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single cell rna sequencing data set  (Broad Clinical Labs)


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    Broad Clinical Labs single cell rna sequencing data set
    A–C Primary osteoblast (OB), bone‐marrow‐derived osteoclast (BMOC), and bone‐marrow‐derived macrophage (BMDM) cells were infected with MRSA, the transcriptome expression profiles of which were analyzed with <t>RNA‐sequencing.</t> The expression of 85 genes increased in the setting of MRSA infection. Subsequently, the canonical pathways, upstream regulators, and corresponding category of carbohydrate metabolism were analyzed and are presented in a histogram. See Appendix Fig for detailed information. D Secretion of lactate, IL‐6, and TNF‐α were measured in BMDM cells infected with heat‐killed MRSA (HK‐MRSA; 4 × 10 6 CFU) for 24 h. E, F C57BL/6J mice were intraarticularly infected with different concentrations of MRSA ( n = 4 per group). (E) Physiological changes at 7 days were observed and representative images were captured. (F) mRNA expression levels of Slc2a1 and Slc16a1 were measured. G–K C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU; n = 3–4 per group) and left untreated for 24 h. (G) Representative images of physiological changes to the knee joint. (H) The amount of infiltrating immune cells in synovial fluid was quantified and detected using MRSA expressive of GFP within immune cells (Scale bar: 100 μm). See EV2 for individual images. MRSA bioburden in synovial fluid was quantified in colony‐forming units (CFU). (I) Lactate level in synovial fluid was measured and the relative luminescence intensity is shown. (J) Intraarticular inflammation including cytokines, chemokines, and growth factors was measured in synovial fluid; blue box indicates factors that changed significantly. See Appendix Fig for individual factor changes. (K) Paraffin‐embedded tissues were sectioned and used to measure inflammation score and synovial hyperplasia. GLUT1 and MCT4 expression was detected, and the percentage of positively staining cells were determined (Scale bar: 1,000 μm). L C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU) and left untreated for 14 days. Paraffin‐embedded tissues were sectioned and used to measure co‐expression and ‐localization levels of MCT4, GLUT1, IL‐1β, NLRP3, MMP3, p‐NF‐κB (Scale bar: 100 μm). See Appendix Fig for individual images. M Human cartilage and synovial tissue were infected with MRSA (4 × 10 6 CFU) for 24 h. The co‐expression and localization levels of GLUT1 and MCT4 in human cartilage tissue were measured and confirmed by line profile analysis (Scale bar: 100 μm). Expression of GLUT1, MCT4, IL‐1β, and MMP3 was measured in human synovial tissue (Scale bar: 1,000 μm). Data information: In vitro experiments were repeated at least three times with representative results. In vivo experiments were repeated in at least two independent experiments, with one or two experiments performed for each group. Error bars show means ± SD with individual data points. Two‐tailed unpaired t ‐test analysis was conducted to determine statistical significance (* P < 0.05 or ** P < 0.01; N.D. = not detected).
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    Images

    1) Product Images from "Concurrent targeting of glycolysis in bacteria and host cell inflammation in septic arthritis"

    Article Title: Concurrent targeting of glycolysis in bacteria and host cell inflammation in septic arthritis

    Journal: EMBO Molecular Medicine

    doi: 10.15252/emmm.202115284

    A–C Primary osteoblast (OB), bone‐marrow‐derived osteoclast (BMOC), and bone‐marrow‐derived macrophage (BMDM) cells were infected with MRSA, the transcriptome expression profiles of which were analyzed with RNA‐sequencing. The expression of 85 genes increased in the setting of MRSA infection. Subsequently, the canonical pathways, upstream regulators, and corresponding category of carbohydrate metabolism were analyzed and are presented in a histogram. See Appendix Fig for detailed information. D Secretion of lactate, IL‐6, and TNF‐α were measured in BMDM cells infected with heat‐killed MRSA (HK‐MRSA; 4 × 10 6 CFU) for 24 h. E, F C57BL/6J mice were intraarticularly infected with different concentrations of MRSA ( n = 4 per group). (E) Physiological changes at 7 days were observed and representative images were captured. (F) mRNA expression levels of Slc2a1 and Slc16a1 were measured. G–K C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU; n = 3–4 per group) and left untreated for 24 h. (G) Representative images of physiological changes to the knee joint. (H) The amount of infiltrating immune cells in synovial fluid was quantified and detected using MRSA expressive of GFP within immune cells (Scale bar: 100 μm). See EV2 for individual images. MRSA bioburden in synovial fluid was quantified in colony‐forming units (CFU). (I) Lactate level in synovial fluid was measured and the relative luminescence intensity is shown. (J) Intraarticular inflammation including cytokines, chemokines, and growth factors was measured in synovial fluid; blue box indicates factors that changed significantly. See Appendix Fig for individual factor changes. (K) Paraffin‐embedded tissues were sectioned and used to measure inflammation score and synovial hyperplasia. GLUT1 and MCT4 expression was detected, and the percentage of positively staining cells were determined (Scale bar: 1,000 μm). L C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU) and left untreated for 14 days. Paraffin‐embedded tissues were sectioned and used to measure co‐expression and ‐localization levels of MCT4, GLUT1, IL‐1β, NLRP3, MMP3, p‐NF‐κB (Scale bar: 100 μm). See Appendix Fig for individual images. M Human cartilage and synovial tissue were infected with MRSA (4 × 10 6 CFU) for 24 h. The co‐expression and localization levels of GLUT1 and MCT4 in human cartilage tissue were measured and confirmed by line profile analysis (Scale bar: 100 μm). Expression of GLUT1, MCT4, IL‐1β, and MMP3 was measured in human synovial tissue (Scale bar: 1,000 μm). Data information: In vitro experiments were repeated at least three times with representative results. In vivo experiments were repeated in at least two independent experiments, with one or two experiments performed for each group. Error bars show means ± SD with individual data points. Two‐tailed unpaired t ‐test analysis was conducted to determine statistical significance (* P < 0.05 or ** P < 0.01; N.D. = not detected).
    Figure Legend Snippet: A–C Primary osteoblast (OB), bone‐marrow‐derived osteoclast (BMOC), and bone‐marrow‐derived macrophage (BMDM) cells were infected with MRSA, the transcriptome expression profiles of which were analyzed with RNA‐sequencing. The expression of 85 genes increased in the setting of MRSA infection. Subsequently, the canonical pathways, upstream regulators, and corresponding category of carbohydrate metabolism were analyzed and are presented in a histogram. See Appendix Fig for detailed information. D Secretion of lactate, IL‐6, and TNF‐α were measured in BMDM cells infected with heat‐killed MRSA (HK‐MRSA; 4 × 10 6 CFU) for 24 h. E, F C57BL/6J mice were intraarticularly infected with different concentrations of MRSA ( n = 4 per group). (E) Physiological changes at 7 days were observed and representative images were captured. (F) mRNA expression levels of Slc2a1 and Slc16a1 were measured. G–K C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU; n = 3–4 per group) and left untreated for 24 h. (G) Representative images of physiological changes to the knee joint. (H) The amount of infiltrating immune cells in synovial fluid was quantified and detected using MRSA expressive of GFP within immune cells (Scale bar: 100 μm). See EV2 for individual images. MRSA bioburden in synovial fluid was quantified in colony‐forming units (CFU). (I) Lactate level in synovial fluid was measured and the relative luminescence intensity is shown. (J) Intraarticular inflammation including cytokines, chemokines, and growth factors was measured in synovial fluid; blue box indicates factors that changed significantly. See Appendix Fig for individual factor changes. (K) Paraffin‐embedded tissues were sectioned and used to measure inflammation score and synovial hyperplasia. GLUT1 and MCT4 expression was detected, and the percentage of positively staining cells were determined (Scale bar: 1,000 μm). L C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU) and left untreated for 14 days. Paraffin‐embedded tissues were sectioned and used to measure co‐expression and ‐localization levels of MCT4, GLUT1, IL‐1β, NLRP3, MMP3, p‐NF‐κB (Scale bar: 100 μm). See Appendix Fig for individual images. M Human cartilage and synovial tissue were infected with MRSA (4 × 10 6 CFU) for 24 h. The co‐expression and localization levels of GLUT1 and MCT4 in human cartilage tissue were measured and confirmed by line profile analysis (Scale bar: 100 μm). Expression of GLUT1, MCT4, IL‐1β, and MMP3 was measured in human synovial tissue (Scale bar: 1,000 μm). Data information: In vitro experiments were repeated at least three times with representative results. In vivo experiments were repeated in at least two independent experiments, with one or two experiments performed for each group. Error bars show means ± SD with individual data points. Two‐tailed unpaired t ‐test analysis was conducted to determine statistical significance (* P < 0.05 or ** P < 0.01; N.D. = not detected).

    Techniques Used: Derivative Assay, Infection, Expressing, RNA Sequencing, Bioburden Testing, Staining, In Vitro, In Vivo, Two Tailed Test



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    Broad Clinical Labs single cell rna sequencing data set
    A–C Primary osteoblast (OB), bone‐marrow‐derived osteoclast (BMOC), and bone‐marrow‐derived macrophage (BMDM) cells were infected with MRSA, the transcriptome expression profiles of which were analyzed with <t>RNA‐sequencing.</t> The expression of 85 genes increased in the setting of MRSA infection. Subsequently, the canonical pathways, upstream regulators, and corresponding category of carbohydrate metabolism were analyzed and are presented in a histogram. See Appendix Fig for detailed information. D Secretion of lactate, IL‐6, and TNF‐α were measured in BMDM cells infected with heat‐killed MRSA (HK‐MRSA; 4 × 10 6 CFU) for 24 h. E, F C57BL/6J mice were intraarticularly infected with different concentrations of MRSA ( n = 4 per group). (E) Physiological changes at 7 days were observed and representative images were captured. (F) mRNA expression levels of Slc2a1 and Slc16a1 were measured. G–K C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU; n = 3–4 per group) and left untreated for 24 h. (G) Representative images of physiological changes to the knee joint. (H) The amount of infiltrating immune cells in synovial fluid was quantified and detected using MRSA expressive of GFP within immune cells (Scale bar: 100 μm). See EV2 for individual images. MRSA bioburden in synovial fluid was quantified in colony‐forming units (CFU). (I) Lactate level in synovial fluid was measured and the relative luminescence intensity is shown. (J) Intraarticular inflammation including cytokines, chemokines, and growth factors was measured in synovial fluid; blue box indicates factors that changed significantly. See Appendix Fig for individual factor changes. (K) Paraffin‐embedded tissues were sectioned and used to measure inflammation score and synovial hyperplasia. GLUT1 and MCT4 expression was detected, and the percentage of positively staining cells were determined (Scale bar: 1,000 μm). L C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU) and left untreated for 14 days. Paraffin‐embedded tissues were sectioned and used to measure co‐expression and ‐localization levels of MCT4, GLUT1, IL‐1β, NLRP3, MMP3, p‐NF‐κB (Scale bar: 100 μm). See Appendix Fig for individual images. M Human cartilage and synovial tissue were infected with MRSA (4 × 10 6 CFU) for 24 h. The co‐expression and localization levels of GLUT1 and MCT4 in human cartilage tissue were measured and confirmed by line profile analysis (Scale bar: 100 μm). Expression of GLUT1, MCT4, IL‐1β, and MMP3 was measured in human synovial tissue (Scale bar: 1,000 μm). Data information: In vitro experiments were repeated at least three times with representative results. In vivo experiments were repeated in at least two independent experiments, with one or two experiments performed for each group. Error bars show means ± SD with individual data points. Two‐tailed unpaired t ‐test analysis was conducted to determine statistical significance (* P < 0.05 or ** P < 0.01; N.D. = not detected).
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    A–C Primary osteoblast (OB), bone‐marrow‐derived osteoclast (BMOC), and bone‐marrow‐derived macrophage (BMDM) cells were infected with MRSA, the transcriptome expression profiles of which were analyzed with <t>RNA‐sequencing.</t> The expression of 85 genes increased in the setting of MRSA infection. Subsequently, the canonical pathways, upstream regulators, and corresponding category of carbohydrate metabolism were analyzed and are presented in a histogram. See Appendix Fig for detailed information. D Secretion of lactate, IL‐6, and TNF‐α were measured in BMDM cells infected with heat‐killed MRSA (HK‐MRSA; 4 × 10 6 CFU) for 24 h. E, F C57BL/6J mice were intraarticularly infected with different concentrations of MRSA ( n = 4 per group). (E) Physiological changes at 7 days were observed and representative images were captured. (F) mRNA expression levels of Slc2a1 and Slc16a1 were measured. G–K C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU; n = 3–4 per group) and left untreated for 24 h. (G) Representative images of physiological changes to the knee joint. (H) The amount of infiltrating immune cells in synovial fluid was quantified and detected using MRSA expressive of GFP within immune cells (Scale bar: 100 μm). See EV2 for individual images. MRSA bioburden in synovial fluid was quantified in colony‐forming units (CFU). (I) Lactate level in synovial fluid was measured and the relative luminescence intensity is shown. (J) Intraarticular inflammation including cytokines, chemokines, and growth factors was measured in synovial fluid; blue box indicates factors that changed significantly. See Appendix Fig for individual factor changes. (K) Paraffin‐embedded tissues were sectioned and used to measure inflammation score and synovial hyperplasia. GLUT1 and MCT4 expression was detected, and the percentage of positively staining cells were determined (Scale bar: 1,000 μm). L C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU) and left untreated for 14 days. Paraffin‐embedded tissues were sectioned and used to measure co‐expression and ‐localization levels of MCT4, GLUT1, IL‐1β, NLRP3, MMP3, p‐NF‐κB (Scale bar: 100 μm). See Appendix Fig for individual images. M Human cartilage and synovial tissue were infected with MRSA (4 × 10 6 CFU) for 24 h. The co‐expression and localization levels of GLUT1 and MCT4 in human cartilage tissue were measured and confirmed by line profile analysis (Scale bar: 100 μm). Expression of GLUT1, MCT4, IL‐1β, and MMP3 was measured in human synovial tissue (Scale bar: 1,000 μm). Data information: In vitro experiments were repeated at least three times with representative results. In vivo experiments were repeated in at least two independent experiments, with one or two experiments performed for each group. Error bars show means ± SD with individual data points. Two‐tailed unpaired t ‐test analysis was conducted to determine statistical significance (* P < 0.05 or ** P < 0.01; N.D. = not detected).
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    Image Search Results


    A–C Primary osteoblast (OB), bone‐marrow‐derived osteoclast (BMOC), and bone‐marrow‐derived macrophage (BMDM) cells were infected with MRSA, the transcriptome expression profiles of which were analyzed with RNA‐sequencing. The expression of 85 genes increased in the setting of MRSA infection. Subsequently, the canonical pathways, upstream regulators, and corresponding category of carbohydrate metabolism were analyzed and are presented in a histogram. See Appendix Fig for detailed information. D Secretion of lactate, IL‐6, and TNF‐α were measured in BMDM cells infected with heat‐killed MRSA (HK‐MRSA; 4 × 10 6 CFU) for 24 h. E, F C57BL/6J mice were intraarticularly infected with different concentrations of MRSA ( n = 4 per group). (E) Physiological changes at 7 days were observed and representative images were captured. (F) mRNA expression levels of Slc2a1 and Slc16a1 were measured. G–K C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU; n = 3–4 per group) and left untreated for 24 h. (G) Representative images of physiological changes to the knee joint. (H) The amount of infiltrating immune cells in synovial fluid was quantified and detected using MRSA expressive of GFP within immune cells (Scale bar: 100 μm). See EV2 for individual images. MRSA bioburden in synovial fluid was quantified in colony‐forming units (CFU). (I) Lactate level in synovial fluid was measured and the relative luminescence intensity is shown. (J) Intraarticular inflammation including cytokines, chemokines, and growth factors was measured in synovial fluid; blue box indicates factors that changed significantly. See Appendix Fig for individual factor changes. (K) Paraffin‐embedded tissues were sectioned and used to measure inflammation score and synovial hyperplasia. GLUT1 and MCT4 expression was detected, and the percentage of positively staining cells were determined (Scale bar: 1,000 μm). L C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU) and left untreated for 14 days. Paraffin‐embedded tissues were sectioned and used to measure co‐expression and ‐localization levels of MCT4, GLUT1, IL‐1β, NLRP3, MMP3, p‐NF‐κB (Scale bar: 100 μm). See Appendix Fig for individual images. M Human cartilage and synovial tissue were infected with MRSA (4 × 10 6 CFU) for 24 h. The co‐expression and localization levels of GLUT1 and MCT4 in human cartilage tissue were measured and confirmed by line profile analysis (Scale bar: 100 μm). Expression of GLUT1, MCT4, IL‐1β, and MMP3 was measured in human synovial tissue (Scale bar: 1,000 μm). Data information: In vitro experiments were repeated at least three times with representative results. In vivo experiments were repeated in at least two independent experiments, with one or two experiments performed for each group. Error bars show means ± SD with individual data points. Two‐tailed unpaired t ‐test analysis was conducted to determine statistical significance (* P < 0.05 or ** P < 0.01; N.D. = not detected).

    Journal: EMBO Molecular Medicine

    Article Title: Concurrent targeting of glycolysis in bacteria and host cell inflammation in septic arthritis

    doi: 10.15252/emmm.202115284

    Figure Lengend Snippet: A–C Primary osteoblast (OB), bone‐marrow‐derived osteoclast (BMOC), and bone‐marrow‐derived macrophage (BMDM) cells were infected with MRSA, the transcriptome expression profiles of which were analyzed with RNA‐sequencing. The expression of 85 genes increased in the setting of MRSA infection. Subsequently, the canonical pathways, upstream regulators, and corresponding category of carbohydrate metabolism were analyzed and are presented in a histogram. See Appendix Fig for detailed information. D Secretion of lactate, IL‐6, and TNF‐α were measured in BMDM cells infected with heat‐killed MRSA (HK‐MRSA; 4 × 10 6 CFU) for 24 h. E, F C57BL/6J mice were intraarticularly infected with different concentrations of MRSA ( n = 4 per group). (E) Physiological changes at 7 days were observed and representative images were captured. (F) mRNA expression levels of Slc2a1 and Slc16a1 were measured. G–K C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU; n = 3–4 per group) and left untreated for 24 h. (G) Representative images of physiological changes to the knee joint. (H) The amount of infiltrating immune cells in synovial fluid was quantified and detected using MRSA expressive of GFP within immune cells (Scale bar: 100 μm). See EV2 for individual images. MRSA bioburden in synovial fluid was quantified in colony‐forming units (CFU). (I) Lactate level in synovial fluid was measured and the relative luminescence intensity is shown. (J) Intraarticular inflammation including cytokines, chemokines, and growth factors was measured in synovial fluid; blue box indicates factors that changed significantly. See Appendix Fig for individual factor changes. (K) Paraffin‐embedded tissues were sectioned and used to measure inflammation score and synovial hyperplasia. GLUT1 and MCT4 expression was detected, and the percentage of positively staining cells were determined (Scale bar: 1,000 μm). L C57BL/6J mice were intraarticularly infected with MRSA (4 × 10 6 CFU) and left untreated for 14 days. Paraffin‐embedded tissues were sectioned and used to measure co‐expression and ‐localization levels of MCT4, GLUT1, IL‐1β, NLRP3, MMP3, p‐NF‐κB (Scale bar: 100 μm). See Appendix Fig for individual images. M Human cartilage and synovial tissue were infected with MRSA (4 × 10 6 CFU) for 24 h. The co‐expression and localization levels of GLUT1 and MCT4 in human cartilage tissue were measured and confirmed by line profile analysis (Scale bar: 100 μm). Expression of GLUT1, MCT4, IL‐1β, and MMP3 was measured in human synovial tissue (Scale bar: 1,000 μm). Data information: In vitro experiments were repeated at least three times with representative results. In vivo experiments were repeated in at least two independent experiments, with one or two experiments performed for each group. Error bars show means ± SD with individual data points. Two‐tailed unpaired t ‐test analysis was conducted to determine statistical significance (* P < 0.05 or ** P < 0.01; N.D. = not detected).

    Article Snippet: We analyzed expression levels of proteins from synovial fluid and tissue in a septic arthritis model using a single‐cell RNA‐Sequencing data set of rheumatoid arthritis patients using the Web‐based Single Cell Portal hosted by Broad Institute of MIT and Harvard.

    Techniques: Derivative Assay, Infection, Expressing, RNA Sequencing, Bioburden Testing, Staining, In Vitro, In Vivo, Two Tailed Test

    Mineralocorticoid receptor (MR) and glucocorticoid receptor (GR) messenger RNA (mRNA) levels do not predict glucocorticoid-induced leucine zipper (GILZ) mRNA expression in hippocampal glutamatergic and GABAergic neurons. Cellular MR ( Nr3c2 ), GR ( Nr3c1 ), and GILZ ( Tsc22d3 ) mRNA levels were obtained from a previously published single-cell sequencing data set of naive mouse hippocampi. All expression values are log-normalized and scaled according to the Seurat pipeline. MR and GR mRNA levels poorly predicted Tsc22d3 expression in A to F, glutamatergic neurons of the dentate gyrus (DG), CA3, and CA1 regions or in G to L, various subclasses of GABAergic neurons, that is, Vip, Sncg, and Lamp5 neurons. Data were analyzed with simple linear regression. The graphs show the 95% CI, as well as the statistical significance ( P ), slope (β), and strength ( R 2 ) of the correlations found. * P less than .05, ** P less than .01.

    Journal: Journal of the Endocrine Society

    Article Title: Do Corticosteroid Receptor mRNA Levels Predict the Expression of Their Target Genes?

    doi: 10.1210/jendso/bvac188

    Figure Lengend Snippet: Mineralocorticoid receptor (MR) and glucocorticoid receptor (GR) messenger RNA (mRNA) levels do not predict glucocorticoid-induced leucine zipper (GILZ) mRNA expression in hippocampal glutamatergic and GABAergic neurons. Cellular MR ( Nr3c2 ), GR ( Nr3c1 ), and GILZ ( Tsc22d3 ) mRNA levels were obtained from a previously published single-cell sequencing data set of naive mouse hippocampi. All expression values are log-normalized and scaled according to the Seurat pipeline. MR and GR mRNA levels poorly predicted Tsc22d3 expression in A to F, glutamatergic neurons of the dentate gyrus (DG), CA3, and CA1 regions or in G to L, various subclasses of GABAergic neurons, that is, Vip, Sncg, and Lamp5 neurons. Data were analyzed with simple linear regression. The graphs show the 95% CI, as well as the statistical significance ( P ), slope (β), and strength ( R 2 ) of the correlations found. * P less than .05, ** P less than .01.

    Article Snippet: Single-cell data were obtained from the SMART-seq single-cell RNA sequencing data set published by the Allen Institute for Brain Science [ ].

    Techniques: Expressing, Sequencing

    Mineralocorticoid receptor (MR) and glucocorticoid receptor (GR) messenger RNA (mRNA) levels do not predict Fkbp5 expression in hippocampal glutamatergic and GABAergic neurons. Cellular MR ( Nr3c2 ), GR ( Nr3c1 ), and glucocorticoid-induced leucine zipper (GILZ) ( Tsc22d3 ) mRNA levels were obtained from a previously published single-cell sequencing data set of naive mouse hippocampi. All expression values are log-normalized and scaled according to the Seurat pipeline. MR and GR mRNA levels poorly predicted Fkbp5 expression in A to F, glutamatergic neurons of the dentate gyrus (DG), CA3, and CA1 regions, or in G to L, various subclasses of GABAergic neurons, that is, Vip, Sncg, and Lamp5 neurons. Data were analyzed with simple linear regression. The graphs show the 95% CI, as well as the statistical significance ( P ), slope (β), and strength ( R 2 ) of the correlations found. * P less than .05, ** P less than .01.

    Journal: Journal of the Endocrine Society

    Article Title: Do Corticosteroid Receptor mRNA Levels Predict the Expression of Their Target Genes?

    doi: 10.1210/jendso/bvac188

    Figure Lengend Snippet: Mineralocorticoid receptor (MR) and glucocorticoid receptor (GR) messenger RNA (mRNA) levels do not predict Fkbp5 expression in hippocampal glutamatergic and GABAergic neurons. Cellular MR ( Nr3c2 ), GR ( Nr3c1 ), and glucocorticoid-induced leucine zipper (GILZ) ( Tsc22d3 ) mRNA levels were obtained from a previously published single-cell sequencing data set of naive mouse hippocampi. All expression values are log-normalized and scaled according to the Seurat pipeline. MR and GR mRNA levels poorly predicted Fkbp5 expression in A to F, glutamatergic neurons of the dentate gyrus (DG), CA3, and CA1 regions, or in G to L, various subclasses of GABAergic neurons, that is, Vip, Sncg, and Lamp5 neurons. Data were analyzed with simple linear regression. The graphs show the 95% CI, as well as the statistical significance ( P ), slope (β), and strength ( R 2 ) of the correlations found. * P less than .05, ** P less than .01.

    Article Snippet: Single-cell data were obtained from the SMART-seq single-cell RNA sequencing data set published by the Allen Institute for Brain Science [ ].

    Techniques: Expressing, Sequencing

    11βHsd1 expression weakly correlates with glucocorticoid-induced leucine zipper (GILZ) or FKBP5 messenger RNA (mRNA) expression in hippocampal glutamatergic and GABAergic neurons. Cellular 11βHSD1, GILZ, and FKBP5 mRNA levels were obtained from a previously published single-cell sequencing data set of naive mouse hippocampi. All expression values are log-normalized and scaled according to the Seurat pipeline. A to F, 11βHsd1 expression poorly predicted Tsc22d3 or Fkbp5 expression in A to F, glutamatergic neurons of the dentate gyrus (DG), CA3, and CA1 regions, or in G to L, various subclasses of GABAergic neurons, that is, Vip, Sncg, and Lamp5 neurons. Data were analyzed with simple linear regression. The graphs show the 95% CI, as well as the statistical significance ( P ), slope (β), and strength ( R 2 ) of the correlations found. * P less than .05, *** P less than .001.

    Journal: Journal of the Endocrine Society

    Article Title: Do Corticosteroid Receptor mRNA Levels Predict the Expression of Their Target Genes?

    doi: 10.1210/jendso/bvac188

    Figure Lengend Snippet: 11βHsd1 expression weakly correlates with glucocorticoid-induced leucine zipper (GILZ) or FKBP5 messenger RNA (mRNA) expression in hippocampal glutamatergic and GABAergic neurons. Cellular 11βHSD1, GILZ, and FKBP5 mRNA levels were obtained from a previously published single-cell sequencing data set of naive mouse hippocampi. All expression values are log-normalized and scaled according to the Seurat pipeline. A to F, 11βHsd1 expression poorly predicted Tsc22d3 or Fkbp5 expression in A to F, glutamatergic neurons of the dentate gyrus (DG), CA3, and CA1 regions, or in G to L, various subclasses of GABAergic neurons, that is, Vip, Sncg, and Lamp5 neurons. Data were analyzed with simple linear regression. The graphs show the 95% CI, as well as the statistical significance ( P ), slope (β), and strength ( R 2 ) of the correlations found. * P less than .05, *** P less than .001.

    Article Snippet: Single-cell data were obtained from the SMART-seq single-cell RNA sequencing data set published by the Allen Institute for Brain Science [ ].

    Techniques: Expressing, Sequencing