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pam50 algorithm  (Bruker Corporation)


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    Bruker Corporation pam50 algorithm
    Pam50 Algorithm, supplied by Bruker Corporation, 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/pam50+algorithm/pam50+algorithm/pm39198859-87-26-26
    Average 90 stars, based on 1 article reviews
    pam50 algorithm - by Bioz Stars, 2026-09
    90/100 stars

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    Related Articles

    Gene Expression:

    Article Title: Elevated expression of Aurora-A/AURKA in breast cancer associates with younger age and aggressive features.
    Article Snippet: .. PAM50 molecular subtypes and Risk of Recurrence (ROR) score The 127-sample in-house gene expression dataset was analyzed using the Research Use Only (RUO) version of the NanoString PAM50 algorithm to classify each subject into an intrinsic molecular subtype: luminal A, luminal B, basal-like, and HER2-enriched BCs. .. This RUO PAM50based subtype classifier model for the NanoString nCounter Dx Analysis System is consistent with the published qRT-PCR-based PAM50 assay (curated list of 50 genes to distinguish breast tumors into the molecular breast cancer subtypes) [36, 37].

    Article Title: Age-related clusters and favorable immune phenotypes in breast cancer of the young.
    Article Snippet: Breast cancer (BC) patients aged below 40 years at diagnosis experience aggressive disease and poorer survival compared to women diagnosed at 40-49 years, but the age-related biology is described to little extent.. Here, we explored transcriptional alterations in BC to gain better understanding of age-related tumor biology.. We studied a subset of the Bergen in-house cohort (n=127, age range 26-49) and used the NanoString Breast Cancer 360 expression panel on formalin-fixed paraffin-embedded breast cancer tissue, and publicly available global breast cancer mRNA expression data (n=204, age range 22-49), to explore differentially expressed genes between the young (age <40) and older (age 40-49) patients.



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    Breast bacterial community composition varies by <t>PAM50</t> intrinsic subtypes. ( A ) Violin plots show median and interquartile range as measured by Shannon and Simpson diversity indices within breast tissue from Ethiopian BC patients. p -value results were obtained from Kruskal–Wallis tests. ( B ) PC plot shows the clustering pattern of the intrinsic subtypes based on unweighted UniFrac distance and is colored by sample types (green—luminal A, red circles—luminal B, teal—HER2E, and purple circles—basal-like tumor samples); p = 0.378 and R 2 = 0.799. Taxonomic composition of the breast microbiome, depicted as relative percentage at the ( C ) phylum, ( D ) family, and ( E ) genus level.
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    Breast bacterial community composition varies by <t>PAM50</t> intrinsic subtypes. ( A ) Violin plots show median and interquartile range as measured by Shannon and Simpson diversity indices within breast tissue from Ethiopian BC patients. p -value results were obtained from Kruskal–Wallis tests. ( B ) PC plot shows the clustering pattern of the intrinsic subtypes based on unweighted UniFrac distance and is colored by sample types (green—luminal A, red circles—luminal B, teal—HER2E, and purple circles—basal-like tumor samples); p = 0.378 and R 2 = 0.799. Taxonomic composition of the breast microbiome, depicted as relative percentage at the ( C ) phylum, ( D ) family, and ( E ) genus level.
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    Image Search Results


    Breast bacterial community composition varies by PAM50 intrinsic subtypes. ( A ) Violin plots show median and interquartile range as measured by Shannon and Simpson diversity indices within breast tissue from Ethiopian BC patients. p -value results were obtained from Kruskal–Wallis tests. ( B ) PC plot shows the clustering pattern of the intrinsic subtypes based on unweighted UniFrac distance and is colored by sample types (green—luminal A, red circles—luminal B, teal—HER2E, and purple circles—basal-like tumor samples); p = 0.378 and R 2 = 0.799. Taxonomic composition of the breast microbiome, depicted as relative percentage at the ( C ) phylum, ( D ) family, and ( E ) genus level.

    Journal: Cancers

    Article Title: Human Breast Tissue Microbiota Reveals Unique Microbial Signatures that Correlate with Prognostic Features in Adult Ethiopian Women with Breast Cancer

    doi: 10.3390/cancers15194893

    Figure Lengend Snippet: Breast bacterial community composition varies by PAM50 intrinsic subtypes. ( A ) Violin plots show median and interquartile range as measured by Shannon and Simpson diversity indices within breast tissue from Ethiopian BC patients. p -value results were obtained from Kruskal–Wallis tests. ( B ) PC plot shows the clustering pattern of the intrinsic subtypes based on unweighted UniFrac distance and is colored by sample types (green—luminal A, red circles—luminal B, teal—HER2E, and purple circles—basal-like tumor samples); p = 0.378 and R 2 = 0.799. Taxonomic composition of the breast microbiome, depicted as relative percentage at the ( C ) phylum, ( D ) family, and ( E ) genus level.

    Article Snippet: Finally, the distinct intrinsic subtype classification was estimated using the nearest PAM50 centroid algorithm in Bioclassifier and NanoStringNorm implemented in R [ ] and according to the classification method as described previously [ ].

    Techniques:

    Specific bacterial genera correlate with clinicopathologic features. Mean relative abundances (proportions) of bacterial genera that were differentially present in breast tumors stratified by ( A ) IHC type ( B ) PAM50 breast tumor subtype, and ( C ) early or advanced stage. Crossed-out boxes indicate samples for which specific genera were not detected. Color bars vary on a logarithmic scale. All genera shown had FDR-corrected p -value < 0.05 by Kruskal–Wallis H-test.

    Journal: Cancers

    Article Title: Human Breast Tissue Microbiota Reveals Unique Microbial Signatures that Correlate with Prognostic Features in Adult Ethiopian Women with Breast Cancer

    doi: 10.3390/cancers15194893

    Figure Lengend Snippet: Specific bacterial genera correlate with clinicopathologic features. Mean relative abundances (proportions) of bacterial genera that were differentially present in breast tumors stratified by ( A ) IHC type ( B ) PAM50 breast tumor subtype, and ( C ) early or advanced stage. Crossed-out boxes indicate samples for which specific genera were not detected. Color bars vary on a logarithmic scale. All genera shown had FDR-corrected p -value < 0.05 by Kruskal–Wallis H-test.

    Article Snippet: Finally, the distinct intrinsic subtype classification was estimated using the nearest PAM50 centroid algorithm in Bioclassifier and NanoStringNorm implemented in R [ ] and according to the classification method as described previously [ ].

    Techniques: