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statistical analysis of gene expression data  (Johns Hopkins HealthCare)

 
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    Johns Hopkins HealthCare statistical analysis of gene expression data
    Statistical Analysis Of Gene Expression Data, supplied by Johns Hopkins HealthCare, 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/gene+expression+and+statistical+analysis/microarray+data/pmc05696632-164-15-5
    Average 90 stars, based on 1 article reviews
    statistical analysis of gene expression data - by Bioz Stars, 2026-11
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    Related Articles

    Genome Wide:

    Article Title: Somatic HOXB13 Expression Correlates with Metastatic Progression in Men with Localized Prostate Cancer Following Radical Prostatectomy
    Article Snippet: .. Genome-wide expression profiles were queried from two retrospective prostatectomy cohorts with follow-up data (Mayo Clinic, n = 780; Johns Hopkins Medical Institute [JHMI], n = 355), and a prospective genomic registry ( n = 5239). ..

    Article Title: Epigenetic Therapy Inhibits Metastases by Disrupting Premetastatic Niches
    Article Snippet: IFN-γ concentrations in the supernatant were determined by ELISA (R&D systems) according to the manufacturer’s instructions. .. For genome-wide gene expression analysis, we utilized gene expression arrays at the Sidney Kimmel Comprehensive Cancer Center (SKCCC) Microarray Core at the Johns Hopkins University. ..

    Article Title: Somatic HOXB13 Expression Correlates with Metastatic Progression in Men with Localized Prostate Cancer Following Radical Prostatectomy
    Article Snippet: .. Design, setting, and participants: Genome-wide expression profiles were queried from two retrospective prostatectomy cohorts with follow-up data (Mayo Clinic, n = 780; Johns Hopkins Medical Institute [JHMI], n = 355), and a prospective genomic registry ( n = 5239). ..

    Expressing:

    Article Title: Somatic HOXB13 Expression Correlates with Metastatic Progression in Men with Localized Prostate Cancer Following Radical Prostatectomy
    Article Snippet: .. Genome-wide expression profiles were queried from two retrospective prostatectomy cohorts with follow-up data (Mayo Clinic, n = 780; Johns Hopkins Medical Institute [JHMI], n = 355), and a prospective genomic registry ( n = 5239). ..

    Article Title: A PRC2-independent function for EZH2 in regulating rRNA 2′-O methylation and IRES-dependent translation
    Article Snippet: .. The Johns Hopkins Medical Institute (JHMI) cohort which contains Gene expression profiling data for a total of 531 PCa patients was used for analyses of FBL/NOP56 expression in different grades of PCa by R package 47 , 48 , while both JHMI and TCGA cohorts were used for survival analyses. .. The Kaplan-Meier survival analysis was carried out using GraphPad Prism (version 6.0).

    Article Title: Programmed cell death ligand-1 (PD-L1) and CD8 expression profiling identify an immunologic subtype of pancreatic ductal adenocarcinomas with favorable survival
    Article Snippet: .. To extend our observations based on mRNA expression data from the TCGA, we sought to further confirm the relationship between PD-L1/IDO1 expression and poor patient survival, as well as improved survival in the subtype with high CD8 expression but low PD-L1/IDO1 expression by analyzing the protein expression in an independent cohort of PDAC from Johns Hopkins University (n=33). ..

    Article Title: Somatic HOXB13 Expression Correlates with Metastatic Progression in Men with Localized Prostate Cancer Following Radical Prostatectomy
    Article Snippet: .. Design, setting, and participants: Genome-wide expression profiles were queried from two retrospective prostatectomy cohorts with follow-up data (Mayo Clinic, n = 780; Johns Hopkins Medical Institute [JHMI], n = 355), and a prospective genomic registry ( n = 5239). ..

    Gene Expression:

    Article Title: Epigenetic Therapy Inhibits Metastases by Disrupting Premetastatic Niches
    Article Snippet: IFN-γ concentrations in the supernatant were determined by ELISA (R&D systems) according to the manufacturer’s instructions. .. For genome-wide gene expression analysis, we utilized gene expression arrays at the Sidney Kimmel Comprehensive Cancer Center (SKCCC) Microarray Core at the Johns Hopkins University. ..

    Article Title: New horizons in bladder cancer research.
    Article Snippet: The 16th Meeting of the International Bladder Cancer Network (IBCN) took place from October 11 to 13, 2018 in Rotterdam, the Netherlands.. As in the previous year, muscle-invasive bladder cancer (MIBC) was the main topic of the congress based upon the rapid evolution in this field over the last several years.. This year s meeting was dominated by presentations focusing on genomic subtyping in MIBC and identification of novel therapeutic targets.

    Article Title: G3BP1 inhibits Cul3 SPOP to amplify AR signaling and promote prostate cancer.
    Article Snippet: .. We thank Dr. Robert Den (Thomas Jefferson), Dr. R. Jeffrey Karnes (Mayo Clinic), Dr. Eric A. Klein (Cleveland Clinic), and Dr. Bruck J. Trock (Johns Hopkins) for their generous contribution of outcomes and gene expression data from PCa patients. ..

    Article Title: A PRC2-independent function for EZH2 in regulating rRNA 2′-O methylation and IRES-dependent translation
    Article Snippet: .. The Johns Hopkins Medical Institute (JHMI) cohort which contains Gene expression profiling data for a total of 531 PCa patients was used for analyses of FBL/NOP56 expression in different grades of PCa by R package 47 , 48 , while both JHMI and TCGA cohorts were used for survival analyses. .. The Kaplan-Meier survival analysis was carried out using GraphPad Prism (version 6.0).

    Microarray:

    Article Title: Epigenetic Therapy Inhibits Metastases by Disrupting Premetastatic Niches
    Article Snippet: IFN-γ concentrations in the supernatant were determined by ELISA (R&D systems) according to the manufacturer’s instructions. .. For genome-wide gene expression analysis, we utilized gene expression arrays at the Sidney Kimmel Comprehensive Cancer Center (SKCCC) Microarray Core at the Johns Hopkins University. ..

    other:

    Article Title: Methods for identifying prostate cancer
    Article Snippet: 19 The testing cohort was composed of patients from the Decipher GRID PCa database treated at Johns Hopkins Medical Institute and Mayo Clinic who underwent genome-wide expression profiling after RP.



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    Image Search Results


    Gene Ontology (GO) functional analysis of differentially expressed genes (DEGs) for ( A ) 0 vs. 4 d ( B ) 0 vs. 7 d, and ( C ) 4 vs. 7 d. “*” indicates a significant enrichment of the GO term or KEGG pathway ( p -value ≤ 0.05).

    Journal: International Journal of Environmental Research and Public Health

    Article Title: Identifying Algicides of Enterobacter hormaechei F2 for Control of the Harmful Alga Microcystis aeruginosa

    doi: 10.3390/ijerph19137556

    Figure Lengend Snippet: Gene Ontology (GO) functional analysis of differentially expressed genes (DEGs) for ( A ) 0 vs. 4 d ( B ) 0 vs. 7 d, and ( C ) 4 vs. 7 d. “*” indicates a significant enrichment of the GO term or KEGG pathway ( p -value ≤ 0.05).

    Article Snippet: Figure S1: Statistical analysis of differentially expressed genes (DEGs), Figure S2: Statistical analysis of differentially expressed genes (DEGs) and Kyoto Encyclopedia of Genes and Genomes (KEGG) functional analysis of DEGs, Figure S3: Algicidal activity of phenazine, Table S1: A Differentially expressed genes between 0 and 4 d, Table S2: Primers used in the study.

    Techniques: Functional Assay

    In silico expression analysis of Unigenes. ( a ) DEGs in leaves, ( b ) in roots under control and stress conditions. The short reads from individual sample libraries (including replicates) were mapped onto the assembled transcriptome using Bowtie2 and abundance was calculated using RSEM. DEGs were identified using the Empirical Analysis of Digital Gene Expression (edgeR) statistical package. The heat maps were generated using MeV v 4.8.1, and indicate the relative transcript level of genes. Detailed information about the DEGs is provided in Supplementary table .

    Journal: Scientific Reports

    Article Title: De-novo transcriptome analysis unveils differentially expressed genes regulating drought and salt stress response in Panicum sumatrense

    doi: 10.1038/s41598-020-78118-3

    Figure Lengend Snippet: In silico expression analysis of Unigenes. ( a ) DEGs in leaves, ( b ) in roots under control and stress conditions. The short reads from individual sample libraries (including replicates) were mapped onto the assembled transcriptome using Bowtie2 and abundance was calculated using RSEM. DEGs were identified using the Empirical Analysis of Digital Gene Expression (edgeR) statistical package. The heat maps were generated using MeV v 4.8.1, and indicate the relative transcript level of genes. Detailed information about the DEGs is provided in Supplementary table .

    Article Snippet: Differentially expressed genes (DEGs) among the treated and control libraries were calculated by using the Empirical Analysis of Digital Gene Expression (edgeR) ( http://biocon-ductor.org/packages/ release/ bioc/ html/edgeR.html) statistical package.

    Techniques: In Silico, Expressing, Control, Gene Expression, Generated