statistical software package r 4.2.2 Search Results


statistical software package r 4.2.2  (RStudio)
90
RStudio statistical software package r 4.2.2
Statistical Software Package R 4.2.2, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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statistical software package r 4.2.2 - by Bioz Stars, 2026-05
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stats package v.4.2.2  (RStudio)
90
RStudio stats package v.4.2.2
Stats Package V.4.2.2, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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stats package v.4.2.2 - by Bioz Stars, 2026-05
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bibliometrix-biblioshiny package  (RStudio)
90
RStudio bibliometrix-biblioshiny package
Bibliometrix Biblioshiny Package, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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package in r  (STATA Corporation)
99
STATA Corporation package in r
Package In R, supplied by STATA Corporation, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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package in r - by Bioz Stars, 2026-05
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rstudio software  (RStudio)
90
RStudio rstudio software
Rstudio Software, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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rstudio software - by Bioz Stars, 2026-05
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clusterprofiler package  (RStudio)
90
RStudio clusterprofiler package
Clusterprofiler Package, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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clusterprofiler package - by Bioz Stars, 2026-05
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sas v.9.1.3  (SAS institute)
90
SAS institute sas v.9.1.3
Sas V.9.1.3, supplied by SAS institute, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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sas v.9.1.3 - by Bioz Stars, 2026-05
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version 2022.12.0 build 353  (RStudio)
90
RStudio version 2022.12.0 build 353
Application of the Visium system to assay gene expression in mouse nasal tissues. (A) Spatial transcriptome analysis using the Visium system in bone tissue Left: HE staining of a mouse head in cross-section. Middle: Spots within the area determined to be bone areas based on morphological evaluation of the HE-stained tissue are shown in red. Scale bar = 1 mm. Right: The 25 most expressed genes in the selected spots are shown in the bar graph. Red letters indicate genes related to bone or supporting muscle. Black letters indicate other genes. The bar graph was created using the R <t>statistical</t> <t>software</t> <t>package</t> (version 4.2.2). (B) Spatial transcriptome analysis of the nasal epithelium and lymphoid tissue area using the Visium system. Left: HE staining of a mouse head in cross-section. Scale bar = 1 mm. Middle: Spots within areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes are shown in red. Right: The 25 most expressed genes in the selected spots are shown in bar graph. Red letters indicate genes that are related to nasal functions (e.g., olfaction). Blue letters indicate genes related to the immune system. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (C) Chart of areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes. A total of 18,404 genes were identified as being expressed in nasal epithelium and lymphoid tissue-associated spots based on log2 fold changes and median normalized average. The chart was created using the R statistical software package (version 4.2.2). Horizontal axis: Median normalized average of gene expression levels for each selected spot. Vertical axis: Log2 fold changes in gene expression levels for selected spots. Log2 fold changes ≥ 1 are indicated by yellow dots, log2 fold changes ≤-1 are indicated by violet dots, and all others are indicated by gray dots. Averages of the top five most expressed genes and genes related to olfactory function are indicated by red letters; genes related to immune function are indicated by blue letters. Up, upregulated; Down, downregulated; NS, not significant.
Version 2022.12.0 Build 353, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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version 2022.12.0 build 353 - by Bioz Stars, 2026-05
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r software package version 4.2.2  (RStudio)
90
RStudio r software package version 4.2.2
Application of the Visium system to assay gene expression in mouse nasal tissues. (A) Spatial transcriptome analysis using the Visium system in bone tissue Left: HE staining of a mouse head in cross-section. Middle: Spots within the area determined to be bone areas based on morphological evaluation of the HE-stained tissue are shown in red. Scale bar = 1 mm. Right: The 25 most expressed genes in the selected spots are shown in the bar graph. Red letters indicate genes related to bone or supporting muscle. Black letters indicate other genes. The bar graph was created using the R <t>statistical</t> <t>software</t> <t>package</t> (version 4.2.2). (B) Spatial transcriptome analysis of the nasal epithelium and lymphoid tissue area using the Visium system. Left: HE staining of a mouse head in cross-section. Scale bar = 1 mm. Middle: Spots within areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes are shown in red. Right: The 25 most expressed genes in the selected spots are shown in bar graph. Red letters indicate genes that are related to nasal functions (e.g., olfaction). Blue letters indicate genes related to the immune system. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (C) Chart of areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes. A total of 18,404 genes were identified as being expressed in nasal epithelium and lymphoid tissue-associated spots based on log2 fold changes and median normalized average. The chart was created using the R statistical software package (version 4.2.2). Horizontal axis: Median normalized average of gene expression levels for each selected spot. Vertical axis: Log2 fold changes in gene expression levels for selected spots. Log2 fold changes ≥ 1 are indicated by yellow dots, log2 fold changes ≤-1 are indicated by violet dots, and all others are indicated by gray dots. Averages of the top five most expressed genes and genes related to olfactory function are indicated by red letters; genes related to immune function are indicated by blue letters. Up, upregulated; Down, downregulated; NS, not significant.
R Software Package Version 4.2.2, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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r software package version 4.2.2 - by Bioz Stars, 2026-05
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simplepci mta software package  (Compix Inc)
90
Compix Inc simplepci mta software package
Application of the Visium system to assay gene expression in mouse nasal tissues. (A) Spatial transcriptome analysis using the Visium system in bone tissue Left: HE staining of a mouse head in cross-section. Middle: Spots within the area determined to be bone areas based on morphological evaluation of the HE-stained tissue are shown in red. Scale bar = 1 mm. Right: The 25 most expressed genes in the selected spots are shown in the bar graph. Red letters indicate genes related to bone or supporting muscle. Black letters indicate other genes. The bar graph was created using the R <t>statistical</t> <t>software</t> <t>package</t> (version 4.2.2). (B) Spatial transcriptome analysis of the nasal epithelium and lymphoid tissue area using the Visium system. Left: HE staining of a mouse head in cross-section. Scale bar = 1 mm. Middle: Spots within areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes are shown in red. Right: The 25 most expressed genes in the selected spots are shown in bar graph. Red letters indicate genes that are related to nasal functions (e.g., olfaction). Blue letters indicate genes related to the immune system. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (C) Chart of areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes. A total of 18,404 genes were identified as being expressed in nasal epithelium and lymphoid tissue-associated spots based on log2 fold changes and median normalized average. The chart was created using the R statistical software package (version 4.2.2). Horizontal axis: Median normalized average of gene expression levels for each selected spot. Vertical axis: Log2 fold changes in gene expression levels for selected spots. Log2 fold changes ≥ 1 are indicated by yellow dots, log2 fold changes ≤-1 are indicated by violet dots, and all others are indicated by gray dots. Averages of the top five most expressed genes and genes related to olfactory function are indicated by red letters; genes related to immune function are indicated by blue letters. Up, upregulated; Down, downregulated; NS, not significant.
Simplepci Mta Software Package, supplied by Compix Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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simplepci mta software package - by Bioz Stars, 2026-05
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ggtree36 package  (RStudio)
90
RStudio ggtree36 package
Application of the Visium system to assay gene expression in mouse nasal tissues. (A) Spatial transcriptome analysis using the Visium system in bone tissue Left: HE staining of a mouse head in cross-section. Middle: Spots within the area determined to be bone areas based on morphological evaluation of the HE-stained tissue are shown in red. Scale bar = 1 mm. Right: The 25 most expressed genes in the selected spots are shown in the bar graph. Red letters indicate genes related to bone or supporting muscle. Black letters indicate other genes. The bar graph was created using the R <t>statistical</t> <t>software</t> <t>package</t> (version 4.2.2). (B) Spatial transcriptome analysis of the nasal epithelium and lymphoid tissue area using the Visium system. Left: HE staining of a mouse head in cross-section. Scale bar = 1 mm. Middle: Spots within areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes are shown in red. Right: The 25 most expressed genes in the selected spots are shown in bar graph. Red letters indicate genes that are related to nasal functions (e.g., olfaction). Blue letters indicate genes related to the immune system. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (C) Chart of areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes. A total of 18,404 genes were identified as being expressed in nasal epithelium and lymphoid tissue-associated spots based on log2 fold changes and median normalized average. The chart was created using the R statistical software package (version 4.2.2). Horizontal axis: Median normalized average of gene expression levels for each selected spot. Vertical axis: Log2 fold changes in gene expression levels for selected spots. Log2 fold changes ≥ 1 are indicated by yellow dots, log2 fold changes ≤-1 are indicated by violet dots, and all others are indicated by gray dots. Averages of the top five most expressed genes and genes related to olfactory function are indicated by red letters; genes related to immune function are indicated by blue letters. Up, upregulated; Down, downregulated; NS, not significant.
Ggtree36 Package, supplied by RStudio, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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ggtree36 package - by Bioz Stars, 2026-05
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software package image gauge version 4.22  (FUJIFILM)
90
FUJIFILM software package image gauge version 4.22
Application of the Visium system to assay gene expression in mouse nasal tissues. (A) Spatial transcriptome analysis using the Visium system in bone tissue Left: HE staining of a mouse head in cross-section. Middle: Spots within the area determined to be bone areas based on morphological evaluation of the HE-stained tissue are shown in red. Scale bar = 1 mm. Right: The 25 most expressed genes in the selected spots are shown in the bar graph. Red letters indicate genes related to bone or supporting muscle. Black letters indicate other genes. The bar graph was created using the R <t>statistical</t> <t>software</t> <t>package</t> (version 4.2.2). (B) Spatial transcriptome analysis of the nasal epithelium and lymphoid tissue area using the Visium system. Left: HE staining of a mouse head in cross-section. Scale bar = 1 mm. Middle: Spots within areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes are shown in red. Right: The 25 most expressed genes in the selected spots are shown in bar graph. Red letters indicate genes that are related to nasal functions (e.g., olfaction). Blue letters indicate genes related to the immune system. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (C) Chart of areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes. A total of 18,404 genes were identified as being expressed in nasal epithelium and lymphoid tissue-associated spots based on log2 fold changes and median normalized average. The chart was created using the R statistical software package (version 4.2.2). Horizontal axis: Median normalized average of gene expression levels for each selected spot. Vertical axis: Log2 fold changes in gene expression levels for selected spots. Log2 fold changes ≥ 1 are indicated by yellow dots, log2 fold changes ≤-1 are indicated by violet dots, and all others are indicated by gray dots. Averages of the top five most expressed genes and genes related to olfactory function are indicated by red letters; genes related to immune function are indicated by blue letters. Up, upregulated; Down, downregulated; NS, not significant.
Software Package Image Gauge Version 4.22, supplied by FUJIFILM, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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software package image gauge version 4.22 - by Bioz Stars, 2026-05
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Image Search Results


Application of the Visium system to assay gene expression in mouse nasal tissues. (A) Spatial transcriptome analysis using the Visium system in bone tissue Left: HE staining of a mouse head in cross-section. Middle: Spots within the area determined to be bone areas based on morphological evaluation of the HE-stained tissue are shown in red. Scale bar = 1 mm. Right: The 25 most expressed genes in the selected spots are shown in the bar graph. Red letters indicate genes related to bone or supporting muscle. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (B) Spatial transcriptome analysis of the nasal epithelium and lymphoid tissue area using the Visium system. Left: HE staining of a mouse head in cross-section. Scale bar = 1 mm. Middle: Spots within areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes are shown in red. Right: The 25 most expressed genes in the selected spots are shown in bar graph. Red letters indicate genes that are related to nasal functions (e.g., olfaction). Blue letters indicate genes related to the immune system. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (C) Chart of areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes. A total of 18,404 genes were identified as being expressed in nasal epithelium and lymphoid tissue-associated spots based on log2 fold changes and median normalized average. The chart was created using the R statistical software package (version 4.2.2). Horizontal axis: Median normalized average of gene expression levels for each selected spot. Vertical axis: Log2 fold changes in gene expression levels for selected spots. Log2 fold changes ≥ 1 are indicated by yellow dots, log2 fold changes ≤-1 are indicated by violet dots, and all others are indicated by gray dots. Averages of the top five most expressed genes and genes related to olfactory function are indicated by red letters; genes related to immune function are indicated by blue letters. Up, upregulated; Down, downregulated; NS, not significant.

Journal: Frontiers in Immunology

Article Title: Application of spatial transcriptomics analysis using the Visium system for the mouse nasal cavity after intranasal vaccination

doi: 10.3389/fimmu.2023.1209945

Figure Lengend Snippet: Application of the Visium system to assay gene expression in mouse nasal tissues. (A) Spatial transcriptome analysis using the Visium system in bone tissue Left: HE staining of a mouse head in cross-section. Middle: Spots within the area determined to be bone areas based on morphological evaluation of the HE-stained tissue are shown in red. Scale bar = 1 mm. Right: The 25 most expressed genes in the selected spots are shown in the bar graph. Red letters indicate genes related to bone or supporting muscle. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (B) Spatial transcriptome analysis of the nasal epithelium and lymphoid tissue area using the Visium system. Left: HE staining of a mouse head in cross-section. Scale bar = 1 mm. Middle: Spots within areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes are shown in red. Right: The 25 most expressed genes in the selected spots are shown in bar graph. Red letters indicate genes that are related to nasal functions (e.g., olfaction). Blue letters indicate genes related to the immune system. Black letters indicate other genes. The bar graph was created using the R statistical software package (version 4.2.2). (C) Chart of areas that have been morphologically evaluated based on HE-stained tissue sections and determined to contain lymphocytes. A total of 18,404 genes were identified as being expressed in nasal epithelium and lymphoid tissue-associated spots based on log2 fold changes and median normalized average. The chart was created using the R statistical software package (version 4.2.2). Horizontal axis: Median normalized average of gene expression levels for each selected spot. Vertical axis: Log2 fold changes in gene expression levels for selected spots. Log2 fold changes ≥ 1 are indicated by yellow dots, log2 fold changes ≤-1 are indicated by violet dots, and all others are indicated by gray dots. Averages of the top five most expressed genes and genes related to olfactory function are indicated by red letters; genes related to immune function are indicated by blue letters. Up, upregulated; Down, downregulated; NS, not significant.

Article Snippet: A volcano-plot was created using the R statistical software package (version 4.2.2, R Core Team (2022); Vienna, Austria) and RStudio (version 2022.12.0, Build 353, RStudio Inc., Boston, Massachusetts).

Techniques: Gene Expression, Staining, Software