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single cell rna sequencing gene expression data  (Broad Clinical Labs)


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    Structured Review

    Broad Clinical Labs single cell rna sequencing gene expression data
    Flowchart Overview of this MR-based study. LD linkage disequilibrium, ρ-HESS Heritability Estimation from Summary Statistics, GNOVA Genetic covariance analyser, MTAG Multi-Trait Analysis of GWAS, CPASSOC Cross Phenotype Association, GWAS Genome-wide Association Study, MR Mendelian Randomization, GSMR Generalized summary-data-based Mendelian randomization, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, SMR Summary-databased Mendelian randomization, Phe-MR phenotypes, MR BMI body mass index, LUSC squamous cell lung cancer; <t>scRNA-seq</t> <t>single-cell</t> <t>RNA</t> <t>sequencing</t>
    Single Cell Rna Sequencing Gene Expression Data, supplied by Broad Clinical Labs, used in various techniques. Bioz Stars score: 96/100, based on 776 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/single+cell+expression+data/RNA+Sequencing/pmc13096280-240-1-12
    Average 96 stars, based on 776 article reviews
    single cell rna sequencing gene expression data - by Bioz Stars, 2026-10
    96/100 stars

    Images

    1) Product Images from "Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target"

    Article Title: Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target

    Journal: Discover Oncology

    doi: 10.1007/s12672-026-04793-9

    Flowchart Overview of this MR-based study. LD linkage disequilibrium, ρ-HESS Heritability Estimation from Summary Statistics, GNOVA Genetic covariance analyser, MTAG Multi-Trait Analysis of GWAS, CPASSOC Cross Phenotype Association, GWAS Genome-wide Association Study, MR Mendelian Randomization, GSMR Generalized summary-data-based Mendelian randomization, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, SMR Summary-databased Mendelian randomization, Phe-MR phenotypes, MR BMI body mass index, LUSC squamous cell lung cancer; scRNA-seq single-cell RNA sequencing
    Figure Legend Snippet: Flowchart Overview of this MR-based study. LD linkage disequilibrium, ρ-HESS Heritability Estimation from Summary Statistics, GNOVA Genetic covariance analyser, MTAG Multi-Trait Analysis of GWAS, CPASSOC Cross Phenotype Association, GWAS Genome-wide Association Study, MR Mendelian Randomization, GSMR Generalized summary-data-based Mendelian randomization, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, SMR Summary-databased Mendelian randomization, Phe-MR phenotypes, MR BMI body mass index, LUSC squamous cell lung cancer; scRNA-seq single-cell RNA sequencing

    Techniques Used: GWAS, Marker, Single Cell, RNA Sequencing

    Tissue- and cell type–specific enrichment of SNP heritability for BMI and LUSC. A Tissue-level SNP heritability enrichment for BMI across 53 GTEx tissues estimated using LDSC-SEG. The x-axis shows tissues grouped by organ system, and the y-axis shows the estimated enrichment coefficient (log-scaled or standardized). Tissues surpassing the significance threshold (FDR-adjusted P < 0.05) are highlighted. B Tissue-level SNP heritability enrichment for LUSC using the same LDSC-SEG framework. The x-axis indicates GTEx tissues and the y-axis indicates enrichment coefficients, as in panel ( A ). Tissues with significant enrichment (FDR-adjusted P < 0.05) are labelled, illustrating the overlap and differences in tissue-specific genetic architecture between BMI and LUSC. C – G Cell type–specific SNP heritability enrichment for BMI and LUSC across single-cell RNA sequencing datasets from brain, ileum, heart, and colon, estimated using MAGMA-based cell typing. For each tissue, the left panel shows enrichment for BMI and the right panel shows enrichment for LUSC. The y-axis lists cell types (for example, neurons, epithelial cells, eosinophils, CD8⁺ T cells), and the x-axis shows –log₁₀(P) values for the association between cell type–specific expression and SNP heritability. Cell types with P < 0.05 are indicated in red, highlighting those most strongly enriched for the genetic signal of BMI and/or LUSC. BMI body mass index, LUSC lung squamous cell carcinoma, SNP single nucleotide polymorphism, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, scRNA-seq single-cell RNA sequencing, GTEx Genotype-Tissue Expression
    Figure Legend Snippet: Tissue- and cell type–specific enrichment of SNP heritability for BMI and LUSC. A Tissue-level SNP heritability enrichment for BMI across 53 GTEx tissues estimated using LDSC-SEG. The x-axis shows tissues grouped by organ system, and the y-axis shows the estimated enrichment coefficient (log-scaled or standardized). Tissues surpassing the significance threshold (FDR-adjusted P < 0.05) are highlighted. B Tissue-level SNP heritability enrichment for LUSC using the same LDSC-SEG framework. The x-axis indicates GTEx tissues and the y-axis indicates enrichment coefficients, as in panel ( A ). Tissues with significant enrichment (FDR-adjusted P < 0.05) are labelled, illustrating the overlap and differences in tissue-specific genetic architecture between BMI and LUSC. C – G Cell type–specific SNP heritability enrichment for BMI and LUSC across single-cell RNA sequencing datasets from brain, ileum, heart, and colon, estimated using MAGMA-based cell typing. For each tissue, the left panel shows enrichment for BMI and the right panel shows enrichment for LUSC. The y-axis lists cell types (for example, neurons, epithelial cells, eosinophils, CD8⁺ T cells), and the x-axis shows –log₁₀(P) values for the association between cell type–specific expression and SNP heritability. Cell types with P < 0.05 are indicated in red, highlighting those most strongly enriched for the genetic signal of BMI and/or LUSC. BMI body mass index, LUSC lung squamous cell carcinoma, SNP single nucleotide polymorphism, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, scRNA-seq single-cell RNA sequencing, GTEx Genotype-Tissue Expression

    Techniques Used: Single Cell, RNA Sequencing, Expressing, Marker

    Related Articles

    In Silico:

    Article Title: Nociceptor neurons control pollution-mediated neutrophilic asthma
    Article Snippet: .. We performed an in silico analysis of single-cell RNA-sequencing data from mouse lung tumor-infiltrating CD45 + cells in non-small cell lung cancer (NSCLC) models ( GSE127465 ) , accessed via the publicly available Broad Institute Single-Cell Portal. .. The expression levels of Ahr, Artn, Calca, Vip, Tac1, and Trpa1 were plotted within CD45 + myeloid cell populations using RStudio.

    Single Cell:

    Article Title: Nociceptor neurons control pollution-mediated neutrophilic asthma
    Article Snippet: .. We performed an in silico analysis of single-cell RNA-sequencing data from mouse lung tumor-infiltrating CD45 + cells in non-small cell lung cancer (NSCLC) models ( GSE127465 ) , accessed via the publicly available Broad Institute Single-Cell Portal. .. The expression levels of Ahr, Artn, Calca, Vip, Tac1, and Trpa1 were plotted within CD45 + myeloid cell populations using RStudio.

    Article Title: Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target
    Article Snippet: .. The Single-cell RNA sequencing gene expression data were available from https://www.ncbi.nlm.nih.gov/geo/ and [https://singlecell.broadinstitute.org/single_cell](https:/www.singlecell.broadinstitute.org/single_cell) . ..

    Article Title: Molecular Mimicry Inference, Therapeutic Target Identification, and Natural Product Inhibition Study in Cardiobacterium valvarum through Bioinformatics Approach
    Article Snippet: .. To provide additional context, we correlated mimicry-associated genes ( Table S3 ) with predicted antigenicity and immune-relevant expression patterns using single-cell RNA-seq data from the normal human fetal heart (study ID: SCP1021, Broad Institute Single Cell portal: https://singlecell.broadinstitute.org/ ). ..

    Article Title: Combating Drug Resistance in Mycobacterium Tuberculosis : A Combinatorial in Silico and Experimental Modeling Approach Toward Novel ATP Synthase Inhibitor Discovery
    Article Snippet: .. In addition, cell-type–specific expression of the identified hub genes was examined using single-cell RNA-sequencing (scRNA-seq) data from an Mtb granuloma data set available through the Broad Institute Single Cell Portal ( https://singlecell.broadinstitute.org/single_cell/study/SCP1749/cellular-ecology-of-m-tuberculosis-granulomas-4-week-dataset ). ..

    Article Title: In vivo multiomic Perturb-seq with enhanced nuclear gRNA capture
    Article Snippet: .. The data generated in this study will be submitted to NCBI Gene Expression Omnibus, the Broad Institute single cell portal, and the UCSC cell browser through the NIH SSPsyGene consortium. ..

    Article Title: Identification of MTURN as a trained immunity-related biomarker for heart failure via integrative transcriptomic machine learning analysis and experimental validation
    Article Snippet: .. For single-cell transcriptomic data, we accessed the SCP1303 project from the Broad Institute ( https://singlecell.broadinstitute.org/single_cell ), which includes raw scRNA-seq data from failing human hearts with dilated and hypertrophic cardiomyopathy. ..

    Article Title: Fibroblast‐Derived Microfibrillar‐Associated Protein 5 Exerts Cardioprotective Effects After Myocardial Infarction by Activating the NOTCH2 Signaling in Cardiomyocytes
    Article Snippet: .. Publicly available single‐cell RNA sequencing data from the Broad Institute Single Cell Portal ( https://singlecell.broadinstitute.org/ ) were used to explore the cellular localization and expression profile of MFAP5 in human ischemic hearts. ..

    RNA sequencing:

    Article Title: Nociceptor neurons control pollution-mediated neutrophilic asthma
    Article Snippet: .. We performed an in silico analysis of single-cell RNA-sequencing data from mouse lung tumor-infiltrating CD45 + cells in non-small cell lung cancer (NSCLC) models ( GSE127465 ) , accessed via the publicly available Broad Institute Single-Cell Portal. .. The expression levels of Ahr, Artn, Calca, Vip, Tac1, and Trpa1 were plotted within CD45 + myeloid cell populations using RStudio.

    Article Title: Combating Drug Resistance in Mycobacterium Tuberculosis : A Combinatorial in Silico and Experimental Modeling Approach Toward Novel ATP Synthase Inhibitor Discovery
    Article Snippet: .. In addition, cell-type–specific expression of the identified hub genes was examined using single-cell RNA-sequencing (scRNA-seq) data from an Mtb granuloma data set available through the Broad Institute Single Cell Portal ( https://singlecell.broadinstitute.org/single_cell/study/SCP1749/cellular-ecology-of-m-tuberculosis-granulomas-4-week-dataset ). ..

    RNA Sequencing:

    Article Title: Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target
    Article Snippet: .. The Single-cell RNA sequencing gene expression data were available from https://www.ncbi.nlm.nih.gov/geo/ and [https://singlecell.broadinstitute.org/single_cell](https:/www.singlecell.broadinstitute.org/single_cell) . ..

    Article Title: Molecular Mimicry Inference, Therapeutic Target Identification, and Natural Product Inhibition Study in Cardiobacterium valvarum through Bioinformatics Approach
    Article Snippet: .. To provide additional context, we correlated mimicry-associated genes ( Table S3 ) with predicted antigenicity and immune-relevant expression patterns using single-cell RNA-seq data from the normal human fetal heart (study ID: SCP1021, Broad Institute Single Cell portal: https://singlecell.broadinstitute.org/ ). ..

    Article Title: Fibroblast‐Derived Microfibrillar‐Associated Protein 5 Exerts Cardioprotective Effects After Myocardial Infarction by Activating the NOTCH2 Signaling in Cardiomyocytes
    Article Snippet: .. Publicly available single‐cell RNA sequencing data from the Broad Institute Single Cell Portal ( https://singlecell.broadinstitute.org/ ) were used to explore the cellular localization and expression profile of MFAP5 in human ischemic hearts. ..

    Gene Expression:

    Article Title: Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target
    Article Snippet: .. The Single-cell RNA sequencing gene expression data were available from https://www.ncbi.nlm.nih.gov/geo/ and [https://singlecell.broadinstitute.org/single_cell](https:/www.singlecell.broadinstitute.org/single_cell) . ..

    Article Title: In vivo multiomic Perturb-seq with enhanced nuclear gRNA capture
    Article Snippet: .. The data generated in this study will be submitted to NCBI Gene Expression Omnibus, the Broad Institute single cell portal, and the UCSC cell browser through the NIH SSPsyGene consortium. ..

    Expressing:

    Article Title: Molecular Mimicry Inference, Therapeutic Target Identification, and Natural Product Inhibition Study in Cardiobacterium valvarum through Bioinformatics Approach
    Article Snippet: .. To provide additional context, we correlated mimicry-associated genes ( Table S3 ) with predicted antigenicity and immune-relevant expression patterns using single-cell RNA-seq data from the normal human fetal heart (study ID: SCP1021, Broad Institute Single Cell portal: https://singlecell.broadinstitute.org/ ). ..

    Article Title: Combating Drug Resistance in Mycobacterium Tuberculosis : A Combinatorial in Silico and Experimental Modeling Approach Toward Novel ATP Synthase Inhibitor Discovery
    Article Snippet: .. In addition, cell-type–specific expression of the identified hub genes was examined using single-cell RNA-sequencing (scRNA-seq) data from an Mtb granuloma data set available through the Broad Institute Single Cell Portal ( https://singlecell.broadinstitute.org/single_cell/study/SCP1749/cellular-ecology-of-m-tuberculosis-granulomas-4-week-dataset ). ..

    Article Title: Fibroblast‐Derived Microfibrillar‐Associated Protein 5 Exerts Cardioprotective Effects After Myocardial Infarction by Activating the NOTCH2 Signaling in Cardiomyocytes
    Article Snippet: .. Publicly available single‐cell RNA sequencing data from the Broad Institute Single Cell Portal ( https://singlecell.broadinstitute.org/ ) were used to explore the cellular localization and expression profile of MFAP5 in human ischemic hearts. ..

    Generated:

    Article Title: In vivo multiomic Perturb-seq with enhanced nuclear gRNA capture
    Article Snippet: .. The data generated in this study will be submitted to NCBI Gene Expression Omnibus, the Broad Institute single cell portal, and the UCSC cell browser through the NIH SSPsyGene consortium. ..



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    Image Search Results


    Flowchart Overview of this MR-based study. LD linkage disequilibrium, ρ-HESS Heritability Estimation from Summary Statistics, GNOVA Genetic covariance analyser, MTAG Multi-Trait Analysis of GWAS, CPASSOC Cross Phenotype Association, GWAS Genome-wide Association Study, MR Mendelian Randomization, GSMR Generalized summary-data-based Mendelian randomization, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, SMR Summary-databased Mendelian randomization, Phe-MR phenotypes, MR BMI body mass index, LUSC squamous cell lung cancer; scRNA-seq single-cell RNA sequencing

    Journal: Discover Oncology

    Article Title: Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target

    doi: 10.1007/s12672-026-04793-9

    Figure Lengend Snippet: Flowchart Overview of this MR-based study. LD linkage disequilibrium, ρ-HESS Heritability Estimation from Summary Statistics, GNOVA Genetic covariance analyser, MTAG Multi-Trait Analysis of GWAS, CPASSOC Cross Phenotype Association, GWAS Genome-wide Association Study, MR Mendelian Randomization, GSMR Generalized summary-data-based Mendelian randomization, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, SMR Summary-databased Mendelian randomization, Phe-MR phenotypes, MR BMI body mass index, LUSC squamous cell lung cancer; scRNA-seq single-cell RNA sequencing

    Article Snippet: The Single-cell RNA sequencing gene expression data were available from https://www.ncbi.nlm.nih.gov/geo/ and [https://singlecell.broadinstitute.org/single_cell](https:/www.singlecell.broadinstitute.org/single_cell) .

    Techniques: GWAS, Marker, Single Cell, RNA Sequencing

    Tissue- and cell type–specific enrichment of SNP heritability for BMI and LUSC. A Tissue-level SNP heritability enrichment for BMI across 53 GTEx tissues estimated using LDSC-SEG. The x-axis shows tissues grouped by organ system, and the y-axis shows the estimated enrichment coefficient (log-scaled or standardized). Tissues surpassing the significance threshold (FDR-adjusted P < 0.05) are highlighted. B Tissue-level SNP heritability enrichment for LUSC using the same LDSC-SEG framework. The x-axis indicates GTEx tissues and the y-axis indicates enrichment coefficients, as in panel ( A ). Tissues with significant enrichment (FDR-adjusted P < 0.05) are labelled, illustrating the overlap and differences in tissue-specific genetic architecture between BMI and LUSC. C – G Cell type–specific SNP heritability enrichment for BMI and LUSC across single-cell RNA sequencing datasets from brain, ileum, heart, and colon, estimated using MAGMA-based cell typing. For each tissue, the left panel shows enrichment for BMI and the right panel shows enrichment for LUSC. The y-axis lists cell types (for example, neurons, epithelial cells, eosinophils, CD8⁺ T cells), and the x-axis shows –log₁₀(P) values for the association between cell type–specific expression and SNP heritability. Cell types with P < 0.05 are indicated in red, highlighting those most strongly enriched for the genetic signal of BMI and/or LUSC. BMI body mass index, LUSC lung squamous cell carcinoma, SNP single nucleotide polymorphism, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, scRNA-seq single-cell RNA sequencing, GTEx Genotype-Tissue Expression

    Journal: Discover Oncology

    Article Title: Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target

    doi: 10.1007/s12672-026-04793-9

    Figure Lengend Snippet: Tissue- and cell type–specific enrichment of SNP heritability for BMI and LUSC. A Tissue-level SNP heritability enrichment for BMI across 53 GTEx tissues estimated using LDSC-SEG. The x-axis shows tissues grouped by organ system, and the y-axis shows the estimated enrichment coefficient (log-scaled or standardized). Tissues surpassing the significance threshold (FDR-adjusted P < 0.05) are highlighted. B Tissue-level SNP heritability enrichment for LUSC using the same LDSC-SEG framework. The x-axis indicates GTEx tissues and the y-axis indicates enrichment coefficients, as in panel ( A ). Tissues with significant enrichment (FDR-adjusted P < 0.05) are labelled, illustrating the overlap and differences in tissue-specific genetic architecture between BMI and LUSC. C – G Cell type–specific SNP heritability enrichment for BMI and LUSC across single-cell RNA sequencing datasets from brain, ileum, heart, and colon, estimated using MAGMA-based cell typing. For each tissue, the left panel shows enrichment for BMI and the right panel shows enrichment for LUSC. The y-axis lists cell types (for example, neurons, epithelial cells, eosinophils, CD8⁺ T cells), and the x-axis shows –log₁₀(P) values for the association between cell type–specific expression and SNP heritability. Cell types with P < 0.05 are indicated in red, highlighting those most strongly enriched for the genetic signal of BMI and/or LUSC. BMI body mass index, LUSC lung squamous cell carcinoma, SNP single nucleotide polymorphism, LDSC-SEG linkage disequilibrium score regression applied to specifically expressed genes, MAGMA Multi-marker Analysis of GenoMic Annotation, scRNA-seq single-cell RNA sequencing, GTEx Genotype-Tissue Expression

    Article Snippet: The Single-cell RNA sequencing gene expression data were available from https://www.ncbi.nlm.nih.gov/geo/ and [https://singlecell.broadinstitute.org/single_cell](https:/www.singlecell.broadinstitute.org/single_cell) .

    Techniques: Single Cell, RNA Sequencing, Expressing, Marker

    a Gene expression levels (Transcripts Per Million, TPM) of major autoantibody targets identified in paraneoplastic pemphigus, showing a marked enrichment in the skin and other squamous epithelia (data from the GTEx database, v6p.v1.1.8). Each bar comprises stacked boxes, with the width of each box representing the interquartile range of gene expression in the corresponding tissue. b – d Heatmaps showing normalized single-cell transcript expression levels (nTPM), summarized per gene and cell type cluster for selected tissues, highlighting SERPINB3 expression in bronchiolar cells. Single-cell expression data were obtained from the Human Protein Atlas.

    Journal: Communications Medicine

    Article Title: Autoantibody repertoire analysis in paraneoplastic pemphigus reveals novel targets linked to mucocutaneous blistering and bronchiolitis obliterans

    doi: 10.1038/s43856-025-01335-2

    Figure Lengend Snippet: a Gene expression levels (Transcripts Per Million, TPM) of major autoantibody targets identified in paraneoplastic pemphigus, showing a marked enrichment in the skin and other squamous epithelia (data from the GTEx database, v6p.v1.1.8). Each bar comprises stacked boxes, with the width of each box representing the interquartile range of gene expression in the corresponding tissue. b – d Heatmaps showing normalized single-cell transcript expression levels (nTPM), summarized per gene and cell type cluster for selected tissues, highlighting SERPINB3 expression in bronchiolar cells. Single-cell expression data were obtained from the Human Protein Atlas.

    Article Snippet: Single-cell expression data were obtained from the Human Protein Atlas.

    Techniques: Gene Expression, Expressing