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infinium 450k array  (INFINIUM Inc)

 
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    INFINIUM Inc infinium 450k array
    UCSC hg19 Genome Browser View for differentially methylated regions supported by multiple CpGs in the DMP, DMR, and sensitivity analyses. (a) shows the region near BTBD3 on chromosome 20. (b) shows the region near PGPEP1L on chromosome 15. Both panels illustrate hypermethylated loci identified in the present study. The chromosome charts indicate each region's position. Mapped Infinium probes are those present on the Illumina <t>450K</t> microarray (not necessarily encompassing all CpGs covered by the EPIC array). Promoters from EPDnew human version 006 represent experimentally validated promoters in the Eukaryotic Promoter Database. SwitchGear transcription start sites track the TSSs identified by SwitchGear Genomics. CpG islands follow the Gardiner-Garden criteria. DNase I hypersensitivity clusters mark areas tested across diverse cell types by the ENCODE project. The H3K27Ac histone mark track indicates regions of active regulatory elements via ChIP-seq assays. Transcription ChIP-seq clusters show binding sites from a large collection of ENCODE ChIP-seq experiments. Finally, repeating elements by RepeatMasker identify interspersed repeats and low-complexity DNA sequences.
    Infinium 450k Array, supplied by INFINIUM Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/infinium+450k+array/infinium+humanmethylation450+beadchip/pmc12059436-402-2-2
    Average 90 stars, based on 1 article reviews
    infinium 450k array - by Bioz Stars, 2026-09
    90/100 stars

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    1) Product Images from "DNA methylation in peripheral blood leukocytes in late onset Alzheimer's disease"

    Article Title: DNA methylation in peripheral blood leukocytes in late onset Alzheimer's disease

    Journal: Journal of Alzheimer's Disease Reports

    doi: 10.1177/25424823251341176

    UCSC hg19 Genome Browser View for differentially methylated regions supported by multiple CpGs in the DMP, DMR, and sensitivity analyses. (a) shows the region near BTBD3 on chromosome 20. (b) shows the region near PGPEP1L on chromosome 15. Both panels illustrate hypermethylated loci identified in the present study. The chromosome charts indicate each region's position. Mapped Infinium probes are those present on the Illumina 450K microarray (not necessarily encompassing all CpGs covered by the EPIC array). Promoters from EPDnew human version 006 represent experimentally validated promoters in the Eukaryotic Promoter Database. SwitchGear transcription start sites track the TSSs identified by SwitchGear Genomics. CpG islands follow the Gardiner-Garden criteria. DNase I hypersensitivity clusters mark areas tested across diverse cell types by the ENCODE project. The H3K27Ac histone mark track indicates regions of active regulatory elements via ChIP-seq assays. Transcription ChIP-seq clusters show binding sites from a large collection of ENCODE ChIP-seq experiments. Finally, repeating elements by RepeatMasker identify interspersed repeats and low-complexity DNA sequences.
    Figure Legend Snippet: UCSC hg19 Genome Browser View for differentially methylated regions supported by multiple CpGs in the DMP, DMR, and sensitivity analyses. (a) shows the region near BTBD3 on chromosome 20. (b) shows the region near PGPEP1L on chromosome 15. Both panels illustrate hypermethylated loci identified in the present study. The chromosome charts indicate each region's position. Mapped Infinium probes are those present on the Illumina 450K microarray (not necessarily encompassing all CpGs covered by the EPIC array). Promoters from EPDnew human version 006 represent experimentally validated promoters in the Eukaryotic Promoter Database. SwitchGear transcription start sites track the TSSs identified by SwitchGear Genomics. CpG islands follow the Gardiner-Garden criteria. DNase I hypersensitivity clusters mark areas tested across diverse cell types by the ENCODE project. The H3K27Ac histone mark track indicates regions of active regulatory elements via ChIP-seq assays. Transcription ChIP-seq clusters show binding sites from a large collection of ENCODE ChIP-seq experiments. Finally, repeating elements by RepeatMasker identify interspersed repeats and low-complexity DNA sequences.

    Techniques Used: Methylation, Microarray, ChIP-sequencing, Binding Assay

    Related Articles

    DNA Methylation Assay:

    Article Title: Poster Abstracts
    Article Snippet: Samples of sufficient quality and quantity were bisulfite converted with the Zymo EZ DNA Methylation kit (Zymo Research). .. DNA methylation was evaluated with the Infinium 450K array. ..

    Article Title: Genes with epigenetic alterations in human pancreatic islets impact mitochondrial function, insulin secretion, and type 2 diabetes
    Article Snippet: .. It should also be noted that some studies have previously analyzed DNA methylation in blood using either the Infinium 450k array or the EPIC array, and together these studies only found a few methylation sites associated with T2D (ref 27- 33 in the ms). ..

    Methylation:

    Article Title: Genes with epigenetic alterations in human pancreatic islets impact mitochondrial function, insulin secretion, and type 2 diabetes
    Article Snippet: .. It should also be noted that some studies have previously analyzed DNA methylation in blood using either the Infinium 450k array or the EPIC array, and together these studies only found a few methylation sites associated with T2D (ref 27- 33 in the ms). ..

    Article Title: DNA methylation in peripheral blood leukocytes in late onset Alzheimer's disease
    Article Snippet: .. Moreover, the Infinium 450K array interrogates only a limited portion of the human methylome, and is inherently limited compared to the comprehensiveness of whole-genome methylation sequencing. ..

    Derivative Assay:

    Article Title: Genome-wide discovery and validation of diagnostic DNA methylation-based biomarkers for hepatocellular cancer detection in circulating cell free DNA
    Article Snippet: .. The Mayo Clinic cfDNA cohort analyzed by the Infinium 450k array is comprised of an equal number of patients in the HCC and no HCC groups (22 in each group, all with cirrhosis, Table , derived from the International Hepatobiliary Neoplasia Registry and Repository). ..

    Sequencing:

    Article Title: DNA methylation in peripheral blood leukocytes in late onset Alzheimer's disease
    Article Snippet: .. Moreover, the Infinium 450K array interrogates only a limited portion of the human methylome, and is inherently limited compared to the comprehensiveness of whole-genome methylation sequencing. ..



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    UCSC hg19 Genome Browser View for differentially methylated regions supported by multiple CpGs in the DMP, DMR, and sensitivity analyses. (a) shows the region near BTBD3 on chromosome 20. (b) shows the region near PGPEP1L on chromosome 15. Both panels illustrate hypermethylated loci identified in the present study. The chromosome charts indicate each region's position. Mapped Infinium probes are those present on the Illumina <t>450K</t> microarray (not necessarily encompassing all CpGs covered by the EPIC array). Promoters from EPDnew human version 006 represent experimentally validated promoters in the Eukaryotic Promoter Database. SwitchGear transcription start sites track the TSSs identified by SwitchGear Genomics. CpG islands follow the Gardiner-Garden criteria. DNase I hypersensitivity clusters mark areas tested across diverse cell types by the ENCODE project. The H3K27Ac histone mark track indicates regions of active regulatory elements via ChIP-seq assays. Transcription ChIP-seq clusters show binding sites from a large collection of ENCODE ChIP-seq experiments. Finally, repeating elements by RepeatMasker identify interspersed repeats and low-complexity DNA sequences.
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    UCSC hg19 Genome Browser View for differentially methylated regions supported by multiple CpGs in the DMP, DMR, and sensitivity analyses. (a) shows the region near BTBD3 on chromosome 20. (b) shows the region near PGPEP1L on chromosome 15. Both panels illustrate hypermethylated loci identified in the present study. The chromosome charts indicate each region's position. Mapped Infinium probes are those present on the Illumina <t>450K</t> microarray (not necessarily encompassing all CpGs covered by the EPIC array). Promoters from EPDnew human version 006 represent experimentally validated promoters in the Eukaryotic Promoter Database. SwitchGear transcription start sites track the TSSs identified by SwitchGear Genomics. CpG islands follow the Gardiner-Garden criteria. DNase I hypersensitivity clusters mark areas tested across diverse cell types by the ENCODE project. The H3K27Ac histone mark track indicates regions of active regulatory elements via ChIP-seq assays. Transcription ChIP-seq clusters show binding sites from a large collection of ENCODE ChIP-seq experiments. Finally, repeating elements by RepeatMasker identify interspersed repeats and low-complexity DNA sequences.
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    The Minor Allele Frequency (MAF) for the HIF1A rs11549465 polymorphism from the 1000 Genomes Phase 3 dataset. (A) Race wise. (B) Asian sub-category wise. (C) Asian countrywide. *The frequency of the C allele or T allele both in BD BC patients and control groups of Bangladeshi women from this study. (D) GTEx multi-tissue eQTLs meta-analyses data showing the association between the risk frequency of rs11549465C T allele and HIF1A in breast mammary tissue from the <t>TCGA</t> database.
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    Image Search Results


    UCSC hg19 Genome Browser View for differentially methylated regions supported by multiple CpGs in the DMP, DMR, and sensitivity analyses. (a) shows the region near BTBD3 on chromosome 20. (b) shows the region near PGPEP1L on chromosome 15. Both panels illustrate hypermethylated loci identified in the present study. The chromosome charts indicate each region's position. Mapped Infinium probes are those present on the Illumina 450K microarray (not necessarily encompassing all CpGs covered by the EPIC array). Promoters from EPDnew human version 006 represent experimentally validated promoters in the Eukaryotic Promoter Database. SwitchGear transcription start sites track the TSSs identified by SwitchGear Genomics. CpG islands follow the Gardiner-Garden criteria. DNase I hypersensitivity clusters mark areas tested across diverse cell types by the ENCODE project. The H3K27Ac histone mark track indicates regions of active regulatory elements via ChIP-seq assays. Transcription ChIP-seq clusters show binding sites from a large collection of ENCODE ChIP-seq experiments. Finally, repeating elements by RepeatMasker identify interspersed repeats and low-complexity DNA sequences.

    Journal: Journal of Alzheimer's Disease Reports

    Article Title: DNA methylation in peripheral blood leukocytes in late onset Alzheimer's disease

    doi: 10.1177/25424823251341176

    Figure Lengend Snippet: UCSC hg19 Genome Browser View for differentially methylated regions supported by multiple CpGs in the DMP, DMR, and sensitivity analyses. (a) shows the region near BTBD3 on chromosome 20. (b) shows the region near PGPEP1L on chromosome 15. Both panels illustrate hypermethylated loci identified in the present study. The chromosome charts indicate each region's position. Mapped Infinium probes are those present on the Illumina 450K microarray (not necessarily encompassing all CpGs covered by the EPIC array). Promoters from EPDnew human version 006 represent experimentally validated promoters in the Eukaryotic Promoter Database. SwitchGear transcription start sites track the TSSs identified by SwitchGear Genomics. CpG islands follow the Gardiner-Garden criteria. DNase I hypersensitivity clusters mark areas tested across diverse cell types by the ENCODE project. The H3K27Ac histone mark track indicates regions of active regulatory elements via ChIP-seq assays. Transcription ChIP-seq clusters show binding sites from a large collection of ENCODE ChIP-seq experiments. Finally, repeating elements by RepeatMasker identify interspersed repeats and low-complexity DNA sequences.

    Article Snippet: Moreover, the Infinium 450K array interrogates only a limited portion of the human methylome, and is inherently limited compared to the comprehensiveness of whole-genome methylation sequencing.

    Techniques: Methylation, Microarray, ChIP-sequencing, Binding Assay

    The Minor Allele Frequency (MAF) for the HIF1A rs11549465 polymorphism from the 1000 Genomes Phase 3 dataset. (A) Race wise. (B) Asian sub-category wise. (C) Asian countrywide. *The frequency of the C allele or T allele both in BD BC patients and control groups of Bangladeshi women from this study. (D) GTEx multi-tissue eQTLs meta-analyses data showing the association between the risk frequency of rs11549465C T allele and HIF1A in breast mammary tissue from the TCGA database.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: The Minor Allele Frequency (MAF) for the HIF1A rs11549465 polymorphism from the 1000 Genomes Phase 3 dataset. (A) Race wise. (B) Asian sub-category wise. (C) Asian countrywide. *The frequency of the C allele or T allele both in BD BC patients and control groups of Bangladeshi women from this study. (D) GTEx multi-tissue eQTLs meta-analyses data showing the association between the risk frequency of rs11549465C T allele and HIF1A in breast mammary tissue from the TCGA database.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: Control

    Transcriptome analysis of the HIF1A gene altered expressions on the selected case-control from TCGA BC dataset (n = 1097; TCGA PanCancer). (A) Volcano plot showing HIF1A gene expression alterations Up (n = 192) and Down (n = 206) regulation in TCGA_BC samples. (B) Box plot showing significant HIF1A gene expression alterations in breast cancer cases (HIF1A_BC) compared to healthy controls. (C) Overall Survival analysis of the up and down-regulated breast tumor samples. (D) Correlation analysis between fraction genome altered and mutation count of HIF1A gene varied expression in breast cancer cases data stratified by race category. (E) Box plot of HIF1A mRNA expression variation among different race categories. (F) Radar plot showing the association between HIF1A expressions with 20 core pathway activities in breast cancer cases compared to controls from TCGA_BC.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: Transcriptome analysis of the HIF1A gene altered expressions on the selected case-control from TCGA BC dataset (n = 1097; TCGA PanCancer). (A) Volcano plot showing HIF1A gene expression alterations Up (n = 192) and Down (n = 206) regulation in TCGA_BC samples. (B) Box plot showing significant HIF1A gene expression alterations in breast cancer cases (HIF1A_BC) compared to healthy controls. (C) Overall Survival analysis of the up and down-regulated breast tumor samples. (D) Correlation analysis between fraction genome altered and mutation count of HIF1A gene varied expression in breast cancer cases data stratified by race category. (E) Box plot of HIF1A mRNA expression variation among different race categories. (F) Radar plot showing the association between HIF1A expressions with 20 core pathway activities in breast cancer cases compared to controls from TCGA_BC.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: Control, Gene Expression, Mutagenesis, Expressing

    HIF1A expression and methylation profile of TCGA BC samples (n = 976). (A) Heat map for HIF1A methylation profile, (B-D) HIF1A promoter methylation levels in TCGA BC sample types, stratification based on patient’s race category and stages of cancer. (E) Multivariable survival analysis Kaplan Meier plot for the CpG site cg23174662 methylation data of TCGA_BRCA. *Beta value indicated the level of DNA methylation.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: HIF1A expression and methylation profile of TCGA BC samples (n = 976). (A) Heat map for HIF1A methylation profile, (B-D) HIF1A promoter methylation levels in TCGA BC sample types, stratification based on patient’s race category and stages of cancer. (E) Multivariable survival analysis Kaplan Meier plot for the CpG site cg23174662 methylation data of TCGA_BRCA. *Beta value indicated the level of DNA methylation.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: Expressing, Methylation, DNA Methylation Assay

    Multivariable survival analysis summary of DNA methylation data of TCGA_BC_ HIF1A samples.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: Multivariable survival analysis summary of DNA methylation data of TCGA_BC_ HIF1A samples.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: DNA Methylation Assay, Methylation

    Correlation analysis scatter plots of differential expression of the HIF1A gene and hypoxia in TCGA_BC samples (n = 1079). (A-C) Altered HIF1A expression in BC samples and evaluation of hypoxia score using Buffo, Ragnum and the Winter scoring approaches. (D) Fraction genome altered versus mutation count of the HIF1A gene in the selected TCGA BC samples (n = 994) and hypoxia evaluated using Buffo hypoxia score. (E) Distribution of HIF1A fraction genome altered samples (n = 994) race category wise, evaluated using Buffo hypoxia score.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: Correlation analysis scatter plots of differential expression of the HIF1A gene and hypoxia in TCGA_BC samples (n = 1079). (A-C) Altered HIF1A expression in BC samples and evaluation of hypoxia score using Buffo, Ragnum and the Winter scoring approaches. (D) Fraction genome altered versus mutation count of the HIF1A gene in the selected TCGA BC samples (n = 994) and hypoxia evaluated using Buffo hypoxia score. (E) Distribution of HIF1A fraction genome altered samples (n = 994) race category wise, evaluated using Buffo hypoxia score.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: Quantitative Proteomics, Expressing, Mutagenesis

    HIF1A expression and biomarkers TMB and MSI in TCGA BC. (A and B) Correlation analysis of differential HIF1A expression with TMB and MSI. (C) TMB distribution based on race category.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: HIF1A expression and biomarkers TMB and MSI in TCGA BC. (A and B) Correlation analysis of differential HIF1A expression with TMB and MSI. (C) TMB distribution based on race category.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: Expressing

    Association between HIF1A altered expression by ER status and hypoxia in TCGA BC. (A) HIF1A alteration frequency data among BC subtypes. (B) Correlation between HIF1A versus ESR1 expression in BC. (C and D) Violin plots showing the HIF1A covariate-adjusted methylation profiles based on ER status by IHC and race categories. (E and F) HIF1 A expression altered frequency comparison between ER+ and ER-, scoring based on Buffo and TMB demonstrating a higher incidence of genomic alterations within the ER- BC cases compared to the ER+ group.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: Association between HIF1A altered expression by ER status and hypoxia in TCGA BC. (A) HIF1A alteration frequency data among BC subtypes. (B) Correlation between HIF1A versus ESR1 expression in BC. (C and D) Violin plots showing the HIF1A covariate-adjusted methylation profiles based on ER status by IHC and race categories. (E and F) HIF1 A expression altered frequency comparison between ER+ and ER-, scoring based on Buffo and TMB demonstrating a higher incidence of genomic alterations within the ER- BC cases compared to the ER+ group.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: Expressing, Methylation, Comparison

    Relationship between levels of HIF1A expression and immune cell infiltration in TCGA_BC. (A) The box plots show the comparison of tumor infiltration levels among BC cases of each immune subset at each somatic copy number alteration (SCNA) for the HIF1A gene. The infiltration level for each SCNA category was compared with the normal controls. (B) Scatterplots of correlation between HIF1A levels of expression with immune infiltration levels in TCGA BC samples.

    Journal: Biomarker Insights

    Article Title: Exploring the Correlation Between Hypoxia, HIF1A Variants, and Breast Cancer in Different Ethnicities, and Bangladeshi Women: Through ELISA and Integrative Multi-Omics Analysis

    doi: 10.1177/11772719241278176

    Figure Lengend Snippet: Relationship between levels of HIF1A expression and immune cell infiltration in TCGA_BC. (A) The box plots show the comparison of tumor infiltration levels among BC cases of each immune subset at each somatic copy number alteration (SCNA) for the HIF1A gene. The infiltration level for each SCNA category was compared with the normal controls. (B) Scatterplots of correlation between HIF1A levels of expression with immune infiltration levels in TCGA BC samples.

    Article Snippet: TCGA-Wanderer provided the level 3 TCGA methylation arrays (450k Infinium chip) and expression data (Illumina HiSeq RNAseq, summarized by exons and genes) to analyze the HIF1A expression and levels of methylation of the breast cancer samples.

    Techniques: Expressing, Comparison

    ( A and B ) Evaluation of the multivariate predictor of maximum life span based on cytosine methylation in training data (A) and test data (B), encompassing 70% and 30% of species, respectively. In (A) and (B), each data point symbolizes a unique species, differentiated by its taxonomic order color coding. The dotted red line indicates the fitted linear regression. ( C and D ) Leave-one-clade-out (LOCO) cross-validation analyses concentrate on the log-transformed (base e) maximum life-span predictions. Given that several species’ missing life-span observations were filled using neighboring species, life-span estimates naturally favor k-NN. To mitigate this bias, this analysis only includes 250 species from the original anAge database with actual maximum life-span records. This analysis provides an unbiased assessment of the performance of the DNAm elastic net predictors (C) compared to the k-nearest neighbor (k-NN with K = 1) predictor (D), which uses distances from the mammalian phylogenetic TimeTree . ( E ) Bar plot reports the differences in life-span predictions between females and males by tissues, specifically highlighting species that exhibits uniformity across tissues with statistically significant (two-sided unadjusted Wilcoxon rank sum test, P ≤ 0.01) female-male differences. This means that in all statistically significant tissue groups, females are consistently predicted to have longer DNAm life span. Error bars outline the 95% confidence interval (CI) of these differences. Bars throughout the figure are colored by tissue type, as detailed in the accompanying legend.

    Journal: Science Advances

    Article Title: Epigenetic predictors of species maximum life span and other life-history traits in mammals

    doi: 10.1126/sciadv.adm7273

    Figure Lengend Snippet: ( A and B ) Evaluation of the multivariate predictor of maximum life span based on cytosine methylation in training data (A) and test data (B), encompassing 70% and 30% of species, respectively. In (A) and (B), each data point symbolizes a unique species, differentiated by its taxonomic order color coding. The dotted red line indicates the fitted linear regression. ( C and D ) Leave-one-clade-out (LOCO) cross-validation analyses concentrate on the log-transformed (base e) maximum life-span predictions. Given that several species’ missing life-span observations were filled using neighboring species, life-span estimates naturally favor k-NN. To mitigate this bias, this analysis only includes 250 species from the original anAge database with actual maximum life-span records. This analysis provides an unbiased assessment of the performance of the DNAm elastic net predictors (C) compared to the k-nearest neighbor (k-NN with K = 1) predictor (D), which uses distances from the mammalian phylogenetic TimeTree . ( E ) Bar plot reports the differences in life-span predictions between females and males by tissues, specifically highlighting species that exhibits uniformity across tissues with statistically significant (two-sided unadjusted Wilcoxon rank sum test, P ≤ 0.01) female-male differences. This means that in all statistically significant tissue groups, females are consistently predicted to have longer DNAm life span. Error bars outline the 95% confidence interval (CI) of these differences. Bars throughout the figure are colored by tissue type, as detailed in the accompanying legend.

    Article Snippet: Given that these samples were processed using a different methylation platform (the human Infinium 450K array), we used the Array Converter software to convert values from the mammalian methylation probes ( ).

    Techniques: Methylation, Biomarker Discovery, Transformation Assay