 10) ( c ) compared to normal male ( n = 12) ( p = 0.0063) and normal female ( n = 7) ( p = 0.0031) human RPE donor cells respectively. d – f Bisulfite pyrosequencing of candidate gene SKI (cg18934822) in combined technical and independent sample replications. d Reduced methylation of cg18934822 ( SKI ) is identified in AMD ( n = 30) compared to normal donor RPE cells ( n = 25) ( p = 0.0309). e Reduced methylation of cg18934822 ( SKI ) is identified in AMD AMD male ( n = 20) compared to normal male ( n = 18) ( p = 0.1223) and f AMD female ( n = 10) compared to normal female donor samples ( n = 7) ( p = 0.1002). (* p ≤ 0.05; ** p ≤ 0.01; *** p ≤ 0.001; **** p ≤ 0.0001). All statistical analysis was performed using the Mann-Whitney U test

Techniques Used: Methylation, MANN-WHITNEY

Bisulfite pyrosequencing of candidate gene GTF2H4 (cg22508626) validates direction of methylation change identified in 450k array. a–c Univariate analysis of GTF2H4 cg22508626 in Illumina 450k BeadChip array. a Methylation β values for AMD ( n = 25) compared to normal RPE donor cells ( n = 19) after normalization, in addition to analysis of sex-stratified results for cg22508626 ( GTF2H4 ). Significantly increased methylation levels are observed in AMD compared to normal ( p = 0.0003), in addition to both b AMD male ( n = 15) and c AMD female ( n = 10) compared to normal male ( n = 12) ( p = 0.0074) and normal female ( n = 7) ( p = 0.0136) human donor samples respectively. d – f Bisulfite pyrosequencing of candidate gene GTF2H4 (cg22508626) in combined technical and independent sample replications. d Mean methylation difference observed in cg22508626 ( GTF2H4 ) in AMD ( n = 29) compared to normal donor samples ( n = 24) does not reach statistical significance ( p = 0.1263). Sex-stratified analysis reveals no significant methylation differences in e AMD male ( n = 18) versus normal male ( n = 18) donor samples. Significantly increased methylation is observed in f AMD female ( n = 11) versus normal male ( n = 6) ( p = 0.0292). (* p ≤ 0.05)(** p ≤ 0.01)(*** p ≤ 0.001)(**** p ≤ 0.0001). All statistical analysis was performed using the Mann-Whitney U test

Figure Legend Snippet: Bisulfite pyrosequencing of candidate gene GTF2H4 (cg22508626) validates direction of methylation change identified in 450k array. a–c Univariate analysis of GTF2H4 cg22508626 in Illumina 450k BeadChip array. a Methylation β values for AMD ( n = 25) compared to normal RPE donor cells ( n = 19) after normalization, in addition to analysis of sex-stratified results for cg22508626 ( GTF2H4 ). Significantly increased methylation levels are observed in AMD compared to normal ( p = 0.0003), in addition to both b AMD male ( n = 15) and c AMD female ( n = 10) compared to normal male ( n = 12) ( p = 0.0074) and normal female ( n = 7) ( p = 0.0136) human donor samples respectively. d – f Bisulfite pyrosequencing of candidate gene GTF2H4 (cg22508626) in combined technical and independent sample replications. d Mean methylation difference observed in cg22508626 ( GTF2H4 ) in AMD ( n = 29) compared to normal donor samples ( n = 24) does not reach statistical significance ( p = 0.1263). Sex-stratified analysis reveals no significant methylation differences in e AMD male ( n = 18) versus normal male ( n = 18) donor samples. Significantly increased methylation is observed in f AMD female ( n = 11) versus normal male ( n = 6) ( p = 0.0292). (* p ≤ 0.05)(** p ≤ 0.01)(*** p ≤ 0.001)(**** p ≤ 0.0001). All statistical analysis was performed using the Mann-Whitney U test

Techniques Used: Methylation, MANN-WHITNEY

Bisulfite pyrosequencing of candidate genes: RIC3 (cg01560972), FAIM2 (cg18486102), EIF2AK3 (cg26347887), and GRIA4 (cg03243226). a No significant mean methylation difference was observed for cg01560972 ( RIC3 ) in AMD ( n = 30) compared to normal ( n = 25) donor RPE cells (p = 0.9491). b Sex-stratified analysis did not reveal significant differences in AMD male ( n = 18) compared to normal male ( n = 18) ( p = 0.2006). c A significant hypermethylation was observed in AMD female ( n = 12) compared to normal female ( n = 7) human donor samples ( p = 0.0327). d No significant mean methylation difference was observed for cg18486102 ( FAIM2 ) in AMD ( n = 30) compared to normal donor RPE cells ( n = 25) ( p = 0.1672). e Sex-stratified analysis revealed significant differential hypomethylation in males (AMD male n = 19, normal male, n = 18) ( p = 0.0276). No significant mean methylation difference was observed in AMD female ( n = 11) compared to normal female ( n = 7) human donor RPE cells ( p = 0.4362). f No significant methylation difference was observed in cg26347887 ( EIF2AK3 ) in AMD ( n = 28) compared to human donor samples ( n = 23) ( p = 0.4546) g – i . Sex-stratified results did not reveal significant methylation changes in males or females. j No significant mean methylation difference was observed for cg03243226 ( GRIA4 ) in AMD ( n = 30) compared to human donor RPE cells ( n = 25) ( p = 0.2053). k Sex-stratified analysis did not show significant differential hypomethylation in AMD male ( n = 18) compared to normal male ( n = 18) ( p = 0.8197); however, a significant mean methylation difference was observed in AMD female ( n = 12) compared to normal female ( n = 7) ( p = 0.0279) human donor RPE samples ( l ). All statistical analysis was performed using the Mann-Whitney U test (* p ≤ 0.05)

Figure Legend Snippet: Bisulfite pyrosequencing of candidate genes: RIC3 (cg01560972), FAIM2 (cg18486102), EIF2AK3 (cg26347887), and GRIA4 (cg03243226). a No significant mean methylation difference was observed for cg01560972 ( RIC3 ) in AMD ( n = 30) compared to normal ( n = 25) donor RPE cells (p = 0.9491). b Sex-stratified analysis did not reveal significant differences in AMD male ( n = 18) compared to normal male ( n = 18) ( p = 0.2006). c A significant hypermethylation was observed in AMD female ( n = 12) compared to normal female ( n = 7) human donor samples ( p = 0.0327). d No significant mean methylation difference was observed for cg18486102 ( FAIM2 ) in AMD ( n = 30) compared to normal donor RPE cells ( n = 25) ( p = 0.1672). e Sex-stratified analysis revealed significant differential hypomethylation in males (AMD male n = 19, normal male, n = 18) ( p = 0.0276). No significant mean methylation difference was observed in AMD female ( n = 11) compared to normal female ( n = 7) human donor RPE cells ( p = 0.4362). f No significant methylation difference was observed in cg26347887 ( EIF2AK3 ) in AMD ( n = 28) compared to human donor samples ( n = 23) ( p = 0.4546) g – i . Sex-stratified results did not reveal significant methylation changes in males or females. j No significant mean methylation difference was observed for cg03243226 ( GRIA4 ) in AMD ( n = 30) compared to human donor RPE cells ( n = 25) ( p = 0.2053). k Sex-stratified analysis did not show significant differential hypomethylation in AMD male ( n = 18) compared to normal male ( n = 18) ( p = 0.8197); however, a significant mean methylation difference was observed in AMD female ( n = 12) compared to normal female ( n = 7) ( p = 0.0279) human donor RPE samples ( l ). All statistical analysis was performed using the Mann-Whitney U test (* p ≤ 0.05)

Techniques Used: Methylation, MANN-WHITNEY

Global methylation analysis of LINE-1 using bisulfite pyrosequencing of AMD RPE cells compared to normals. Mean methylation of LINE-1 compared to normals using bisulfite pyrosequencing. a LINE-1 analysis did not identify significant differences between AMD donor RPE cells ( n = 29) and normal donor RPE cells ( n = 23) ( p = 0.8788). Sex-stratified analyses revealed no significant methylation differences in AMD male ( n = 17) compared to normal male ( n = 18) ( p = 0.7730) ( b ) or AMD female ( n = 12) compared to normal female human RPE cells ( n = 5) ( p = 0.8361) ( c ). All statistical analysis was performed using the Mann-Whitney U test

Figure Legend Snippet: Global methylation analysis of LINE-1 using bisulfite pyrosequencing of AMD RPE cells compared to normals. Mean methylation of LINE-1 compared to normals using bisulfite pyrosequencing. a LINE-1 analysis did not identify significant differences between AMD donor RPE cells ( n = 29) and normal donor RPE cells ( n = 23) ( p = 0.8788). Sex-stratified analyses revealed no significant methylation differences in AMD male ( n = 17) compared to normal male ( n = 18) ( p = 0.7730) ( b ) or AMD female ( n = 12) compared to normal female human RPE cells ( n = 5) ( p = 0.8361) ( c ). All statistical analysis was performed using the Mann-Whitney U test

Techniques Used: Methylation, MANN-WHITNEY

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Journal: Clinical Epigenetics

doi: 10.1186/s13148-019-0608-2

Figure Lengend Snippet: Bisulfite pyrosequencing of candidate gene SKI (cg18934822) validates direction of methylation change identified in 450k array. a – c Univariate analysis of SKI (cg18934822) in Illumina 450k BeadChip array. a Methylation β values for AMD ( n = 25) compared to normal ( n = 19) donor RPE cells after normalization, in addition to analysis of sex-stratified results for cg18934822 ( SKI ). Significantly reduced methylation levels are observed in AMD ( p < 0.0001), as well as in both AMD male ( n = 15) ( b ) and AMD female ( n = 10) ( c ) compared to normal male ( n = 12) ( p = 0.0063) and normal female ( n = 7) ( p = 0.0031) human RPE donor cells respectively. d – f Bisulfite pyrosequencing of candidate gene SKI (cg18934822) in combined technical and independent sample replications. d Reduced methylation of cg18934822 ( SKI ) is identified in AMD ( n = 30) compared to normal donor RPE cells ( n = 25) ( p = 0.0309). e Reduced methylation of cg18934822 ( SKI ) is identified in AMD AMD male ( n = 20) compared to normal male ( n = 18) ( p = 0.1223) and f AMD female ( n = 10) compared to normal female donor samples ( n = 7) ( p = 0.1002). (* p ≤ 0.05; ** p ≤ 0.01; *** p ≤ 0.001; **** p ≤ 0.0001). All statistical analysis was performed using the Mann-Whitney U test

Article Snippet: Bisulfite Pyrosequencing primer sequences.

Techniques: Methylation, MANN-WHITNEY

Journal: Clinical Epigenetics

doi: 10.1186/s13148-019-0608-2

Figure Lengend Snippet: Bisulfite pyrosequencing of candidate gene GTF2H4 (cg22508626) validates direction of methylation change identified in 450k array. a–c Univariate analysis of GTF2H4 cg22508626 in Illumina 450k BeadChip array. a Methylation β values for AMD ( n = 25) compared to normal RPE donor cells ( n = 19) after normalization, in addition to analysis of sex-stratified results for cg22508626 ( GTF2H4 ). Significantly increased methylation levels are observed in AMD compared to normal ( p = 0.0003), in addition to both b AMD male ( n = 15) and c AMD female ( n = 10) compared to normal male ( n = 12) ( p = 0.0074) and normal female ( n = 7) ( p = 0.0136) human donor samples respectively. d – f Bisulfite pyrosequencing of candidate gene GTF2H4 (cg22508626) in combined technical and independent sample replications. d Mean methylation difference observed in cg22508626 ( GTF2H4 ) in AMD ( n = 29) compared to normal donor samples ( n = 24) does not reach statistical significance ( p = 0.1263). Sex-stratified analysis reveals no significant methylation differences in e AMD male ( n = 18) versus normal male ( n = 18) donor samples. Significantly increased methylation is observed in f AMD female ( n = 11) versus normal male ( n = 6) ( p = 0.0292). (* p ≤ 0.05)(** p ≤ 0.01)(*** p ≤ 0.001)(**** p ≤ 0.0001). All statistical analysis was performed using the Mann-Whitney U test

Article Snippet: Bisulfite Pyrosequencing primer sequences.

Techniques: Methylation, MANN-WHITNEY

Journal: Clinical Epigenetics

doi: 10.1186/s13148-019-0608-2

Figure Lengend Snippet: Bisulfite pyrosequencing of candidate genes: RIC3 (cg01560972), FAIM2 (cg18486102), EIF2AK3 (cg26347887), and GRIA4 (cg03243226). a No significant mean methylation difference was observed for cg01560972 ( RIC3 ) in AMD ( n = 30) compared to normal ( n = 25) donor RPE cells (p = 0.9491). b Sex-stratified analysis did not reveal significant differences in AMD male ( n = 18) compared to normal male ( n = 18) ( p = 0.2006). c A significant hypermethylation was observed in AMD female ( n = 12) compared to normal female ( n = 7) human donor samples ( p = 0.0327). d No significant mean methylation difference was observed for cg18486102 ( FAIM2 ) in AMD ( n = 30) compared to normal donor RPE cells ( n = 25) ( p = 0.1672). e Sex-stratified analysis revealed significant differential hypomethylation in males (AMD male n = 19, normal male, n = 18) ( p = 0.0276). No significant mean methylation difference was observed in AMD female ( n = 11) compared to normal female ( n = 7) human donor RPE cells ( p = 0.4362). f No significant methylation difference was observed in cg26347887 ( EIF2AK3 ) in AMD ( n = 28) compared to human donor samples ( n = 23) ( p = 0.4546) g – i . Sex-stratified results did not reveal significant methylation changes in males or females. j No significant mean methylation difference was observed for cg03243226 ( GRIA4 ) in AMD ( n = 30) compared to human donor RPE cells ( n = 25) ( p = 0.2053). k Sex-stratified analysis did not show significant differential hypomethylation in AMD male ( n = 18) compared to normal male ( n = 18) ( p = 0.8197); however, a significant mean methylation difference was observed in AMD female ( n = 12) compared to normal female ( n = 7) ( p = 0.0279) human donor RPE samples ( l ). All statistical analysis was performed using the Mann-Whitney U test (* p ≤ 0.05)

Article Snippet: Bisulfite Pyrosequencing primer sequences.

Techniques: Methylation, MANN-WHITNEY

Journal: Clinical Epigenetics

doi: 10.1186/s13148-019-0608-2

Figure Lengend Snippet: Global methylation analysis of LINE-1 using bisulfite pyrosequencing of AMD RPE cells compared to normals. Mean methylation of LINE-1 compared to normals using bisulfite pyrosequencing. a LINE-1 analysis did not identify significant differences between AMD donor RPE cells ( n = 29) and normal donor RPE cells ( n = 23) ( p = 0.8788). Sex-stratified analyses revealed no significant methylation differences in AMD male ( n = 17) compared to normal male ( n = 18) ( p = 0.7730) ( b ) or AMD female ( n = 12) compared to normal female human RPE cells ( n = 5) ( p = 0.8361) ( c ). All statistical analysis was performed using the Mann-Whitney U test

Article Snippet: Bisulfite Pyrosequencing primer sequences.

Techniques: Methylation, MANN-WHITNEY

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